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8fyj

Structure of HIV-1 BG505 SOSIP-HT2 in complex with two CD4 molecules (class I)

Method: ELECTRON MICROSCOPY Dmax: 169.9 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Envelope glycoprotein gp160

Human immunodeficiency virus 1

UniProt Q2N0S5

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 8 其他Polymer 9 PDB declaration: octameric（8） Consistent with protein copy count Chain A； UniProt 32–505 Chain B； UniProt 32–505 Chain C； UniProt 32–505 Mutation：D368R Envelope glycoprotein gp41 × 3 （Q2N0S6） T-cell surface glycoprotein CD4 × 2 （P01730） ;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 3 ;alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 4 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ELECTRON MICROSCOPY cryo-EM buffer：pH 8 cryo-EM vitrification conditions：Cryogen ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8FYJ Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
4TVP Crystal Structure of the HIV-1 BG505 SOSIP.664 Env Trimer Ectodomain, Comprising Atomic-Level Definition of Pre-Fusion gp120 and gp41, in Complex with Human Antibodies PGT122 and 35O22 Deposited 2014-06-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–505（476 aa） Fragment：UNP residues 30-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 SO4 SULFATE ION × 30 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；16% isopropanol, 5.32% PEG1500, 0.2M LiSO4, 0.1M Sodium acetate pH 5.5
Resolution 3.10 Å R-free 0.248
5U7M Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-378806 in Complex with Human Antibodies PGT122 and 35O22 at 3.8 Angstrom Deposited 2016-12-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-505
Not recorded SO4 SULFATE ION × 5 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 83G 1-[(2R)-4-(benzenecarbonyl)-2-methylpiperazin-1-yl]-2-(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)ethane-1,2-dione × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；6% ISOPROPANOL, 5.32% PEG1500, 0.2M LISO4, 0.1M SODIUM ACETATE PH 5.5
Resolution 3.02 Å R-free 0.289
5U7O Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-626529 in Complex with Human Antibodies PGT122 and 35O22 at 3.8 Angstrom Deposited 2016-12-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded SO4 SULFATE ION × 5 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 83J 1-[4-(benzenecarbonyl)piperazin-1-yl]-2-[4-methoxy-7-(3-methyl-1H-1,2,4-triazol-1-yl)-1H-pyrrolo[2,3-c]pyridin-3-yl]ethane-1,2-dione × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；16% ISOPROPANOL, 5.32% PEG1500, 0.2M LISO4, 0.1M SODIUM ACETATE PH 5.5
Resolution 3.03 Å R-free 0.325
6CDE Cryo-EM structure at 3.8 A resolution of vaccine-elicited antibody vFP20.01 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain c 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 MAN alpha-D-mannopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6CDI Cryo-EM structure at 3.6 A resolution of vaccine-elicited antibody vFP16.02 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain d 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å
6CE0 Crystal structure of a HIV-1 clade B tier-3 isolate H078.14 UFO-BG Env trimer in complex with broadly neutralizing Fabs PGT124 and 35O22 at 4.6 Angstrom Deposited 2018-02-09 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 567–661（95 aa）
Mutation：T602C,T602C,T602C,T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.4；277.15 K；0.1 Tris (pH 7.4), 0.2 M lithium sulfate, 6% (w/v) polyethylene glycol 4000
Resolution 4.60 Å R-free 0.341
6CM3 BG505 SOSIP in complex with sCD4, 17b, 8ANC195 Deposited 2018-03-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain D 30–508（479 aa）
Chain E 30–508（479 aa）
Chain F 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 3.54 Å
6CRQ Glutaraldehyde-treated BG505 SOSIP.664 Env in complex with PGV04 Fab Deposited 2018-03-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 31–505（475 aa）
Chain B 31–505（475 aa）
Chain F 31–505（475 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；50 mM Tris, 150 mM NaCl, 0.3 mM DDM.
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6DFH BG505 MD64 N332-GT2 SOSIP trimer in complex with germline-reverted BG18 fragment antigen binding Deposited 2018-05-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE；5 second blot time
Resolution 3.85 Å
6UDA Cryo-EM structure of CH235UCA bound to Man5-enriched CH505.N279K.G458Y.SOSIP.664 Deposited 2019-09-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain F 508–661（154 aa）
Chain J 508–661（154 aa）
Chain Z 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6VY2 Cryo-EM structure of M1214_N1 Fab in complex with CH505 TF chimeric SOSIP.664 Env trimer Deposited 2020-02-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 508–661（154 aa）
Chain D 508–661（154 aa）
Chain F 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.86 Å
7KLC Crystal structure of M4H2K1 Fab bound to HIV-1 BG505 gp120 core and to 17b Fab Deposited 2020-10-29 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 5 PDB declaration: pentameric
Chain A 43–126（84 aa） Fragment：UNP residues 43-126,194-489,UNP residues 43-126,194-489,UNP residues 43-126,194-489,UNP residues 43-126,194-489
Chain A 194–489（296 aa） Fragment：UNP residues 43-126,194-489,UNP residues 43-126,194-489,UNP residues 43-126,194-489,UNP residues 43-126,194-489
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293.15 K；0.1M Tris, pH 7, 1.825 M ammonium sulfate, 0.29 M lithium sulfate, 15% ethylene glycol
Resolution 4.30 Å R-free 0.334
7L8E BG505 SOSIP.v5.2(7S) in complex with the polyclonal Fab pAbC-1 from animal Rh.33172 (Wk38 time point) Deposited 2020-12-31 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain B 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain C 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain D 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain E 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain F 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 44 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；TBS buffer prepared from a 10X stock
cryo-EM vitrification conditions Cryogen ETHANE；Blotting time varied between 3 and 7 seconds.
Resolution 4.20 Å
7L8F BG505 SOSIP.v5.2(7S) in complex with the polyclonal Fab pAbC-2 from animal Rh.33172 (Wk38 time point) Deposited 2020-12-31 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain B 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain C 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain D 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain E 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain F 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 49 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；TBS buffer prepared from a 10X stock
cryo-EM vitrification conditions Cryogen ETHANE；Blotting time varied between 3 and 7 seconds.
Resolution 3.66 Å
7L8G BG505 SOSIP.v5.2(7S) in complex with the polyclonal Fab pAbC-3 from animal Rh.33172 (Wk38 time point) Deposited 2020-12-31 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain B 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain C 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain D 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain E 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Chain F 30–661（632 aa） Fragment：GP120 domain, residues 30-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 39 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；TBS buffer prepared from a 10X stock
cryo-EM vitrification conditions Cryogen ETHANE；Blotting time varied between 3 and 7 seconds.
Resolution 4.30 Å
7T9T Cryo-EM structure of CH235.12 in complex with HIV-1 Env trimer CH505TF.N279K.SOSIP.664 with complex glycans Deposited 2021-12-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 508–661（154 aa）
Chain F 508–661（154 aa）
Chain J 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；Blot for 2.5 S before plunging
Resolution 3.70 Å
7TCN Cryo-EM structure of CH235.12 in complex with HIV-1 Env trimer CH505TF.N279K.SOSIP.664 with high-mannose glycans Deposited 2021-12-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 508–661（154 aa）
Chain F 508–661（154 aa）
Chain J 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 MAN alpha-D-mannopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；BLOT FOR 2.5 S BEFORE PLUNGING
Resolution 4.10 Å
7TCO Cryo-EM structure of CH235.12 in complex with HIV-1 Env trimer CH505TF.N279K.G458Y.SOSIP.664 with high-mannose glycans Deposited 2021-12-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 508–661（154 aa）
Chain F 508–661（154 aa）
Chain N 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；BLOT FOR 2.5 S BEFORE PLUNGING
Resolution 4.19 Å
7UGN Cryo-EM structure of BG24 inferred germline Fabs with germline CDR3s and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 - Class 1 Deposited 2022-03-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 31–503（473 aa）
Chain B 31–503（473 aa）
Chain C 31–503（473 aa）
Chain D 515–661（147 aa）
Chain E 515–661（147 aa）
Chain F 515–661（147 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 MAN alpha-D-mannopyranose × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
7UGO Cryo-EM structure of BG24 inferred germline Fabs with mature CDR3s and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 Deposited 2022-03-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 31–503（473 aa）
Chain B 31–503（473 aa）
Chain C 31–503（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 MAN alpha-D-mannopyranose × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
7UGP Cryo-EM structure of BG24 Fabs with an inferred germline light chain and 10-1074 Fabs in complex with HIV-1 Env immunogen BG505-SOSIPv4.1-GT1 containing the N276 gp120 glycan- Class 1 Deposited 2022-03-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 31–503（473 aa）
Chain B 31–503（473 aa）
Chain C 31–503（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
8C8T cryo-EM structure of BG505 SOSIP.664 HIV-1 Env trimer in complex with bNAbs EPTC112 and 3BNC117 Deposited 2023-01-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 33–501（469 aa）
Chain F 33–501（469 aa）
Chain G 33–501（469 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
8FYI Structure of HIV-1 BG505 SOSIP-HT1 in complex with one CD4 molecule Deposited 2023-01-26 Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: heptameric
Chain A 32–505（474 aa）
Chain B 32–505（474 aa）
Chain C 32–505（474 aa）
Mutation：D368R Mutation：D368R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 35 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8TKC CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-b.01 FAB Deposited 2023-07-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
8TL2 CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-c.01 FAB Deposited 2023-07-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
8TL3 CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-d.01 FAB Deposited 2023-07-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
8TL4 CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-e.01 FAB Deposited 2023-07-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
8TL5 CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-c.01 FAB Deposited 2023-07-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
8TNU Cryo-EM structure of TRNM-b*01 Fab in complex with HIV-1 Env trimer BG505.DS SOSIP Deposited 2023-08-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain E 30–508（479 aa）
Chain F 30–508（479 aa）
Chain G 30–508（479 aa）
Chain X 509–661（153 aa）
Chain Y 509–661（153 aa）
Chain Z 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 37 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.36 Å
8TO7 Cryo-EM structure of HERH-b*01 Fab in complex with HIV-1 Env trimer BG505.DS SOSIP Deposited 2023-08-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain D 30–508（479 aa）
Chain E 30–508（479 aa）
Chain F 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.39 Å
8TQ1 HIV-1 BG505 Env SOSIP in complex with bovine Fab Bess4 and non-human primate Fab RM20A3 Deposited 2023-08-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: 13-meric
Chain B 509–661（153 aa）
Chain F 509–661（153 aa）
Chain K 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
8TTW Cryo-EM structure of BG505 SOSIP.664 HIV-1 Env trimer in complex with temsavir, 8ANC195, and 10-1074 Deposited 2023-08-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa）
Chain F 509–661（153 aa）
Chain J 509–661（153 aa）
Mutation：I559P T605C Mutation：I559P T605C Mutation：I559P T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 83J 1-[4-(benzenecarbonyl)piperazin-1-yl]-2-[4-methoxy-7-(3-methyl-1H-1,2,4-triazol-1-yl)-1H-pyrrolo[2,3-c]pyridin-3-yl]ethane-1,2-dione × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.96 Å
8ULR Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 05_B08 Fabs Deposited 2023-10-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.30 Å
8ULS Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 01_D03 Fabs Deposited 2023-10-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.20 Å
8ULT Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 04_A06 Fabs Deposited 2023-10-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 29 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.80 Å
8ULU Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 04_A06 and PGDM1400 Fabs Deposited 2023-10-16 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: 14-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.80 Å
9D7O Cryo-EM structure of BG505 DS-SOSIP.664 with 1 CH103 Fab bound Deposited 2024-08-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 9–501（493 aa）
Chain B 502–661（160 aa）
Chain C 9–501（493 aa）
Chain D 502–661（160 aa）
Chain E 9–501（493 aa）
Chain F 502–661（160 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；Leica EM GP2
Resolution 3.56 Å
9D8V Cryo-EM structure of the BG505 SOSIPv2 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 32–501（470 aa） Fragment：UNP residues 32-501
Chain B 516–661（146 aa） Fragment：UNP residues 516-661
Chain C 32–501（470 aa） Fragment：UNP residues 32-501
Chain D 516–661（146 aa） Fragment：UNP residues 516-661
Chain E 32–501（470 aa） Fragment：UNP residues 32-501
Chain F 516–661（146 aa） Fragment：UNP residues 516-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 29 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 2.90 Å
9D8Y Cryo-EM structure of HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-VRC34.01 Fab with one gp120 rotated, Population 4 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain A 32–500（469 aa）
Chain B 32–500（469 aa）
Chain C 32–500（469 aa）
Mutation：T332N, A501C Mutation：T332N, A501C Mutation：T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.06 Å
9D90 Cryo-EM structure of partially open HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-17b Fab and 3-VRC34.01 Fab, Population 1 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain A 32–500（469 aa）
Chain B 32–500（469 aa）
Chain C 32–500（469 aa）
Chain D 509–657（149 aa）
Chain E 509–657（149 aa）
Chain F 509–657（149 aa）
Mutation：T332N, A501C Mutation：T332N, A501C Mutation：T332N, A501C Mutation：I559P, T605C Mutation：I559P, T605C Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.91 Å
9D98 Cryo-EM structure of HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-VRC34.01 Fab with two gp120 protomers rotated, Population 5 Deposited 2024-08-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain A 32–500（469 aa）
Chain B 32–500（469 aa）
Chain C 32–500（469 aa）
Chain D 509–661（153 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Mutation：T332N, A501C Mutation：T332N, A501C Mutation：T332N, A501C Mutation：I559P, T605C Mutation：I559P, T605C Mutation：I559P, T605C No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.19 Å
9DMB Rhesus RHA10.01 Fab in complex with HIV-1 Env BG505 DS-SOSIP trimer Deposited 2024-09-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain E 509–661（153 aa）
Chain I 509–661（153 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.27 Å
9EHL Structure of HIV-1 BG505 SOSIP.664 Env trimer in complex with IOMAmin5 and 10-1074 Broadly Neutralizing Antibodies - Class I Deposited 2024-11-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 32–505（474 aa） Fragment：UNP residues 32-505
Chain B 32–505（474 aa） Fragment：UNP residues 32-505
Chain C 32–505（474 aa） Fragment：UNP residues 32-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Mutation：T326N,A494C Mutation：T326N,A494C Mutation：T326N,A494C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
9EHM Structure of HIV-1 BG505 SOSIP.664 Env trimer in complex with IOMAmin5 and 10-1074 Broadly Neutralizing Antibodies - Class II Deposited 2024-11-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 16 PDB declaration: hexadecameric
Chain A 32–505（474 aa） Fragment：UNP residues 32-505
Chain B 32–505（474 aa） Fragment：UNP residues 32-505
Chain C 32–505（474 aa） Fragment：UNP residues 32-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Mutation：T326N,A494C Mutation：T326N,A494C Mutation：T326N,A494C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 29 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9P6E N49P7-FR Fab in complex with BG505 MD39 SOSIP and RM20A3 Fab Deposited 2025-06-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain A 30–510（481 aa）
Chain C 30–510（481 aa）
Chain E 30–510（481 aa）
Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 5.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
9P6G eN49P7-FRv1-23 Fab in complex with BG505 MD39 SOSIP and RM20A3 Fab Deposited 2025-06-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain A 30–510（481 aa）
Chain C 30–510（481 aa）
Chain E 30–510（481 aa）
Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R Mutation：T105E, M270I, F287L, R303V, A316Y, T330N, N361Q, A498C, E506R, K507R, A509R, V510R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 5.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
9PIT HIV-1 bnAb 1-23 in complex with BG505 MD39 SOSIP and RM19R Deposited 2025-07-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain B 30–510（481 aa）
Chain E 30–510（481 aa）
Chain F 30–510（481 aa）
Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
9PIV HIV-1 bnAb 9-71 in complex with BG505 MD39 SOSIP and RM19R Deposited 2025-07-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain B 30–510（481 aa）
Chain E 30–510（481 aa）
Chain F 30–510（481 aa）
Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R Mutation：T106E, M271I, F288L, R304V, A319Y, T332N, N363Q, A501C, E509R, K510R, A512R, V513R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
9Q09 Cryo-EM structure of PGT121 Fab and Rhesus macaque Ab76 Fab in complex with HIV-1 Env trimer BG505 SOSIP.664 Deposited 2025-08-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain G 30–508（479 aa）
Chain I 30–508（479 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；1X PBS buffer
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.23 Å
9Q0W Cryo-EM Structure of HIV-1 BG505DS-SOSIP.664 Env Trimer Bound to DFPH-a.01_10R59P_LC Fab Deposited 2025-08-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
9Q3S Cryo-EM structure of PGT121 Fab and Rhesus macaque Ab4 Fab in complex with HIV-1 Env trimer BG505 SOSIP.664 Deposited 2025-08-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain G 30–508（479 aa）
Chain I 30–508（479 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.01 Å
9Q3X The CryoEM structure of Rhesus macaque 1G3 and PGT121 Fabs in complex with BG505 SOSIP.664 Deposited 2025-08-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain G 30–508（479 aa）
Chain I 30–508（479 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；phosphate buffered saline
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.64 Å
9Y9V THE CRYOEM STRUCTURE OF RHESUS MACAQUE 1A8 AND PGT121 FABS IN COMPLEX WITH BG505 SOSIP.664. Deposited 2025-09-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain G 30–508（479 aa）
Chain I 30–508（479 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.98 Å

53 other PDB entries and 53 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q2N0S5_9HIV1
Isoform —
PDB entities 1, 2
Chains and sequence ranges Author chain A； PDBConstruct 1–474； UniProt 32–505 Author chain B； PDBConstruct 1–474； UniProt 32–505 Author chain C； PDBConstruct 1–474； UniProt 32–505

Envelope glycoprotein gp41

Human immunodeficiency virus 1

UniProt Q2N0S6

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 8 其他Polymer 9 PDB declaration: octameric（8） Consistent with protein copy count Chain D； UniProt 509–661 Chain E； UniProt 509–661 Chain F； UniProt 509–661 Not recorded Envelope glycoprotein gp160 × 2 （Q2N0S5） Envelope glycoprotein gp160 × 1 （Q2N0S5） T-cell surface glycoprotein CD4 × 2 （P01730） ;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 3 ;alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 4 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ELECTRON MICROSCOPY cryo-EM buffer：pH 8 cryo-EM vitrification conditions：Cryogen ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8FYJ Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
3J5M Cryo-EM structure of the BG505 SOSIP.664 HIV-1 Env trimer with 3 PGV04 Fabs Deposited 2013-10-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa） Fragment：UNP residues 30-504
Chain E 30–504（475 aa） Fragment：UNP residues 30-504
Chain I 30–504（475 aa） Fragment：UNP residues 30-504
Mutation：T332N,A501C Mutation：T332N,A501C Mutation：T332N,A501C No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer TBS；pH 7.5；TBS
cryo-EM vitrification conditions Specimen was prepared for cryo-EM by applying 3 microliters of sample to a freshly plasma cleaned holey carbon C-flat grid (Protochips, Inc.), allowing the sample to adsorb to the grid for 30 seconds, followed by blotting with a small piece of filter paper and plunge-freezing into liquid ethane using a manual cryo-plunger in an ambient environment (4 C).；Cryogen ETHANE；3 uL sample applied to grid, adsorbed for 30 seconds, blotted, and plunge-frozen in liquid ethane
Resolution 5.80 Å
4NCO Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with the Broadly Neutralizing Fab PGT122 Deposited 2013-10-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa） Fragment：UNP residues 30-504
Chain E 30–504（475 aa） Fragment：UNP residues 30-504
Chain I 30–504（475 aa） Fragment：UNP residues 30-504
Mutation：T332N,A501C Mutation：T332N,A501C Mutation：T332N,A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 10.5；293 K；0.1 M CAPS, 2 M ammonium sulfate, 0.2 M lithium sulfate, pH 10.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 4.70 Å R-free 0.389
4ZMJ Crystal Structure of Ligand-Free BG505 SOSIP.664 HIV-1 Env Trimer Deposited 2015-05-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain B 509–661（153 aa）
Chain G 30–504（475 aa）
Mutation：I559P, T605C Mutation：T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；26% PEG 400, 3.2% PEG 3350, and 0.1M sodium acetate pH 5.5
Resolution 3.31 Å R-free 0.285
5ACO Cryo-EM structure of PGT128 Fab in complex with BG505 SOSIP.664 Env trimer Deposited 2015-08-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：GP120, RESIDUES 30-505
Chain B 509–661（153 aa） Fragment：GP41, RESIDUES 509-661
Chain C 30–505（476 aa） Fragment：GP120, RESIDUES 30-505
Chain D 30–505（476 aa） Fragment：GP120, RESIDUES 30-505
Chain E 509–661（153 aa） Fragment：GP41, RESIDUES 509-661
Chain F 509–661（153 aa） Fragment：GP41, RESIDUES 509-661
Mutation：YES Mutation：YES Mutation：YES Mutation：YES Mutation：YES Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer 50 MM TRIS, 150 MM NACL, 0.675 MM DDM；pH 7.4；50 MM TRIS, 150 MM NACL, 0.675 MM DDM
cryo-EM vitrification conditions Cryogen ETHANE；FROZEN IN LIQUID ETHANE AT 4 DEGREES C.
Resolution 4.36 Å
5C7K Crystal structure BG505 SOSIP gp140 HIV-1 Env trimer bound to broadly neutralizing antibodies PGT128 and 8ANC195 Deposited 2015-06-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain C 30–507（478 aa） Fragment：UNP Residues 30-507
Chain D 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；280 K；0.05 M lithium sulfate, 0.05 M sodium sulfate, 26% (w/v) PEG 400 and 0.1 M Tris-HCl pH 8.3
Resolution 4.60 Å R-free 0.295
5CEZ Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with an early putative precursor of the PGT121 family at 3.0 Angstrom Deposited 2015-07-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain G 31–508（478 aa） Fragment：UNP residues 31-505
Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 MAN alpha-D-mannopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.2 M CaCl2, 28% (v/v) PEG 400 and 0.1 M Hepes pH 7.5
Resolution 3.03 Å R-free 0.266
5CEZ Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with an early putative precursor of the PGT121 family at 3.0 Angstrom Deposited 2015-07-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 MAN alpha-D-mannopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.2 M CaCl2, 28% (v/v) PEG 400 and 0.1 M Hepes pH 7.5
Resolution 3.03 Å R-free 0.266
5CJX Crystal structure of 8ANC195 Fab in complex with BG505 SOSIP.664 HIV-1 Env trimer Deposited 2015-07-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 32–505（474 aa） Fragment：UNP residues 32-505
Chain J 509–661（153 aa） Fragment：UNP residues 509-661
Chain K 32–505（474 aa） Fragment：UNP residues 32-505
Chain X 509–661（153 aa） Fragment：UNP residues 509-661
Chain Y 32–505（474 aa） Fragment：UNP residues 32-505
Mutation：I559P, T605C Mutation：T332N, A501C Mutation：I559P, T605C Mutation：T332N, A501C Mutation：I559P, T605C Mutation：T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 8；298 K；0.1 M Tris, pH 8.0, 15% PEG3350, 2% v/v 1,4-dioxane
Resolution 3.58 Å R-free 0.286
5D9Q Crystal Structure of the BG505 SOSIP gp140 HIV-1 Env trimer in Complex with the Broadly Neutralizing Fab PGT122 and scFv NIH45-46 Deposited 2015-08-18 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain A 30–501（472 aa）
Chain G 30–501（472 aa）
Chain J 30–501（472 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；2.4 M ammonium sulfate, 0.1 M Tris, pH 8.0
Resolution 4.40 Å R-free 0.320
5FYL Crystal Structure at 3.7 A Resolution of Fully Glycosylated HIV-1 Clade A BG505 SOSIP.664 Prefusion Env Trimer in Complex with Broadly Neutralizing Antibodies PGT122 and 35O22 Deposited 2016-03-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：GP120 ENV ECTODOMAIN
Chain G 30–505（476 aa） Fragment：GP120 ENV ECTODOMAIN
Mutation：YES Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.5；0.18 M LI2SO4, 4.79% PEG 1500, 14.4% ISOPROPANOL, 10 MM YTTRIUM CHLORIDE, 0.09 M SODIUM ACETATE PH 5.5
Resolution 3.10 Å R-free 0.307
5I8H Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer in Complex with V3 Loop-targeting Antibody PGT122 Fab and Fusion Peptide-targeting Antibody VRC34.01 Fab Deposited 2016-02-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；0.5M Sodium Chloride, 0.1M Tris-HCl pH8.5, 5% PEG 8000 and 20% 2-methyl-2, 4- pentanediol
Resolution 4.30 Å R-free 0.309
5I8H Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer in Complex with V3 Loop-targeting Antibody PGT122 Fab and Fusion Peptide-targeting Antibody VRC34.01 Fab Deposited 2016-02-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；0.5M Sodium Chloride, 0.1M Tris-HCl pH8.5, 5% PEG 8000 and 20% 2-methyl-2, 4- pentanediol
Resolution 4.30 Å R-free 0.309
5T3S HIV gp140 trimer MD39-10MUTA in complex with Fabs PGT124 and 35022 Deposited 2016-08-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa）
Chain G 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.1；277 K；5% Peg6000 0.1M citric acid
Resolution 4.50 Å R-free 0.309
5T3X 3.9 Angstrom Crystal Structure of a Fully and Natively Glycosylated BG505 SOSIP.664 HIV-1 Env Trimer in Complex with the Broadly Neutralizing Antibodies IOMA and 10-1074. Deposited 2016-08-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-611
Chain G 30–508（479 aa） Fragment：UNP residues 30-508
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；200 mM ammonium citrate tribasic pH 7.0 100 mM imidazole pH 7.0 20% PEG MME 2,000
Resolution 3.90 Å R-free 0.331
5T3Z 3.5 Angstrom Crystal Structure of a Fully and Natively Glycosylated BG505 SOSIP.664 HIV-1 Env Trimer in Complex with the Broadly Neutralizing Antibodies IOMA and 10-1074 Deposited 2016-08-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-611
Chain G 30–508（479 aa） Fragment：UNP residues 30-508
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；200 mM ammonium citrate tribasic pH 7.0 100 mM imidazole pH 7.0 20% PEG MME 2,000
Resolution 3.50 Å R-free 0.306
5THR Cryo-EM structure of a BG505 Env-sCD4-17b-8ANC195 complex Deposited 2016-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 30–505（476 aa） Fragment：UNP residue 30-505
Chain E 30–505（476 aa） Fragment：UNP residue 30-505
Chain F 30–505（476 aa） Fragment：UNP residue 30-505
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 8.90 Å
5U1F Initial contact of HIV-1 Env with CD4: Cryo-EM structure of BG505 DS-SOSIP trimer in complex with CD4 and antibody PGT145 Deposited 2016-11-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 29–502（474 aa） Fragment：UNP residues 29-502
Chain B 508–661（154 aa）
Chain C 29–502（474 aa） Fragment：UNP residues 29-502
Chain D 29–502（474 aa） Fragment：UNP residues 29-502
Chain E 508–661（154 aa）
Chain F 508–661（154 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.80 Å
5UTF Crystal Structure of a Stabilized DS-SOSIP.6mut BG505 gp140 HIV-1 Env Trimer, Containing Mutations I201C-P433C (DS), L154M, Y177W, N300M, N302M, T320L, I420M in Complex with Human Antibodies PGT122 and 35O22 at 4.3 A Deposited 2017-02-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa）
Chain G 30–510（481 aa）
Mutation：I201C-P433C (DS) Mutation：L154M, Y177W, N300M, N302M, T320L, I420M NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；13.2% PEG 400, 6.6% PEG 8000, 0.1M. Sodium acetate/Acetic acid pH 4.5
Resolution 3.50 Å R-free 0.299
5UTY Crystal Structure of a Stabilized DS-SOSIP.mut4 BG505 gp140 HIV-1 Env Trimer, Containing Mutations I201C-P433C (DS), L154M, N300M, N302M, T320L in Complex with Human Antibodies PGT122 and 35O22 at 4.1 Angstrom Deposited 2017-02-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 29–505（477 aa） Fragment：UNP residues 29-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.6；293 K；10.5% PEG 4000, 0.2M AmSO4, 0.1M NaoAc pH 4.6
Resolution 3.41 Å R-free 0.288
5V7J Crystal Structure at 3.7 A Resolution of Glycosylated HIV-1 Clade A BG505 SOSIP.664 Prefusion Env Trimer with Four Glycans (N197, N276, N362, and N462) removed in Complex with Neutralizing Antibodies 3H+109L and 35O22. Deposited 2017-03-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 31–505（475 aa） Fragment：UNP residues 31-505
Mutation：S198A, T278A, S365A, T464A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；294 K；4.95% isopropanol, 8.25% PEG 3350, 0.2M ammonium citrate, pH 4.5
Resolution 2.91 Å R-free 0.339
5V8L BG505 SOSIP.664 trimer in complex with broadly neutralizing HIV antibodies 3BNC117 and PGT145 Deposited 2017-03-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain D 30–505（476 aa） Fragment：UNP residues 30-505
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 20 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
5V8M BG505 SOSIP.664 trimer in complex with broadly neutralizing HIV antibody 3BNC117 Deposited 2017-03-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 30–505（476 aa） Fragment：UNP residues 30-505
Chain G 30–505（476 aa） Fragment：UNP residues 30-505
Chain I 509–661（153 aa） Fragment：UNP residues 509-661
Chain J 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.40 Å
5VIY BG505 SOSIP.664 in complex with broadly neutralizing antibodies BG1 and 8ANC195 Deposited 2017-04-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 16 PDB declaration: hexadecameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 30–508（479 aa） Fragment：UNP residues 30-505
Chain E 30–508（479 aa） Fragment：UNP residues 30-505
Chain F 30–508（479 aa） Fragment：UNP residues 30-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 6.20 Å
5VJ6 BG505 SOSIP.664 in complex with broadly neutralizing antibodies PG9 and 8ANC195 Deposited 2017-04-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 30–505（476 aa） Fragment：UNP residues 30-505
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Chain F 30–505（476 aa） Fragment：UNP residues 30-505
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 11.50 Å
5W6D Crystal structure of BG505-SOSIP.v4.1-GT1-N137A in complex with Fabs 35022 and 9H/109L Deposited 2017-06-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 4.5；277 K；0.2M NaCl, 34% PEG 300, 0.1M NaOAc
Resolution 3.20 Å R-free 0.267
5WDU HIV-1 Env BG505 SOSIP.664 H72C-H564C trimer in complex with bNAbs PGT122 Fab, 35O22 Fab and NIH45-46 scFv Deposited 2017-07-06 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain F 31–501（471 aa）
Chain G 31–501（471 aa）
Chain Q 31–501（471 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；8% (w/v) polyethylene glycol 8000, 0.1 M Tris, pH 8.5
Resolution 7.00 Å R-free 0.363
6B0N Crystal structure of the cleavage-independent prefusion HIV Env glycoprotein trimer of the clade A BG505 isolate (NFL construct) in complex with Fabs PGT122 and PGV19 at 3.39 A Deposited 2017-09-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain G 30–503（474 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 MAN alpha-D-mannopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293.15 K；0.1M HEPES (pH 7.0), 15% (w/v) PEG4000, and cryo-protected with 25% glycerol
Resolution 3.40 Å R-free 0.346
6CH7 XFEL crystal structure of a natively-glycosylated BG505 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22 Deposited 2018-02-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain G 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；5% Tacismate pH 8.0, 14% PEG 3350, 0.1M Tris pH 8.0
Resolution 3.80 Å R-free 0.262
6CH8 Crystal structure of a natively-glycosylated BG505 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and 35O22 Deposited 2018-02-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain G 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；5% Tacismate pH 8.0, 15% PEG 3350
Resolution 4.10 Å R-free 0.274
6CHB Crystal structure of a natively-glycosylated BG505 SOSIP.664 HIV-1 Envelope Trimer in complex with the broadly-neutralizing antibodies BG18 and IOMA Deposited 2018-02-22 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric
Chain F 30–508（479 aa）
Chain G 30–508（479 aa）
Chain H 30–508（479 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；298 K；5% Tacismate pH 8.0, 15% PEG 3350
Resolution 6.80 Å R-free 0.417
6CUE Cryo-EM structure at 4.0 A resolution of vaccine-elicited antibody vFP7.04 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-03-26 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain c 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
6CUF Cryo-EM structure at 4.2 A resolution of vaccine-elicited antibody vFP1.01 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-03-26 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain d 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
6DE7 Crystal Structure at 4.3 A Resolution of Glycosylated HIV-1 Clade A BG505 SOSIP.664 Prefusion Env Trimer with Interdomain Stabilization 113C-429GCG in Complex with Broadly Neutralizing Antibodies PGT122 and 35O22 Deposited 2018-05-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain G 30–510（481 aa）
Mutation：D113C, T332N, R429G, A501C, E509R, K510R, A512R, V513R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 5.5；293 K；24%PEG400, 3% PEG3350, 0.1M sodium acetate 5.5, 0.2M LiSO4
Resolution 4.12 Å R-free 0.258
6DFG BG505 MD39 SOSIP trimer in complex with mature BG18 fragment antigen binding Deposited 2018-05-14 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa）
Chain C 30–505（476 aa）
Chain D 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE；3.5 second blot time
Resolution 4.42 Å
6DFH BG505 MD64 N332-GT2 SOSIP trimer in complex with germline-reverted BG18 fragment antigen binding Deposited 2018-05-14 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa）
Chain C 30–505（476 aa）
Chain D 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE；5 second blot time
Resolution 3.85 Å
6DID HIV Env BG505 SOSIP with polyclonal Fabs from immunized rabbit #3417 post-boost#1 Deposited 2018-05-23 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：GP120 domain residues 30-505
Chain F 30–505（476 aa） Fragment：GP120 domain residues 30-505
Chain G 30–505（476 aa） Fragment：GP120 domain residues 30-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.71 Å
6E5P Backbone model based on cryo-EM map at 8.5 A of domain-swapped, glycan-reactive, neutralizing antibody 2G12 bound to HIV-1 Env BG505 DS-SOSIP, which was also bound to CD4-binding site antibody VRC03 Deposited 2018-07-21 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 30–503（474 aa）
Chain C 30–503（474 aa）
Chain E 30–503（474 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.01
cryo-EM vitrification conditions Cryogen ETHANE；0.005% dodecyl maltoside was added to sample before vitification
Resolution 8.80 Å
6MAR HIV-1 Envelope Glycoprotein Clone BG505 delCT N332T in complex with broadly neutralizing antibody Fab PGT151 Deposited 2018-08-28 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 30–502（473 aa）
Chain C 30–502（473 aa）
Chain E 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 22 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
6MN7 Cryo-EM structure of BG505.SOSIP.664 in complex with BF520.1 antigen binding fragment Deposited 2018-10-01 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 30–505（476 aa）
Chain C 30–505（476 aa）
Chain D 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.80 Å
6MPG Cryo-EM structure at 3.2 A resolution of HIV-1 fusion peptide-directed antibody, A12V163-b.01, elicited by vaccination of Rhesus macaques, in complex with stabilized HIV-1 Env BG505 DS-SOSIP, which was also bound to antibodies VRC03 and PGT122 Deposited 2018-10-06 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain V 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6MPH Cryo-EM structure at 3.8 A resolution of HIV-1 fusion peptide-directed antibody, DF1W-a.01, elicited by vaccination of Rhesus macaques, in complex with stabilized HIV-1 Env BG505 DS-SOSIP, which was also bound to antibodies VRC03 and PGT122 Deposited 2018-10-06 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 30–502（473 aa）
Chain B 30–502（473 aa）
Chain C 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6MTJ Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-378806 in Complex with Human Antibodies 3H109L and 35O22 at 2.9 Angstrom Deposited 2018-10-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 83G 1-[(2R)-4-(benzenecarbonyl)-2-methylpiperazin-1-yl]-2-(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)ethane-1,2-dione × 3 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；75mM Imidazole pH6.5 3.75% MPD 6.25% PEG 3,350 150mM LiSO4
Resolution 2.34 Å R-free 0.281
6MTN Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor Compound 484 in Complex with Human Antibodies 3H109L and 35O22 at 3.0 Angstrom Deposited 2018-10-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 JYJ {4-[1-(3-chlorophenyl)cyclopropane-1-carbonyl]piperazin-1-yl}(thiophen-3-yl)methanone × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；60mM Imidazole pH6.5 3% MPD 5% PEG3,350 120mM LiSO$
Resolution 2.50 Å R-free 0.263
6MU6 Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-814508 in Complex with Human Antibodies 3H109L and 35O22 at 3.2 Angstrom Deposited 2018-10-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 JYV (2R)-{1-[{7-[2-({[3-(dimethylamino)propyl](methyl)amino}methyl)-1,3-thiazol-4-yl]-4-methoxy-1H-pyrrolo[2,3-c]pyridin-3-yl}(oxo)acetyl]piperidin-4-yl}(phenyl)acetonitrile × 3 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；60mM imidazole pH6.5 3% MPD 5% PEG3,350 120mM LiSO4
Resolution 2.55 Å R-free 0.264
6MU7 Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-818251 in Complex with Human Antibodies 3H109L and 35O22 at 3.1 Angstrom Deposited 2018-10-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 JYY 4-{3-[{4-[(R)-cyano(phenyl)methyl]piperidin-1-yl}(oxo)acetyl]-4-methoxy-1H-pyrrolo[2,3-c]pyridin-7-yl}-N-(2-hydroxyethyl)-1,3-thiazole-2-carboxamide × 3 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；150mM Ammonium Citrate pH7.5 7.5% PEG3,350 7.5% isopropanol
Resolution 2.50 Å R-free 0.261
6MU8 Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to Small Molecule HIV-1 Entry Inhibitor BMS-386150 in Complex with Human Antibodies 3H109L and 35O22 at 3.5 Angstrom Deposited 2018-10-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 JYS 1-[4-(benzenecarbonyl)piperazin-1-yl]-2-(4-bromo-7-fluoro-1H-indol-3-yl)ethane-1,2-dione × 3 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；60mM imidazole pH6.5 3% MPD 5% PEG3,350 120mM LiSO4
Resolution 2.99 Å R-free 0.259
6N1V Cryo-EM structure at 4.0 A resolution of vaccine-elicited antibody A12V163-a.01 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-11-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 30–502（473 aa）
Chain B 30–502（473 aa）
Chain C 30–502（473 aa）
Chain D 509–661（153 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
6N1W Cryo-EM structure at 4.2 A resolution of vaccine-elicited antibody DFPH-a.15 in complex with HIV-1 Env BG505 DS-SOSIP, and antibodies VRC03 and PGT122 Deposited 2018-11-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–502（473 aa）
Chain C 30–502（473 aa）
Chain c 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
6NF2 Cryo-EM structure of vaccine-elicited antibody 0PV-c.01 in complex with HIV-1 Env BG505 DS-SOSIP and antibodies VRC03 and PGT122 Deposited 2018-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 30–509（480 aa）
Chain B 509–661（153 aa）
Chain G 30–509（480 aa）
Chain I 509–661（153 aa）
Chain Q 30–509（480 aa）
Chain R 509–661（153 aa）
Mutation：I201C, T332N, A433C, A501C, E509R, K510R, A512R Mutation：I559P, T605C Mutation：I201C, T332N, A433C, A501C, E509R, K510R, A512R Mutation：I559P, T605C Mutation：I201C, T332N, A433C, A501C, E509R, K510R, A512R Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6NM6 Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to N6 FR3-03 scFv in Complex with Crystallization Chaperones 3H109L Fab and 35O22 scFv at 3.2 Angstrom Deposited 2019-01-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 509–661（153 aa） Fragment：Ectodomain
Chain G 30–505（476 aa）
Mutation：I559P, T605C Mutation：N137A, T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；298 K；60 mM acetate pH 4.5, 420 mM sodium formate, 5% PEG 3,350 and 60 mM CaCl2
Resolution 2.74 Å R-free 0.288
6NNF Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to VRC01 FR3-03 scFv in Complex with Crystallization Chaperones 3H109L Fab and 35O22 scFv at 3.5 Angstrom Deposited 2019-01-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A, T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；72 mM imidazole pH 6.5, 72 mM
Resolution 2.76 Å R-free 0.298
6NNJ Crystal Structure of HIV-1 BG505 SOSIP.664 Prefusion Env Trimer Bound to CH31 scFv in Complex with Crystallization Chaperones 3H109L Fab and 35O22 scFv at 3.1 Angstrom Deposited 2019-01-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 509–661（153 aa） Fragment：gp41
Chain G 30–505（476 aa） Fragment：gp120
Mutation：I559P, A605C Mutation：N137A, T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；90 mM imidazole pH 6.5, 90 mM MgCl2, 0.6 M NaCl and 6% PEG 3,350
Resolution 2.60 Å R-free 0.293
6OPA Crystal structure of bovine Fab NC-Cow1 in complex with HIV-1 BG505 SOSIP.664, and human Fabs 35022 and PGT128 Deposited 2019-04-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 509–661（153 aa）
Chain G 30–504（475 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.56；298 K；0.2M sodium citrate, 0.1M Tris, 30% Peg400
Resolution 4.08 Å R-free 0.343
6OSY Cryo-EM structure of vaccine-elicited antibody 0PV-a.01 in complex with HIV-1 Env BG505 DS-SOSIP and antibodies VRC03 and PGT122 Deposited 2019-05-02 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain 2 30–508（479 aa）
Chain B 30–508（479 aa）
Chain K 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
6OT1 Cryo-EM structure of vaccine-elicited antibody 0PV-b.01 in complex with HIV-1 Env BG505 DS-SOSIP and antibodies VRC03 and PGT122 Deposited 2019-05-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain G 30–508（479 aa）
Chain O 509–661（153 aa）
Chain P 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6OZ4 Crystal structure of broadly neutralizing antibody N49P6 Fab in complex with HIV-1 BG505 SOSIP.664 Env trimer ectodomain. Deposited 2019-05-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa）
Chain G 30–505（476 aa）
Mutation：I559P, T605C Mutation：T330N, A498C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；294 K；12% PEG 3350 0.1 M Tris-HCl pH 8.0
Resolution 4.05 Å R-free 0.315
6OZC BG505 SOSIP.664 with 2G12 Fab2 Deposited 2019-05-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain E 30–504（475 aa）
Chain F 30–504（475 aa）
Chain G 509–661（153 aa）
Chain I 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.79 Å
6PW6 The HIV-1 Envelope Glycoprotein Clone BG505 SOSIP.664 in Complex with Three Copies of the Bovine Broadly Neutralizing Antibody, NC-Cow1, Fragment Antigen Binding Domain Deposited 2019-07-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain D 509–661（153 aa）
Chain E 30–505（476 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
6U0L Asymmetrically open conformational state (Class I) of HIV-1 Env trimer BG505 SOSIP.664 in complex with sCD4 and E51 Fab Deposited 2019-08-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain A 30–505（476 aa）
Chain B 30–505（476 aa）
Chain C 30–505（476 aa）
Chain X 509–661（153 aa）
Chain Y 509–661（153 aa）
Chain Z 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
6U0N Asymmetrically open conformational state (Class II) of HIV-1 Env trimer BG505 SOSIP.664 in complex with sCD4 and E51 Fab Deposited 2019-08-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain A 32–505（474 aa）
Chain B 32–505（474 aa）
Chain C 32–505（474 aa）
Chain X 509–661（153 aa）
Chain Y 509–661（153 aa）
Chain Z 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6UDJ HIV-1 bNAb 1-18 in complex with BG505 SOSIP.664 and 10-1074 Deposited 2019-09-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain C 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 32–505（474 aa） Fragment：UNP residues 32-505
Chain J 32–505（474 aa） Fragment：UNP residues 32-505
Chain M 509–661（153 aa） Fragment：UNP residues 509-661
Chain P 32–505（474 aa） Fragment：UNP residues 32-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；0 blot force, 3.0 second blot time, 3 uL sample added to freshly glow discharged grids
Resolution 2.50 Å
6UTK Crystal structure of 438-B11 Fab in complex with an uncleaved prefusion optimized (UFO) soluble BG505 trimer and Fab 35O22 at 3.80 Angstrom Deposited 2019-10-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain G 30–503（474 aa） Fragment：UNP residues 30-503
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293.15 K；0.2 M sodium chloride, 36% v/v PEG400, 0.1 M sodium/potassium phosphate, pH 5.7
Resolution 3.80 Å R-free 0.317
6V0R BG505 SOSIP.664 Trimer Deposited 2019-11-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 30–504（475 aa） Fragment：UNP residues 30-504
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–504（475 aa） Fragment：UNP residues 30-504
Chain D 30–504（475 aa） Fragment：UNP residues 30-504
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.87 Å
6V6W Crystal structure of antibody 438-B11 DSS mutant (Cys98A-100aA) in complex with an uncleaved prefusion optimized (UFO) soluble BG505 trimer and Fab 35O22 Deposited 2019-12-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain G 30–503（474 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；12% 1-propanol, 0.1M MES (pH=6.5), 20% polyethylene glycol monomethyl ether 5000, 25% glycerol
Resolution 6.50 Å R-free 0.355
6V6W Crystal structure of antibody 438-B11 DSS mutant (Cys98A-100aA) in complex with an uncleaved prefusion optimized (UFO) soluble BG505 trimer and Fab 35O22 Deposited 2019-12-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain C 30–503（474 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；12% 1-propanol, 0.1M MES (pH=6.5), 20% polyethylene glycol monomethyl ether 5000, 25% glycerol
Resolution 6.50 Å R-free 0.355
6V8X VRC01 Bound BG505 F14 HIV-1 SOSIP Envelope Trimer Structure Deposited 2019-12-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 32–502（471 aa） Fragment：UNP residues 32-502
Chain E 32–502（471 aa） Fragment：UNP residues 32-502
Chain I 32–502（471 aa） Fragment：UNP residues 32-502
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
6V8Z VRC03 and 10-1074 Bound BG505 F14 HIV-1 SOSIP Envelope Trimer Structure Deposited 2019-12-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 31–502（472 aa） Fragment：UNP residues 31-502
Chain G 31–502（472 aa） Fragment：UNP residues 31-502
Chain M 31–502（472 aa） Fragment：UNP residues 31-502
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
6VI0 Cryo-EM structure of VRC01.23 in complex with HIV-1 Env BG505 DS.SOSIP Deposited 2020-01-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain F 509–661（153 aa）
Chain G 30–508（479 aa）
Chain I 30–508（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.43 Å
6VKN BG505 SOSIP.v5.2.N241.N289 in complex with rhesus macaque Fab RM19R Deposited 2020-01-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain D 30–504（475 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 39 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6VLR BG505 SOSIP.v5.2 in complex with rhesus macaque Fab RM20E1 and PGT122 Fab Deposited 2020-01-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain G 30–504（475 aa）
Chain H 30–504（475 aa）
Chain I 509–661（153 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.42 Å
6VN0 BG505 SOSIP.v4.1 in complex with rhesus macaque Fab RM20F Deposited 2020-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain D 30–504（475 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.25 Å
6VO0 BG505 SOSIP.v5.2 in complex with rabbit Fab 43A2 Deposited 2020-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain D 30–504（475 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.52 Å
6VO1 BG505 SOSIP.v5.2 in complex with rhesus macaque Fab RM20J Deposited 2020-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain D 30–504（475 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.88 Å
6W03 Crystal Structure of HIV-1 BG505 DS-SOSIP.3mut Prefusion Env Trimer in Complex with Human Antibodies 3H109L and 35O22 at 3.3 Angstrom Deposited 2020-02-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：ectodomain
Chain G 30–504（475 aa）
Mutation：I559P, T605C Mutation：N137A, I201C, N302M, T320L, A329P, T332N, A433C, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；298 K；75 mM imidazole pH6.5, 150 mM LiSO4, 3.8% PEG MPD and 6.2% PEG 3,350
Resolution 2.40 Å R-free 0.273
6X96 Cryo-EM model of HIV-1 Env BG505 SOSIP.664 in complex with rabbit monoclonal antibody 10A fragment antigen binding variable domain Deposited 2020-06-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa）
Chain B 509–661（153 aa）
Chain C 30–510（481 aa）
Chain D 509–661（153 aa）
Chain G 30–510（481 aa）
Chain I 509–661（153 aa）
Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent (DDM) added shortly prior to freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
6X97 Cryo-EM model of HIV-1 Env BG505 SOSIP.664 in complex with rabbit monoclonal antibody 11A fragment antigen binding variable domain Deposited 2020-06-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa）
Chain B 509–661（153 aa）
Chain C 30–510（481 aa）
Chain D 509–661（153 aa）
Chain G 30–510（481 aa）
Chain I 509–661（153 aa）
Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent (DDM) added shortly prior to freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.65 Å
6X98 Cryo-EM model of HIV-1 Env BG505 SOSIP.664 in complex with rabbit monoclonal antibody 11B fragment antigen binding variable domain Deposited 2020-06-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa）
Chain B 509–661（153 aa）
Chain C 30–510（481 aa）
Chain D 509–661（153 aa）
Chain G 30–510（481 aa）
Chain I 509–661（153 aa）
Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, A512R, V513R Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent (DDM) added shortly prior to freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.38 Å
6X9R HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293F cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 51 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9R HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293F cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9R HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293F cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9S HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in stable CHO cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 51 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9S HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in stable CHO cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9S HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in stable CHO cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6X9T HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293S cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 51 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9T HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293S cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9T HIV-1 Envelope Glycoprotein BG505 SOSIP.664 expressed in HEK293S cells in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9U HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and partially deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 51 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9U HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and partially deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9U HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and partially deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
6X9V HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 51 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6X9V HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6X9V HIV-1 Envelope Glycoprotein BG505 SOSIP.664, expressed in HEK293S cells and deglycosylated by endoglycosidase H, in complex with RM20A3 Fab Deposited 2020-06-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa）
Mutation：T332N,A501C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 17 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6XRT Cryo-EM structure of SHIV-elicited RHA1.V2.01 in complex with HIV-1 Env BG505 DS-SOSIP.664 Deposited 2020-07-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 30–505（476 aa）
Chain F 30–505（476 aa）
Chain G 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 40 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
7KDE BG505 SOSIP.664 in complex with the V3-targeting rhesus macaque antibody 1485 and human gp120-gp41 interface antibody 8ANC195 Deposited 2020-10-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–505（474 aa）
Chain F 32–505（474 aa）
Chain G 32–505（474 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 34 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, blot force 0
Resolution 3.55 Å
7LG6 BG505 SOSIP.v5.2 in complex with VRC40.01 and RM19R Fabs Deposited 2021-01-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain E 30–504（475 aa）
Chain F 30–504（475 aa）
Chain G 509–661（153 aa）
Chain I 509–661（153 aa）
Mutation：E64K, A73C, A316W, T332N, A501C Mutation：I559P, A561C, T605C Mutation：E64K, A73C, A316W, T332N, A501C Mutation：E64K, A73C, A316W, T332N, A501C Mutation：I559P, A561C, T605C Mutation：I559P, A561C, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.28 Å
7LL1 Cryo-EM structure of BG505 DS-SOSIP in complex with glycan276-dependent broadly neutralizing antibody VRC40.01 Fab Deposited 2021-02-03 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–502（473 aa）
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；Blot for 2.5 S before plunging
Resolution 3.73 Å
7LL2 Cryo-EM structure of BG505 DS-SOSIP in complex with Glycan276-Dependent Broadly Neutralizing Antibody VRC33.01 Fab Deposited 2021-02-03 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–502（473 aa）
Chain C 30–502（473 aa）
Chain E 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；Blot for 2.5 S before plunging
Resolution 3.73 Å
7LO6 Structure of CD4 mimetic BNM-III-170 in complex with BG505 SOSIP.664 HIV-1 Env trimer and 17b Fab Deposited 2021-02-09 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 32–508（477 aa）
Chain B 509–661（153 aa）
Chain C 32–508（477 aa）
Chain D 509–661（153 aa）
Chain E 32–508（477 aa）
Chain F 509–661（153 aa）
Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 5VG ~{N}'-[(1~{R},2~{R})-2-(carbamimidamidomethyl)-5-(methylaminomethyl)-2,3-dihydro-1~{H}-inden-1-yl]-~{N}-(4-chloranyl-3-fluoranyl-phenyl)ethanediamide × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
7LOK Structure of CD4 mimetic M48U1 in complex with BG505 SOSIP.664 HIV-1 Env trimer and 17b Fab Deposited 2021-02-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: tridecameric
Chain A 32–508（477 aa）
Chain B 509–661（153 aa）
Chain C 32–508（477 aa）
Chain D 509–661（153 aa）
Chain E 32–508（477 aa）
Chain F 509–661（153 aa）
Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 Mutation：BG505 SOSIP.664 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
7LPN Cryo-EM structure of llama J3 VHH antibody in complex with HIV-1 Env BG505 DS-SOSIP.664 Deposited 2021-02-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain E 509–661（153 aa）
Chain F 30–505（476 aa）
Chain G 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.61 Å
7MDT BG505 SOSIP.v5.2 in complex with the monoclonal antibody Rh4O9.8 (as Fab fragment) Deposited 2021-04-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Chain C 30–508（479 aa）
Chain D 509–661（153 aa）
Chain E 30–508（479 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 31 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；TBS, 0.2um filtered
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å
7MDU BG505 SOSIP MD39 in complex with the monoclonal antibodies Rh.33104 mAb.1 and RM20A3 Deposited 2021-04-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 30–508（479 aa）
Chain B 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；TBS, 0.2um filtered
cryo-EM vitrification conditions Cryogen ETHANE；Blot force: 0 Wait time: 10s Blot time: 3-7s
Resolution 3.30 Å
7MXE Ab1245 Fab in complex with BG505 SOSIP.664 and 8ANC195 Fab Deposited 2021-05-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain C 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Chain G 32–508（477 aa）
Chain J 32–508（477 aa）
Chain P 32–508（477 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；0 blot force, 3 second blot time, 3 uL sample added
Resolution 3.70 Å
7RAI Cryo-EM structure of M4008_N1 Fab in complex with BG505 DS-SOSIP.664 Env trimer Deposited 2021-07-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain D 509–661（153 aa）
Chain E 30–505（476 aa）
Chain F 509–661（153 aa）
Mutation：I200C, T330N, A430C, A498C Mutation：I556P, T602C Mutation：I200C, T330N, A430C, A498C Mutation：I556P, T602C Mutation：I200C, T330N, A430C, A498C Mutation：I556P, T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.24 Å
7SQ1 BG505.MD39TS Env trimer in complex with Fab from antibody C05 Deposited 2021-11-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain B 509–661（153 aa）
Chain C 31–502（472 aa）
Chain D 509–661（153 aa）
Chain E 31–502（472 aa）
Chain F 509–661（153 aa）
Chain G 31–502（472 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 41 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
7T9B ApexGT5 in complex with GT5-d42.16 and RM20A3 Fabs Deposited 2021-12-18 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 41 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.72 Å
7TFN Cryo-EM structure of CD4bs antibody Ab1303 in complex with HIV-1 Env trimer BG505 SOSIP.664 Deposited 2022-01-06 Different construct Different oligomeric state Different ligand/ion Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain X 509–661（153 aa） Fragment：UNP residues 509-661
Chain Y 509–661（153 aa） Fragment：UNP residues 509-661
Chain Z 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 MAN alpha-D-mannopyranose × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
7TFO Cryo-EM structure of HIV-1 Env trimer BG505 SOSIP.664 in complex with CD4bs antibody Ab1573 Deposited 2022-01-06 Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain X 509–661（153 aa） Fragment：UNP residues 509-661
Chain Y 509–661（153 aa） Fragment：UNP residues 509-661
Chain Z 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
7TXD Cryo-EM structure of BG505 SOSIP HIV-1 Env trimer in complex with CD4 receptor (D1D2) and broadly neutralizing darpin bnD.9 Deposited 2022-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa）
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–505（476 aa）
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.87 Å
7UCF Structure of the BG505 SOSIP.664 trimer in complex with neutralizing antibody Fab fragments 10-1074 and BG24 Deposited 2022-03-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 29–505（477 aa） Fragment：UNP residues 29-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 FUC alpha-L-fucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；295 K；0.1 M Bis-Tris pH 6.5, 20% PEG1500
Resolution 4.00 Å R-free 0.277
7UOJ The CryoEM structure of N49-P9.6-FR3 and PGT121 Fabs in complex with BG505 SOSIP.664 Deposited 2022-04-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–505（476 aa）
Chain I 30–505（476 aa）
Chain J 509–661（153 aa） Fragment：UNP residues 509-661
Mutation：T330N,A498C Mutation：I556P,T602C Mutation：I556P,T602C Mutation：T330N,A498C Mutation：T330N,A498C Mutation：I556P,T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2；Phosphate buffered saline
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.02 Å
8DP1 Cryo-EM structure of HIV-1 Env(BG505.T332N SOSIP) in complex with DH1030.1 Fab Deposited 2022-07-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 30–505（476 aa） Fragment：gp120
Chain H 509–661（153 aa） Fragment：UNP residues 509-661
Chain J 30–505（476 aa） Fragment：gp120
Chain Q 509–661（153 aa） Fragment：UNP residues 509-661
Chain S 509–661（153 aa） Fragment：UNP residues 509-661
Chain W 30–505（476 aa） Fragment：gp120
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.46 Å
8E1P Crystal structure of BG505 SOSIP.v4.1-GT1.2 trimer in complex with gl-PGV20 and PGT124 Fabs Deposited 2022-08-11 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain X 509–661（153 aa） Fragment：UNP residues 509-661
Chain Y 509–661（153 aa） Fragment：UNP residues 509-661
Chain Z 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.2 M ammonium sulfate, 0.1 M Tris, pH 8.5, 12% w/v PEG8000
Resolution 3.82 Å R-free 0.301
8EUU Cryo-EM structure of HIV-1 BG505 DS-SOSIP ENV trimer bound to VRC34.01 FAB Deposited 2022-10-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa） Fragment：UNP residues 30-510
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
8EUV Cryo-EM structure of HIV-1 BG505 DS-SOSIP ENV trimer bound to VRC34.01-COMBO1 FAB Deposited 2022-10-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa） Fragment：UNP residues 30-510
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.60 Å
8EUW Cryo-EM structure of HIV-1 BG505 DS-SOSIP ENV trimer bound to VRC34.01-MM28 FAB Deposited 2022-10-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 30–510（481 aa） Fragment：UNP residues 30-510
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
8FIS Structure of Bispecific CAP256V2LS-J3 Fab in complex with BG505 DS-SOSIP.664 Deposited 2022-12-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 30–510（481 aa） Fragment：UNP residues 30-510
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 25 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.18 Å
8FK5 Cryo-EM Structure of PG9RSH DU011 Fab in complex with BG505 DS-SOSIP.664 Deposited 2022-12-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain I 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 38 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8FL1 Cryo-EM Structure of PG9RSH DU025 Fab in complex with BG505 DS-SOSIP.664 Deposited 2022-12-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain I 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 40 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.75 Å
8FLW Cryo-EM Structure of PGT145 DU303 Fab in complex with BG505 DS-SOSIP.664 Deposited 2022-12-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 509–661（153 aa） Fragment：UNP residues 509-661
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–510（481 aa） Fragment：UNP residues 30-510
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain I 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 35 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.58 Å
8FR6 Antibody vFP53.02 in complex with HIV-1 envelope trimer BG505 DS-SOSIP Deposited 2023-01-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Chain I 30–502（473 aa）
Mutation：BG505 DS-SOSIP construct Mutation：BG505 DS-SOSIP construct Mutation：BG505 DS-SOSIP construct NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.50 Å
8G4M Vaccine-elicited human antibody 2C06 in complex with HIV-1 envelope trimer BG505 DS-SOSIP Deposited 2023-02-10 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Chain I 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS + 0.005%(w/v) DDM
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.95 Å
8G4T Vaccine-elicited human antibody 2C09 in complex with HIV-1 envelope trimer BG505 DS-SOSIP Deposited 2023-02-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Chain I 30–502（473 aa）
Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations Mutation：BG505 DS-SOSIP mutations NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS + 0.1mM DDM
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.81 Å
8G85 vFP52.02 Fab in complex with BG505 DS-SOSIP Env trimer Deposited 2023-02-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 30–510（481 aa） Fragment：UNP residues 30-510
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain J 30–510（481 aa） Fragment：UNP residues 30-510
Chain K 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 35 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.99 Å
8G9W Cryo-EM structure of vFP49.02 Fab in complex with HIV-1 Env BG505 DS-SOSIP.664 (conformation 1) Deposited 2023-02-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain O 509–661（153 aa） Fragment：UNP residues 509-661
Chain P 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.66 Å
8G9X Cryo-EM structure of vFP49.02 Fab in complex with HIV-1 Env BG505 DS-SOSIP.664 (conformation 2) Deposited 2023-02-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain O 509–661（153 aa） Fragment：UNP residues 509-661
Chain P 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.46 Å
8G9Y Cryo-EM structure of vFP49.02 Fab in complex with HIV-1 Env BG505 DS-SOSIP.664 (conformation 3) Deposited 2023-02-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–510（481 aa） Fragment：UNP residues 30-510
Chain G 30–510（481 aa） Fragment：UNP residues 30-510
Chain O 509–661（153 aa） Fragment：UNP residues 509-661
Chain P 30–510（481 aa） Fragment：UNP residues 30-510
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.28 Å
8GAS vFP48.02 Fab in complex with BG505 DS-SOSIP Env trimer Deposited 2023-02-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain D 30–505（476 aa） Fragment：UNP residues 30-505
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–505（476 aa） Fragment：UNP residues 30-505
Chain J 30–505（476 aa） Fragment：UNP residues 30-505
Chain K 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.04 Å
8SW3 BG505 GT1.1 SOSIP in complex with NHP Fabs 12C11 and RM20A3 Deposited 2023-05-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Mutation：I559P, T605C Mutation：I559P, T605C Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent added shortly before freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
8SW4 BG505 GT1.1 SOSIP in complex with NHP Fabs 21N13, 21M20 and RM20A3 Deposited 2023-05-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 20 PDB declaration: eicosameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 509–661（153 aa） Fragment：UNP residues 509-661
Chain I 509–661（153 aa） Fragment：UNP residues 509-661
Mutation：I559P, T605C Mutation：I559P, T605C Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent added shortly before freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.85 Å
8TGO Crystal structure of the BG505 triple tandem trimer gp140 HIV-1 Env in complex with PGT124 and 35O22 Deposited 2023-07-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain G 30–504（475 aa） Fragment：UNP residues 30-504
Chain H 509–661（153 aa） Fragment：UNP residues 509-661
Chain R 30–504（475 aa） Fragment：UNP residues 30-504
Chain a 509–661（153 aa） Fragment：UNP residues 509-661
Chain e 30–504（475 aa） Fragment：UNP residues 30-504
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 31 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.1 M sodium acetate, 0.2 M zinc acetate, 11.5 % w/v PEG3000, pH 4.83
Resolution 5.75 Å R-free 0.292
8TJR CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO HERH-a.01 FAB Deposited 2023-07-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 30–504（475 aa）
Chain B 30–504（475 aa）
Chain C 30–504（475 aa）
Chain D 509–661（153 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 48 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.29 Å
8TJS CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO GPZ6-a.01 FAB Deposited 2023-07-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain B 509–661（153 aa）
Chain G 30–502（473 aa）
Chain H 509–661（153 aa）
Chain I 509–661（153 aa）
Chain N 30–502（473 aa）
Chain O 30–502（473 aa）
Mutation：I556P, T602C Mutation：I556P, T602C Mutation：I556P, T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 48 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.31 Å
8TNG Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with broadly neutralizing llama nanobody R27 targeting the CD4-binding site Deposited 2023-08-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.58 Å
8TNH Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with broadly neutralizing llama nanobody G36 targeting the CD4-binding site Deposited 2023-08-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.32 Å
8TNI Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with broadly neutralizing bi-specific antibody CAP256L-R27 targeting the CD4-binding site and the V2-apex Deposited 2023-08-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 32 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.61 Å
8TOP Cryo-EM structure of HIV-1 Env BG505 DS-SOSIP in complex with antibody GPZ6-b.01 targeting the fusion peptide Deposited 2023-08-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 509–661（153 aa） Fragment：UNP residues 509-661
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Chain O 30–505（476 aa） Fragment：UNP residues 30-505
Chain P 509–661（153 aa） Fragment：UNP residues 509-661
Chain Q 30–505（476 aa） Fragment：UNP residues 30-505
Chain R 509–661（153 aa） Fragment：UNP residues 509-661
Chain S 30–505（476 aa） Fragment：UNP residues 30-505
Chain T 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 82 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, and 1.8 mM KH2PO4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.52 Å
8TOX Cryo-EM structure of BG505 Env mutant A517E in complex with antibody ACS202 Fab Deposited 2023-08-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain F 509–661（153 aa）
Chain G 30–504（475 aa）
Chain I 30–504（475 aa）
Mutation：A517E, M535N, N543Q, T569G, I573F, R588E, D589V, S636G, N651F, K655I Mutation：A517E, M535N, N543Q, T569G, I573F, R588E, D589V, S636G, N651F, K655I Mutation：A517E, M535N, N543Q, T569G, I573F, R588E, D589V, S636G, N651F, K655I NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS with 0.1 mM DTT
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.30 Å
8TQ1 HIV-1 BG505 Env SOSIP in complex with bovine Fab Bess4 and non-human primate Fab RM20A3 Deposited 2023-08-06 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 13 PDB declaration: 13-meric
Chain A 30–505（476 aa）
Chain E 30–505（476 aa）
Chain J 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
8TTW Cryo-EM structure of BG505 SOSIP.664 HIV-1 Env trimer in complex with temsavir, 8ANC195, and 10-1074 Deposited 2023-08-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain A 30–510（481 aa）
Chain E 30–510（481 aa）
Chain I 30–510（481 aa）
Mutation：A501C T332N E509R K510R A512R V513R Mutation：A501C T332N E509R K510R A512R V513R Mutation：A501C T332N E509R K510R A512R V513R NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 83J 1-[4-(benzenecarbonyl)piperazin-1-yl]-2-[4-methoxy-7-(3-methyl-1H-1,2,4-triazol-1-yl)-1H-pyrrolo[2,3-c]pyridin-3-yl]ethane-1,2-dione × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.96 Å
8ULR Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 05_B08 Fabs Deposited 2023-10-16 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 32–501（470 aa）
Chain C 32–501（470 aa）
Chain E 32–501（470 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.30 Å
8ULS Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 01_D03 Fabs Deposited 2023-10-16 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 32–501（470 aa）
Chain C 32–501（470 aa）
Chain E 32–501（470 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.20 Å
8ULT Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 04_A06 Fabs Deposited 2023-10-16 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 32–501（470 aa）
Chain C 32–501（470 aa）
Chain E 32–501（470 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 29 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.80 Å
8ULU Cryo-EM structure of the BG505 SOSIPv2 in complex with bNAb 04_A06 and PGDM1400 Fabs Deposited 2023-10-16 Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: 14-meric
Chain A 32–501（470 aa）
Chain C 32–501（470 aa）
Chain E 32–501（470 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.80 Å
8VFV HIV Env BG505_MD39_B16 SOSIP boosting trimer in complex with B16_d77.5 mouse Fab and RM20A3 Fab Deposited 2023-12-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 30–510（481 aa）
Chain B 509–661（153 aa）
Chain E 30–510（481 aa）
Chain F 509–661（153 aa）
Chain J 30–510（481 aa）
Chain K 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
9AUG Cryo-EM structure of CH848.d949.10.17.GS-DH270.UCA3.G57R Deposited 2024-02-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 30–495（466 aa） Fragment：d949.GS-gp120
Chain B 30–495（466 aa） Fragment：d949.GS-gp120
Chain C 30–495（466 aa） Fragment：d949.GS-gp120
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
9AUH Cryo-EM structure of CH848.d949.10.17.GS-DH270.UCA3 Deposited 2024-02-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 30–495（466 aa） Fragment：d949.GS-gp120
Chain B 30–495（466 aa） Fragment：d949.GS-gp120
Chain C 30–495（466 aa） Fragment：d949.GS-gp120
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å
9AUI Cryo-EM structure of CH848.d949.10.17.GS-DH270.UCA4 Deposited 2024-02-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 30–495（466 aa） Fragment：d949.GS-gp120
Chain B 30–495（466 aa） Fragment：d949.GS-gp120
Chain C 30–495（466 aa） Fragment：d949.GS-gp120
Chain D 509–661（153 aa） Fragment：UNP residues 509-661
Chain E 509–661（153 aa） Fragment：UNP residues 509-661
Chain F 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
9AXD HIV BG505.v5.2 (N289/N241) SOSIP Env in Complex with gp120-Interface pAb from Rh.33203 Deposited 2024-03-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–508（479 aa）
Chain B 507–661（155 aa）
Chain C 30–508（479 aa）
Chain D 507–661（155 aa）
Chain E 30–508（479 aa）
Chain F 507–661（155 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 40 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
9AY6 HIV BG505.v5.2 (N289/N241) SOSIP Env in Complex with V5 pAb from Rh.33203 Deposited 2024-03-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–508（479 aa）
Chain B 507–661（155 aa）
Chain C 30–508（479 aa）
Chain D 507–661（155 aa）
Chain E 30–508（479 aa）
Chain F 507–661（155 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 31 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.00 Å
9AYS HIV BG505.v5.2 (N289/N241) SOSIP Env in Complex with V5, gp120-Interface, and Anti-Immune Complex pAbs from Rh.33203 Deposited 2024-03-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 30–508（479 aa）
Chain B 507–661（155 aa）
Chain C 30–508（479 aa）
Chain D 507–661（155 aa）
Chain E 30–508（479 aa）
Chain F 507–661（155 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 43 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.60 Å
9AYV HIV CH505/BG505 SOSIP.v8.1 Env in Complex with V1/V3 Epitope and Anti-Immune Complex pAbs from Rabbit 2474 Deposited 2024-03-08 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain B 507–661（155 aa）
Chain D 507–661（155 aa）
Chain F 507–661（155 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 38 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.40 Å
9B8B RM038 Fab in complex with Apex-GT 6.2 trimer and RM20A3 Fab Deposited 2024-03-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain D 30–505（476 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 49 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
9B8C RM018 Fab in complex with Apex GT 6.2 trimer and RM20A3 Fab Deposited 2024-03-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 30–504（475 aa）
Chain B 509–661（153 aa）
Chain C 30–504（475 aa）
Chain D 30–504（475 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 48 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
9BNK Cryo-EM structure of rhesus antibody V031-a.01 in complex with HIV-1 Env BG505 DS-SOSIP Deposited 2024-05-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 515–661（147 aa）
Chain B 515–661（147 aa）
Chain C 515–661（147 aa）
Chain E 31–503（473 aa）
Chain F 31–503（473 aa）
Chain G 31–503（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 39 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
9BNM Cryo-EM structure of rhesus antibody 44715-a.01 in complex with HIV-1 Env BG505 DS-SOSIP Deposited 2024-05-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–505（476 aa）
Chain B 30–505（476 aa）
Chain C 30–505（476 aa）
Chain X 510–661（152 aa）
Chain Y 510–661（152 aa）
Chain Z 510–661（152 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 19 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.97 Å
9BNP Cryo-EM structure of rhesus antibody V033-a.01 in complex with HIV-1 Env BG505 DS-SOSIP Deposited 2024-05-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 32–502（471 aa）
Chain B 517–661（145 aa）
Chain E 32–502（471 aa）
Chain F 517–661（145 aa）
Chain I 32–502（471 aa）
Chain J 517–661（145 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.17 Å
9BTL Cryo-EM structure of rhesus antibody 41328-a.01 in complex with HIV-1 Env BG505 DS-SOSIP Deposited 2024-05-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–505（476 aa）
Chain B 510–661（152 aa）
Chain E 30–505（476 aa）
Chain F 510–661（152 aa）
Chain I 30–505（476 aa）
Chain J 510–661（152 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.96 Å
9CF5 STRUCTURE OF CD4 MIMETIC CJF-III-288 IN COMPLEX WITH BG505 SOSIP.664 HIV-1ENV TRIMER AND 17B FAB Deposited 2024-06-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 32–508（477 aa）
Chain B 509–661（153 aa） Fragment：residues 512-664 (509-661 Uniprot numbering)
Chain C 32–508（477 aa）
Chain D 509–661（153 aa） Fragment：residues 512-664 (509-661 Uniprot numbering)
Chain E 32–508（477 aa）
Chain F 509–661（153 aa） Fragment：residues 512-664 (509-661 Uniprot numbering)
Mutation：T332N, A501C, E509R, K510R, insertion of RR after residue 511 Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, insertion of RR after residue 511 Mutation：I559P, T605C Mutation：T332N, A501C, E509R, K510R, insertion of RR after residue 511 Mutation：I559P, T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 26 Y26 propyl (2R,3S)-2-(carbamimidamidomethyl)-3-[2-(4-chloro-3-fluoroanilino)(oxo)acetamido]-6-[(methylamino)methyl]-2,3-dihydro-1H-indole-1-carboxylate × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
9D1W Cryo-EM structure of PGDM1400 Fab bound to HIV-1 BG505 DS-SOSIP.664 Env trimer Deposited 2024-08-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 30–505（476 aa） Fragment：UNP residues 30-505
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain a 509–661（153 aa） Fragment：UNP residues 509-661
Chain b 509–661（153 aa） Fragment：UNP residues 509-661
Chain c 509–661（153 aa） Fragment：UNP residues 509-661
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.44 Å
9D3D Cryo-EM structure of PGT145 R100aS Fab bound to HIV-1 BG505 DS-SOSIP.664 Env trimer Deposited 2024-08-09 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain B 30–505（476 aa） Fragment：UNP residues 30-505
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain a 509–661（153 aa） Fragment：residues 512-664
Chain b 509–661（153 aa） Fragment：residues 512-664
Chain c 509–661（153 aa） Fragment：residues 512-664
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 PO4 PHOSPHATE ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.41 Å
9D8Y Cryo-EM structure of HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-VRC34.01 Fab with one gp120 rotated, Population 4 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain D 509–661（153 aa） Fragment：UNP residues 509-611
Chain E 509–661（153 aa） Fragment：UNP residues 509-611
Chain F 509–661（153 aa） Fragment：UNP residues 509-611
Mutation：I559P,T605C Mutation：I559P,T605C Mutation：I559P,T605C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.06 Å
9DMB Rhesus RHA10.01 Fab in complex with HIV-1 Env BG505 DS-SOSIP trimer Deposited 2024-09-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain F 30–509（480 aa）
Chain K 30–509（480 aa）
Chain L 30–509（480 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.27 Å
9MI0 61-12A01 Fab in complex with HIV-1 GT1.1 v4.1 SOSIP Env trimer and RM20A3 Fab Deposited 2024-12-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-611
Chain D 509–661（153 aa） Fragment：UNP residues 509-611
Chain F 509–661（153 aa） Fragment：UNP residues 509-611
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9MIA 206-3G08 Fab in complex with HIV-1 GT1.1 v4.1 SOSIP Env trimer and RM20A3 Fab Deposited 2024-12-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 509–661（153 aa） Fragment：UNP residues 509-611
Chain D 509–661（153 aa） Fragment：UNP residues 509-611
Chain F 509–661（153 aa） Fragment：UNP residues 509-611
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9MIB 206-9C09 Fab in complex with HIV-1 GT1.1 v4.1 SOSIP Env trimer and RM20A3 Fab Deposited 2024-12-12 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain B 509–661（153 aa） Fragment：UNP residues 509-611
Chain D 509–661（153 aa） Fragment：UNP residues 509-611
Chain F 509–661（153 aa） Fragment：UNP residues 509-611
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.80 Å
9MIH 273-4D01 Fab in complex with HIV-1 BG505 SOSIP Env trimer and RM20A3 Fab Deposited 2024-12-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: 14-meric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain D 509–661（153 aa）
Chain E 30–505（476 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 44 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
9MII 253-7A03 Fab in complex with HIV-1 BG505 SOSIP Env trimer and RM20A3 Fab Deposited 2024-12-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: 14-meric
Chain A 30–505（476 aa）
Chain B 509–661（153 aa）
Chain C 30–505（476 aa）
Chain D 509–661（153 aa）
Chain E 30–505（476 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 44 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
9MQG RM017 Fab in complex with Apex-GT6.2 trimer and RM20A3 Fab Deposited 2025-01-03 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain B 509–661（153 aa）
Chain E 509–661（153 aa）
Chain F 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 39 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
9O2Q BG505-DS SOSIP in complex with 007 bNAb Fabs - Class 0 (unbound) Deposited 2025-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 32–507（476 aa）
Chain B 508–661（154 aa）
Chain C 32–507（476 aa）
Chain D 508–661（154 aa）
Chain E 32–507（476 aa）
Chain F 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 2.90 Å
9O2R BG505-DS SOSIP in complex with 007 bNAb Fabs - Class 1 (1 Fab bound) Deposited 2025-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 32–507（476 aa）
Chain B 508–661（154 aa）
Chain C 32–507（476 aa）
Chain D 508–661（154 aa）
Chain E 32–507（476 aa）
Chain F 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 22 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.00 Å
9O2S BG505-DS SOSIP in complex with 007 bNAb Fabs - Class 2 (2 Fabs bound) Deposited 2025-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 32–507（476 aa）
Chain B 508–661（154 aa）
Chain C 32–507（476 aa）
Chain D 508–661（154 aa）
Chain E 32–507（476 aa）
Chain F 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.20 Å
9O2T BG505-DS SOSIP in complex with 007 bNAb Fabs - Class 3 (3 Fabs bound) Deposited 2025-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 32–507（476 aa）
Chain B 508–661（154 aa）
Chain C 32–507（476 aa）
Chain D 508–661（154 aa）
Chain E 32–507（476 aa）
Chain F 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE；3s blot, 0 blot force
Resolution 3.40 Å
9O2U BG505 SOSIP in complex with 007 bNAb IgG1 - trimer-dimer class Deposited 2025-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 24 PDB declaration: 24-meric
Chain A 32–507（476 aa）
Chain B 508–661（154 aa）
Chain C 32–507（476 aa）
Chain D 508–661（154 aa）
Chain E 32–507（476 aa）
Chain F 508–661（154 aa）
Chain O 32–507（476 aa）
Chain P 508–661（154 aa）
Chain Q 32–507（476 aa）
Chain R 508–661（154 aa）
Chain S 32–507（476 aa）
Chain T 508–661（154 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 48 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9O8M Ab1983 in complex with HIV-1 Env variant WIN332 Deposited 2025-04-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain E 32–510（479 aa）
Chain F 509–661（153 aa）
Chain I 32–510（479 aa）
Chain J 509–661（153 aa）
Chain K 32–510（479 aa）
Chain L 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 22 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.79 Å
9OED Ab1999 in complex with HIV-1 Env RC1 Deposited 2025-04-28 Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Chain J 509–661（153 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.6；1X PBS
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.94 Å
9OGM BG505 MD39.3 Env gp151 MPER nanodisc in complex with 10E8, BG18 and VRC01 Fabs (1x 10E8 Fab) Deposited 2025-05-01 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Insufficient information Heteromer；Protein × 17 PDB declaration: 17-meric
Chain A 30–504（475 aa）
Chain B 30–504（475 aa）
Chain C 30–504（475 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
9OGT HIV-1 Env BG505 SOSIP.664-His in complex with PGT122 and 3BNC117 Fabs Deposited 2025-05-01 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain A 30–505（476 aa）
Chain C 30–505（476 aa）
Chain E 30–505（476 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
9OGU HIV-1 Env BG505 SOSIP.664-dPG-His in complex with PGT122 and 3BNC117 Fabs Deposited 2025-05-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Mutation：T332N, A501C Mutation：T332N, A501C Mutation：T332N, A501C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 28 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
9P6E N49P7-FR Fab in complex with BG505 MD39 SOSIP and RM20A3 Fab Deposited 2025-06-18 Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 5.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
9P6G eN49P7-FRv1-23 Fab in complex with BG505 MD39 SOSIP and RM20A3 Fab Deposited 2025-06-19 Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 18 PDB declaration: 18-meric
Chain B 509–661（153 aa）
Chain D 509–661（153 aa）
Chain F 509–661（153 aa）
Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C Mutation：F516S, I556P, S558P, L565D, V567H, R582H, T602C NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 36 ELECTRON MICROSCOPY
cryo-EM buffer pH 5.9
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å
9PNI Cryo-EM structure of J601-1B2 Fab in complex with HIV-1 BG505 DS-SOSIP Env trimer Deposited 2025-07-21 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Chain I 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 19 MAN alpha-D-mannopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS buffer supplemented with 0.1 mM DDM
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.83 Å
9PNN Cryo-EM structure of J601-A6 Fab in complex with HIV-1 BG505 DS-SOSIP Env trimer Deposited 2025-07-21 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain C 30–502（473 aa）
Chain G 30–502（473 aa）
Chain I 30–502（473 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；PBS + 0.005% (w/v) DDM
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
9Q0W Cryo-EM Structure of HIV-1 BG505DS-SOSIP.664 Env Trimer Bound to DFPH-a.01_10R59P_LC Fab Deposited 2025-08-13 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: 12-meric
Chain A 30–505（476 aa） Fragment：UNP residues 30-505
Chain C 30–505（476 aa） Fragment：UNP residues 30-505
Chain E 30–505（476 aa） Fragment：UNP residues 30-505
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
9YHO AJ09-21 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.20 Å
9YHQ AJ09-83 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.00 Å
9YHR AJ09-110 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
9YHS AM12-340 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions Resolution 4.30 Å
9YHT AM12-347 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
9YIB AM12-351 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
9YID AM12-352 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
9YIE NN39-25 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.30 Å
9YIF NN39-171 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
9YIG V634-136 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 48 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
9YIH V634-136 UCA Fab in complex with HIV-1 Env del4-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 33 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9YII V645-158 Fab in complex with HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.20 Å
9YIJ HIV-1 Env 5MUT-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
9YIK HIV-1 Env del4-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–508（477 aa）
Chain F 32–508（477 aa）
Chain G 32–508（477 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 42 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
9YIL HIV-1 Env del8-3fill SOSIP Deposited 2025-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 509–661（153 aa）
Chain B 509–661（153 aa）
Chain C 509–661（153 aa）
Chain E 32–510（479 aa）
Chain F 32–510（479 aa）
Chain G 32–510（479 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；150 mM NaCl, 20 mM Tris-HCl, pH 8.0
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 5.00 Å

186 other PDB entries and 199 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q2N0S6_9HIV1
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D； PDBConstruct 1–153； UniProt 509–661 Author chain E； PDBConstruct 1–153； UniProt 509–661 Author chain F； PDBConstruct 1–153； UniProt 509–661

T-cell surface glycoprotein CD4

Homo sapiens

UniProt P01730

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 8 其他Polymer 9 PDB declaration: octameric（8） Consistent with protein copy count Chain Y； UniProt 26–396 Chain Z； UniProt 26–396 Not recorded Envelope glycoprotein gp160 × 2 （Q2N0S5） Envelope glycoprotein gp160 × 1 （Q2N0S5） Envelope glycoprotein gp41 × 3 （Q2N0S6） ;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 3 ;alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 4 beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 ELECTRON MICROSCOPY cryo-EM buffer：pH 8 cryo-EM vitrification conditions：Cryogen ETHANE Resolution 4.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 8FYJ Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1CDH STRUCTURES OF AN HIV AND MHC BINDING FRAGMENT FROM HUMAN CD4 AS REFINED IN TWO CRYSTAL LATTICES Deposited 1994-01-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 26–203（178 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.30 Å
1CDI STRUCTURES OF AN HIV AND MHC BINDING FRAGMENT FROM HUMAN CD4 AS REFINED IN TWO CRYSTAL LATTICES Deposited 1994-01-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 23–203（181 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.90 Å
1CDJ STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4 Deposited 1996-11-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–203（178 aa） Fragment：D1D2 FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.50 Å
1CDU STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4 MUTANT WITH PHE 43 REPLACED BY VAL Deposited 1996-11-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–203（178 aa） Fragment：D1D2 FRAGMENT
Mutation：F43V No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.70 Å
1CDY STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4 MUTANT WITH GLY 47 REPLACED BY SER Deposited 1996-11-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–203（178 aa） Fragment：D1D2 FRAGMENT
Mutation：G47S No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.00 Å
1G9M HIV-1 HXBC2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B Deposited 2000-11-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–210（185 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation：S184N, I185T NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.4；293 K；VAPOUR DIFFUSION CRYSTALLIZATION: 0.5 UL OF PROTEIN (~10MG/ML IN 350 MM NACL, 5 MM TRISCL PH 7.0) + 0.4 UL OF 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, 0.0075% SEAPREP AGAROSE, PH 6.4 OVER A RESERVOIR OF 0.35 M NACL, 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, PH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.20 Å R-free 0.330
1G9N HIV-1 YU2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B Deposited 2000-11-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–210（185 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation：S184N, I185T NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.9；293 K；VAPOUR DIFFUSION CRYSTALLIZATION: 0.5 UL OF PROTEIN (5 MG/ML IN 0.35 M NACL, 0.005 M TRIS CL PH 7.0) + 0.35 UL OF RESERVOIR (50 UL OF NA ACETATE pH 4.5 + 250 UL OF HAMPTON CRYSTAL SCREEN REAGENT 18 + 126 UL OF ETHANOL + 292 UL OF WATER), pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.90 Å R-free 0.295
1GC1 HIV-1 GP120 CORE COMPLEXED WITH CD4 AND A NEUTRALIZING HUMAN ANTIBODY Deposited 1998-06-15 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–210（185 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation：S184N, I185T NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7；VAPOUR DIFFUSION CRYSTALLIZATION: 0.5 UL OF PROTEIN (~10MG/ML IN 350 MM NACL, 5 MM TRISCL PH 7.0) + 0.4 UL OF 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, 0.0075% SEAPREP AGAROSE, PH 6.4 OVER A RESERVOIR OF 0.35 M NACL, 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, PH 6.4, vapor diffusion
Resolution 2.50 Å R-free 0.302
1JL4 CRYSTAL STRUCTURE OF THE HUMAN CD4 N-TERMINAL TWO DOMAIN FRAGMENT COMPLEXED TO A CLASS II MHC MOLECULE Deposited 2001-07-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 26–203（178 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；297 K；17% PEG 4,000/0.2M Li2SO4/0.1M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Resolution 4.30 Å R-free 0.453
1Q68 Solution structure of T-cell surface glycoprotein CD4 and Proto-oncogene tyrosine-protein kinase LCK fragments Deposited 2003-08-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 421–458（38 aa） Fragment：residues 421-458
Mutation：M407L ZN ZINC ION × 1 SOLUTION NMR
NMR measurement conditions pH 5.1；298 K；Pressure ambient
NMR sample composition 0.5 mM CD4-Lck-Zn2+, U-15N,13C; 20 mM acetate, 20 mM NaCl, 0.15% beta-mercaptoethanol | 95% H2O/5% D2O
NMR sample composition 0.5 mM CD4-Lck-Zn2+, U-15N; 20 mM acetate, 20 mM NaCl, 0.15% beta-mercaptoethanol | 95% H2O/5% D2O
NMR sample composition 0.5 mM CD4-Lck-Zn2+; 20 mM acetate, 20 mM NaCl, 0.15% beta-mercaptoethanol | 100% D2O
NMR sample composition 1.0 mM CD4-Lck-Cd2+; 20 mM acetate, 20 mM NaCl, 0.15% beta-mercaptoethanol | 100% D2O
Resolution not provided
1RZJ HIV-1 HXBC2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B Deposited 2003-12-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–210（185 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation：S184N, I185T NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.4；293 K；0.5 UL OF PROTEIN (~10MG/ML IN 350 MM NACL, 5 MM TRISCL PH 7.0) + 0.4 UL OF 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, 0.0075% SEAPREP AGAROSE, PH 6.4 OVER A RESERVOIR OF 0.35 M NACL, 0.1 M NACITRATE, 0.02 M NAHEPES, 10% ISOPROPANOL, 10.5% MONOMETHYL-PEG 5000, PH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.20 Å R-free 0.323
1RZK HIV-1 YU2 GP120 ENVELOPE GLYCOPROTEIN COMPLEXED WITH CD4 AND INDUCED NEUTRALIZING ANTIBODY 17B Deposited 2003-12-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–210（185 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Mutation：S184N, I185T NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.9；293 K；0.5 UL OF PROTEIN (5 MG/ML IN 0.35 M NACL, 0.005 M TRIS CL PH 7.0) + 0.35 UL OF RESERVOIR (50 UL OF NA ACETATE PH 4.5 + 250 UL OF HAMPTON CRYSTAL SCREEN REAGENT 18 + 126 UL OF ETHANOL + 292 UL OF WATER), pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.90 Å R-free 0.297
1WBR SOLUTION STRUCTURE OF THE HUMAN CD4 (403-419) RECEPTOR PEPTIDE, NMR, 32 STRUCTURES Deposited 1996-12-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 428–444（17 aa） Fragment：403 - 419
Mutation：N-TERMINUS IS ACETYLATED, C-TERMINUS IS AMIDATED Non-standard monomer：Yes (specific site not provided by mmCIF) No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 7；298 K
Resolution not provided
1WIO STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, TETRAGONAL CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.90 Å R-free 0.351
1WIO STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, TETRAGONAL CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.90 Å R-free 0.351
1WIP STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, MONOCLINIC CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 4.00 Å R-free 0.427
1WIP STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, MONOCLINIC CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 4.00 Å R-free 0.427
1WIQ STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, TRIGONAL CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 5.00 Å R-free 0.442
1WIQ STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD4, TRIGONAL CRYSTAL FORM Deposited 1996-12-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 26–388（363 aa） Fragment：EXTRACELLULAR FRAGMENT
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 5.00 Å R-free 0.442
2B4C Crystal structure of HIV-1 JR-FL gp120 core protein containing the third variable region (V3) complexed with CD4 and the X5 antibody Deposited 2005-09-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–206（181 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 SO4 SULFATE ION × 5 XYL Xylitol × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.5；293 K；ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 5.50
Resolution 3.30 Å R-free 0.349
2B4C Crystal structure of HIV-1 JR-FL gp120 core protein containing the third variable region (V3) complexed with CD4 and the X5 antibody Deposited 2005-09-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 16 PDB declaration: hexadecameric
Chain C 26–206（181 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 SO4 SULFATE ION × 20 XYL Xylitol × 12 X-RAY DIFFRACTION
X-ray crystallization conditions pH 5.5；293 K；ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 5.50
Resolution 3.30 Å R-free 0.349
2KLU NMR structure of the transmembrane and cytoplasmic domains of human CD4 Deposited 2009-07-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 397–458（62 aa） Fragment：UNP residues 397-458
Mutation：C394S,C397S,C420S,C422S,C430H No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.2；318 K；Ionic strength (raw mmCIF value) 150；Pressure ambient
NMR sample composition 1 mM [U-100% 13C; U-100% 15N] CD4 coreceptor polypeptide, 200 mM [U-100% 2H] DPC, 150 mM sodium chloride, 20 mM sodium phosphate, 0.02 % sodium azide, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided
2NXY HIV-1 gp120 Envelope Glycoprotein(S334A) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 HEZ HEXANE-1,6-DIOL × 3 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.0 % PEG 8000, 7.5 % 1,6-Hexanediol, 100 mM Na Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.00 Å R-free 0.231
2NXZ HIV-1 gp120 Envelope Glycoprotein (T257S, S334A, S375W) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 EDO 1,2-ETHANEDIOL × 3 HEZ HEXANE-1,6-DIOL × 1 IPA ISOPROPYL ALCOHOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.5% PEG 4000, 8.5% MPD, 100 mM Na Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.04 Å R-free 0.244
2NY0 HIV-1 gp120 Envelope Glycoprotein (M95W, W96C, T257S, V275C, S334A, S375W, A433M) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 HEZ HEXANE-1,6-DIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.5% PEG 8000, 7.5% MPD, 100 mM Na Citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.20 Å R-free 0.242
2NY1 HIV-1 gp120 Envelope Glycoprotein (I109C, T257S, S334A, S375W, Q428C) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 14 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.5% PEG 8000, 7.5% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.99 Å R-free 0.250
2NY2 HIV-1 gp120 Envelope Glycoprotein (T123C, T257S, S334A, S375W, G431C) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 EDO 1,2-ETHANEDIOL × 2 HEZ HEXANE-1,6-DIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.2% PEG 8000, 7.8% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.00 Å R-free 0.223
2NY3 HIV-1 gp120 Envelope Glycoprotein (K231C, T257S, E267C, S334A, S375W) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；8.5% PEG 4000, 8.5% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.00 Å R-free 0.243
2NY4 HIV-1 gp120 Envelope Glycoprotein (K231C, T257S, E268C, S334A, S375W) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 13 HEZ HEXANE-1,6-DIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；7.0% PEG 8000, 8.0% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.00 Å R-free 0.241
2NY5 HIV-1 gp120 Envelope Glycoprotein (M95W, W96C, I109C, T257S, V275C, S334A, S375W, Q428C, A433M) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；9.2% PEG 4000, 9.5% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.50 Å R-free 0.255
2NY6 HIV-1 gp120 Envelope Glycoprotein (M95W, W96C, I109C, T123C, T257S, V275C,S334A, S375W, Q428C, G431C) Complexed with CD4 and Antibody 17b Deposited 2006-11-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa） Fragment：D1D2, N-TERMINAL TWO DOMAIN FRAGMENT
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；298 K；8.3% PEG 8000, 7.4% MPD, 100 mM Na Citrate , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.80 Å R-free 0.276
2QAD Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4 Deposited 2007-06-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–206（181 aa） Fragment：D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 16 MLA MALONIC ACID × 2 EDO 1,2-ETHANEDIOL × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；17-19% polyethylene glycol (PEG) 1500, 0.1 M Na cacodylate pH 6.5, 0.2 M Na malonate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.30 Å R-free 0.269
2QAD Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4 Deposited 2007-06-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain F 26–206（181 aa） Fragment：D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 15 MLA MALONIC ACID × 2 EDO 1,2-ETHANEDIOL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；17-19% polyethylene glycol (PEG) 1500, 0.1 M Na cacodylate pH 6.5, 0.2 M Na malonate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.30 Å R-free 0.269
2QAD Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4 Deposited 2007-06-14 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric
Chain B 26–206（181 aa） Fragment：D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS
Chain F 26–206（181 aa） Fragment：D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 31 MLA MALONIC ACID × 4 EDO 1,2-ETHANEDIOL × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；17-19% polyethylene glycol (PEG) 1500, 0.1 M Na cacodylate pH 6.5, 0.2 M Na malonate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.30 Å R-free 0.269
3B71 CD4 endocytosis motif bound to the Focal Adhesion Targeting (FAT) domain of the Focal Adhesion Kinase Deposited 2007-10-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 428–450（23 aa） Fragment：residues 403-425
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；3.9 M NaCl, 2.5 % glycerol, 100 mM Hepes, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 2.82 Å R-free 0.307
3B71 CD4 endocytosis motif bound to the Focal Adhesion Targeting (FAT) domain of the Focal Adhesion Kinase Deposited 2007-10-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain E 428–450（23 aa） Fragment：residues 403-425
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；3.9 M NaCl, 2.5 % glycerol, 100 mM Hepes, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 2.82 Å R-free 0.307
3B71 CD4 endocytosis motif bound to the Focal Adhesion Targeting (FAT) domain of the Focal Adhesion Kinase Deposited 2007-10-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain F 428–450（23 aa） Fragment：residues 403-425
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；291 K；3.9 M NaCl, 2.5 % glycerol, 100 mM Hepes, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 2.82 Å R-free 0.307
3CD4 REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4 Deposited 1992-07-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 26–207（182 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 2.20 Å
3J70 Model of gp120, including variable regions, in complex with CD4 and 17b Deposited 2014-04-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 26–208（183 aa） Fragment：UNP residues 26-208
Chain O 26–208（183 aa） Fragment：UNP residues 26-208
Chain T 26–208（183 aa） Fragment：UNP residues 26-208
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 20.00 Å
3JCB Structure of Simian Immunodeficiency Virus Envelope Spikes bound with CD4 and Monoclonal Antibody 36D5 Deposited 2015-11-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 26–200（175 aa） Fragment：UNP residues 26-200
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM vitrification conditions Cryogen ETHANE；Plunged into liquid ethane.
Resolution not provided
3JCC Structure of Simian Immunodeficiency Virus Envelope Spikes bound with CD4 and Monoclonal Antibody 36D5 Deposited 2015-11-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 26–200（175 aa） Fragment：UNP residues 26-200
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM vitrification conditions Cryogen ETHANE；Plunged into liquid ethane.
Resolution not provided
3JWD Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility Deposited 2009-09-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions pH 9.5；293 K；4.5 % PEG 8000, 01M CHES, pH 9.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.61 Å R-free 0.275
3JWD Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility Deposited 2009-09-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 9.5；293 K；4.5 % PEG 8000, 01M CHES, pH 9.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.61 Å R-free 0.275
3JWO Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility Deposited 2009-09-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 8；293 K；5.3% PEG8000, 0.2M Calcium acetate, 0.1M imidazole, pH 8.0, VAPOR DIFFUSION, temperature 293K
Resolution 3.51 Å R-free 0.273
3LQA Crystal structure of clade C gp120 in complex with sCD4 and 21c Fab Deposited 2010-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–207（182 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；20% (w/v) PEG monomethyl ether 2000, 5% (v/v) PEG 200, 0.2 M Trimethylamine N-oxide, 0.1 M Tris-HCl pH 8.5 , VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.40 Å R-free 0.322
3O2D Crystal structure of HIV-1 primary receptor CD4 in complex with a potent antiviral antibody Deposited 2010-07-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 26–207（182 aa） Fragment：UNP residues 26-207
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.5；293 K；3 M Na malonate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Resolution 2.19 Å R-free 0.224
3S4S Crystal structure of CD4 mutant bound to HLA-DR1 Deposited 2011-05-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain G 26–203（178 aa） Fragment：UNP residues 26-203
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；PEG 8000, (NH4)SO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.40 Å R-free 0.286
3S4S Crystal structure of CD4 mutant bound to HLA-DR1 Deposited 2011-05-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain H 26–203（178 aa） Fragment：UNP residues 26-203
Not recorded GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；PEG 8000, (NH4)SO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.40 Å R-free 0.286
3S5L Crystal structure of CD4 mutant bound to HLA-DR1 Deposited 2011-05-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain G 26–203（178 aa） Fragment：CD4
Mutation：Q40Y, T45W, S60R, D63R GOL GLYCEROL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；PEG 8000, (NH4)SO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.10 Å R-free 0.268
3S5L Crystal structure of CD4 mutant bound to HLA-DR1 Deposited 2011-05-23 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain H 26–203（178 aa） Fragment：CD4
Mutation：Q40Y, T45W, S60R, D63R GOL GLYCEROL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；PEG 8000, (NH4)SO4, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.10 Å R-free 0.268
3T0E Crystal structure of a complete ternary complex of T cell receptor, peptide-MHC and CD4 Deposited 2011-07-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric
Chain E 26–388（363 aa） Fragment：unp residues 26-398
Mutation：Q40Y, T45W No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 8；277 K；10 mM Tris-HCl pH8, 10 mM NaAc pH5.2, 5 mM NaCl, EVAPORATION, temperature 277K
Resolution 4.00 Å R-free 0.305
4H8W Crystal structure of non-neutralizing and ADCC-potent antibody N5-i5 in complex with HIV-1 clade A/E gp120 and sCD4. Deposited 2012-09-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 MRD (4R)-2-METHYLPENTANE-2,4-DIOL × 3 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；295 K；11-13% PEG 8000, 100 mM Tris-HCl pH 8.5, 65 mM sodium chloride added to well after mixing drop, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.85 Å R-free 0.215
4JM2 Crystal Structure of PGT 135 Fab in Complex with gp120 Core Protein from HIV-1 Strain JR-FL Bound to CD4 and 17b Fab Deposited 2013-03-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain F 26–208（183 aa） Fragment：Ig-like V-type and C2-type 1 domains (UNP residues 26-208)
Not recorded PG4 TETRAETHYLENE GLYCOL × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；20% PEG2000, 0.1 M Tris, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.10 Å R-free 0.285
4P9H Crystal structure of 8ANC195 Fab in complex with gp120 of 93TH057 HIV-1 and soluble CD4 D1D2 Deposited 2014-04-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 26–207（182 aa） Fragment：CD4 D1D2
Mutation：K75T EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 BEN BENZAMIDINE × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；pH 7.3；298 K；PEG 3350, HEPES, benzamidine
Resolution 3.00 Å R-free 0.272
4Q6I Crystal structure of murine 2D5 Fab, a potent anti-CD4 HIV-1-neutralizing antibody in complex with CD4 Deposited 2014-04-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain K 1–208（208 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.5 M (NH4)2SO4, 200 mM MgCl2, 150 mM NaCl, 100 mM NaAc pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.65 Å R-free 0.257
4Q6I Crystal structure of murine 2D5 Fab, a potent anti-CD4 HIV-1-neutralizing antibody in complex with CD4 Deposited 2014-04-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain J 1–208（208 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.5 M (NH4)2SO4, 200 mM MgCl2, 150 mM NaCl, 100 mM NaAc pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.65 Å R-free 0.257
4Q6I Crystal structure of murine 2D5 Fab, a potent anti-CD4 HIV-1-neutralizing antibody in complex with CD4 Deposited 2014-04-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain I 1–208（208 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.5 M (NH4)2SO4, 200 mM MgCl2, 150 mM NaCl, 100 mM NaAc pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.65 Å R-free 0.257
4Q6I Crystal structure of murine 2D5 Fab, a potent anti-CD4 HIV-1-neutralizing antibody in complex with CD4 Deposited 2014-04-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 1–208（208 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.5 M (NH4)2SO4, 200 mM MgCl2, 150 mM NaCl, 100 mM NaAc pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.65 Å R-free 0.257
4R2G Crystal Structure of PGT124 Fab bound to HIV-1 JRCSF gp120 core and to CD4 Deposited 2014-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain F 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 CL CHLORIDE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；2.4M ammonium sulphate, 0.1M Tris, 13% glycerol, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.28 Å R-free 0.263
4R2G Crystal Structure of PGT124 Fab bound to HIV-1 JRCSF gp120 core and to CD4 Deposited 2014-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 CL CHLORIDE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；2.4M ammonium sulphate, 0.1M Tris, 13% glycerol, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.28 Å R-free 0.263
4R2G Crystal Structure of PGT124 Fab bound to HIV-1 JRCSF gp120 core and to CD4 Deposited 2014-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain H 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 CL CHLORIDE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；2.4M ammonium sulphate, 0.1M Tris, 13% glycerol, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.28 Å R-free 0.263
4R2G Crystal Structure of PGT124 Fab bound to HIV-1 JRCSF gp120 core and to CD4 Deposited 2014-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain L 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 CL CHLORIDE ION × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；2.4M ammonium sulphate, 0.1M Tris, 13% glycerol, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 3.28 Å R-free 0.263
4R4H Crystal structure of non-neutralizing, A32-like antibody 2.2c in complex with HIV-1 Env gp120 Deposited 2014-08-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–203（178 aa） Fragment：UNP residues 26-203
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；291 K；10% PEG 5000 MME, 100 mM sodium acetate, and 100 mM Tris-HCl pH 8.5 , VAPOR DIFFUSION, HANGING DROP, temperature 291K
Resolution 4.28 Å R-free 0.320
4RQS Crystal structure of fully glycosylated HIV-1 gp120 core bound to CD4 and 17b Fab Deposited 2014-11-05 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.4 M sodium formate, 16.6% PEG 3350, 0.1 M CaCl2, 0.1 M Acetate pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 4.49 Å R-free 0.322
4RQS Crystal structure of fully glycosylated HIV-1 gp120 core bound to CD4 and 17b Fab Deposited 2014-11-05 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain B 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.5；293 K；1.4 M sodium formate, 16.6% PEG 3350, 0.1 M CaCl2, 0.1 M Acetate pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 4.49 Å R-free 0.322
5A7X negative stain EM of BG505 SOSIP.664 in complex with sCD4, 17b, and 8ANC195 Deposited 2015-07-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 26–206（181 aa）
Chain F 26–206（181 aa）
Chain J 26–206（181 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer 20MM TRIS, 50 MM NACL；pH 8；20MM TRIS, 50 MM NACL
Resolution 17.00 Å
5A8H cryo-ET subtomogram averaging of BG505 SOSIP.664 in complex with sCD4, 17b, and 8ANC195 Deposited 2015-07-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric
Chain B 26–208（183 aa） Fragment：SOLUBLE CD4 D1-D2 DOMAINS, RESIDUES26-208
Chain H 26–208（183 aa） Fragment：SOLUBLE CD4 D1-D2 DOMAINS, RESIDUES26-208
Chain N 26–208（183 aa） Fragment：SOLUBLE CD4 D1-D2 DOMAINS, RESIDUES26-208
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY
cryo-EM buffer 20MM TRIS, 50MM NACL；pH 8；20MM TRIS, 50MM NACL
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE；VITRIFICATION 1 -- CRYOGEN- ETHANE-PROPANE MIXTURE, HUMIDITY- 95, TEMPERATURE- 70, INSTRUMENT- FEI
Resolution 23.00 Å
5CAY Envelope glycoprotein gp120 core from HIV type 2 bound to the first two domains of human soluble CD4 receptor Deposited 2015-06-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 26–208（183 aa） Fragment：domains 1 and 2 (UNP residues 26-208)
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.15M DL-Malic acid 7.0, 0.1M imidazole pH 7.0, 22% PEGMME 550
Resolution 3.00 Å R-free 0.287
5THR Cryo-EM structure of a BG505 Env-sCD4-17b-8ANC195 complex Deposited 2016-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain G 26–207（182 aa） Fragment：UNP residues 26-207
Chain H 26–207（182 aa） Fragment：UNP residues 26-207
Chain I 26–207（182 aa） Fragment：UNP residues 26-207
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 8.90 Å
5U1F Initial contact of HIV-1 Env with CD4: Cryo-EM structure of BG505 DS-SOSIP trimer in complex with CD4 and antibody PGT145 Deposited 2016-11-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain M 26–388（363 aa） Fragment：UNP residues 26-388
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.80 Å
5VN3 Cryo-EM model of B41 SOSIP.664 in complex with soluble CD4 (D1-D2) and fragment antigen binding variable domain of 17b Deposited 2017-04-28 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 26–208（183 aa）
Chain E 26–208（183 aa）
Chain F 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；DDM was added to a final concentration of 0.06 mM prior to vitrification
cryo-EM vitrification conditions Cryogen ETHANE；3 uL of sample applied to a holey carbon grid on glow discharged face and blotted manually on sample side until filter paper detached from grid, followed by immediate plunging
Resolution 3.70 Å
6CM3 BG505 SOSIP in complex with sCD4, 17b, 8ANC195 Deposited 2018-03-02 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain G 26–207（182 aa）
Chain H 26–207（182 aa）
Chain I 26–207（182 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE-PROPANE
Resolution 3.54 Å
6EDU B41 SOSIP.664 in complex with soluble CD4 (D1-D2), the co-receptor mimicking antibody 21c and the broadly neutralizing antibody 8ANC195 Deposited 2018-08-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain G 26–208（183 aa）
Chain H 26–208（183 aa）
Chain I 26–208（183 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.06 Å
6L1Y structure of gp120/CD4 with a non-canonical surface Deposited 2019-10-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 26–202（177 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 7.4；293 K；0.1 M HEPES sodium, pH 7.4, 11% PEG 4000 and 10% 2-propanol
Resolution 2.47 Å R-free 0.257
6MEO Structural basis of coreceptor recognition by HIV-1 envelope spike Deposited 2018-09-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 26–201（176 aa） Fragment：Ig-like V-type and Ig-like C2-type 1 domains, residues 26-201
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 BMA beta-D-mannopyranose × 1 A2G 2-acetamido-2-deoxy-alpha-D-galactopyranose × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；100 mM Tris-HCl, pH 8.0, 150 mM NaCl, 1 mM EDTA, 0.001% LMNG (w/v), 0.025% DDM (w/v), and 0.04 % CHS (w/v)
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
6MET Structural basis of coreceptor recognition by HIV-1 envelope spike Deposited 2018-09-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 26–388（363 aa） Fragment：Ig-like V-type 1 and Ig-like C2-type 1,2,3 domains, residues 26-388
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 A2G 2-acetamido-2-deoxy-alpha-D-galactopyranose × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8；100 mM Tris-HCl, pH 8.0, 150 mM NaCl, 1 mM EDTA, 0.001% LMNG (w/v), 0.025% DDM (w/v), and 0.04 % CHS (w/v).
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.50 Å
6OPN CD4- and 17-bound HIV-1 Env B41 SOSIP in complex with small molecule GO35 Deposited 2019-04-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain C 25–203（179 aa）
Chain F 25–203（179 aa）
Chain I 25–203（179 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 N07 [3'-(5-methyl-1,3,4-oxadiazol-2-yl)[1,1'-biphenyl]-3-yl](piperidin-1-yl)methanone × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent (LMNG) added shortly (<5 minutes) prior to grid freezing using an 8X concentrated stock.
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6OPO Symmetric model of CD4- and 17-bound B41 HIV-1 Env SOSIP in complex with DDM Deposited 2019-04-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 25–203（179 aa）
Chain G 25–203（179 aa）
Chain N 25–203（179 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 LMT DODECYL-BETA-D-MALTOSIDE × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；DDM added shortly (<5 minutes) prior to freezing.
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6OPP Asymmetric model of CD4- and 17-bound B41 HIV-1 Env SOSIP in complex with DDM Deposited 2019-04-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 25–203（179 aa）
Chain F 25–203（179 aa）
Chain M 25–203（179 aa）
Not recorded LMT DODECYL-BETA-D-MALTOSIDE × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent added shortly (<5 minutes) prior to grid freezing
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6OPQ CD4- and 17-bound HIV-1 Env B41 SOSIP frozen with LMNG Deposited 2019-04-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 25–203（179 aa）
Chain I 25–203（179 aa）
Chain J 25–203（179 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent (LMNG) added shortly (<5 minutes) prior to grid freezing using an 8X concentrated stock.
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.80 Å
6U0L Asymmetrically open conformational state (Class I) of HIV-1 Env trimer BG505 SOSIP.664 in complex with sCD4 and E51 Fab Deposited 2019-08-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain D 26–207（182 aa） Fragment：D1-D2 domain
Chain E 26–207（182 aa） Fragment：D1-D2 domain
Chain F 26–207（182 aa） Fragment：D1-D2 domain
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.30 Å
6U0N Asymmetrically open conformational state (Class II) of HIV-1 Env trimer BG505 SOSIP.664 in complex with sCD4 and E51 Fab Deposited 2019-08-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain D 26–207（182 aa）
Chain E 26–207（182 aa）
Chain F 26–207（182 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 24 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
6X5B Symmetric model of CD4- and 17-bound B41 HIV-1 Env SOSIP in complex with small molecule GO52 Deposited 2020-05-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain C 25–203（179 aa）
Chain G 25–203（179 aa）
Chain N 25–203（179 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 27 UOV N-(4'-methyl[1,1'-biphenyl]-4-yl)-1-oxa-7-azaspiro[3.5]nonane-7-carboxamide × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent diluted into sample shortly before application to grid
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.60 Å
6X5C Asymmetric model of CD4-bound B41 HIV-1 Env SOSIP in complex with small molecule GO52 Deposited 2020-05-25 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain C 25–203（179 aa）
Chain I 25–203（179 aa）
Chain J 25–203（179 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 23 UOV N-(4'-methyl[1,1'-biphenyl]-4-yl)-1-oxa-7-azaspiro[3.5]nonane-7-carboxamide × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；Detergent diluted into sample shortly before application to grid
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.04 Å
7T0O cryoEM reconstruction of the HIV gp140 in complex with the extracellular domains of CD4 and the adnectin domain of Combinectin. The gp140 and CD4 coordinates from entry 6EDU were rigid body fitted to the EM map along withe the crystal structure of CD4+adnectin Deposited 2021-11-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain H 26–389（364 aa）
Chain L 26–389（364 aa）
Chain M 26–389（364 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 8.70 Å
7T0R Crystal structure of the anti-CD4 adnectin 6940_B01 as a complex with the extracellular domains of CD4 and ibalizumab fAb Deposited 2021-11-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 26–389（364 aa） Fragment：Extra-cellular domains D1-D4
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；295 K；0.01 M Na3 Citrate, 15.5% PEG3350, 0.3 M (NH4)2H Citrate, 0.1 M AmSO4
Resolution 3.65 Å R-free 0.292
7T0R Crystal structure of the anti-CD4 adnectin 6940_B01 as a complex with the extracellular domains of CD4 and ibalizumab fAb Deposited 2021-11-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 26–389（364 aa） Fragment：Extra-cellular domains D1-D4
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；295 K；0.01 M Na3 Citrate, 15.5% PEG3350, 0.3 M (NH4)2H Citrate, 0.1 M AmSO4
Resolution 3.65 Å R-free 0.292
7TXD Cryo-EM structure of BG505 SOSIP HIV-1 Env trimer in complex with CD4 receptor (D1D2) and broadly neutralizing darpin bnD.9 Deposited 2022-02-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain G 26–208（183 aa） Fragment：D1-D2
Chain H 26–208（183 aa） Fragment：D1-D2
Chain I 26–208（183 aa） Fragment：D1-D2
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 30 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.87 Å
8D5C anti-HIV-1 gp120-sCD4 complex antibody CG10 Fab in complex with B41-sCD4 Deposited 2022-06-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain D 26–208（183 aa）
Chain E 26–208（183 aa）
Chain F 26–208（183 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
8FYI Structure of HIV-1 BG505 SOSIP-HT1 in complex with one CD4 molecule Deposited 2023-01-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: heptameric
Chain Z 26–396（371 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 35 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8W90 crystal structure of CD4-D1D2 with Nb457 Deposited 2023-09-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 26–203（178 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；289.15 K；0.1 M sodium cacodylate trihydrate pH 6.8, 1.4 M sodium acetate trihydrate
Resolution 1.81 Å R-free 0.206
8W90 crystal structure of CD4-D1D2 with Nb457 Deposited 2023-09-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 26–203（178 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；289.15 K；0.1 M sodium cacodylate trihydrate pH 6.8, 1.4 M sodium acetate trihydrate
Resolution 1.81 Å R-free 0.206
8W90 crystal structure of CD4-D1D2 with Nb457 Deposited 2023-09-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain F 26–203（178 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；289.15 K；0.1 M sodium cacodylate trihydrate pH 6.8, 1.4 M sodium acetate trihydrate
Resolution 1.81 Å R-free 0.206
8Z7N Structure of HIV-1 CH119 SOSIP.664 trimer in complex with CD4 molecules Deposited 2024-04-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric
Chain C 1–392（392 aa）
Chain F 1–392（392 aa）
Chain I 1–392（392 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 18 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.58 Å
9D8Y Cryo-EM structure of HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-VRC34.01 Fab with one gp120 rotated, Population 4 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain M 26–121（96 aa） Fragment：residues 1-96
Chain N 26–121（96 aa） Fragment：residues 1-96
Chain O 26–121（96 aa） Fragment：residues 1-96
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.06 Å
9D90 Cryo-EM structure of partially open HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-17b Fab and 3-VRC34.01 Fab, Population 1 Deposited 2024-08-20 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric
Chain M 26–206（181 aa）
Chain N 26–206（181 aa）
Chain O 26–206（181 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.91 Å
9D98 Cryo-EM structure of HIV-1 BG505 SOSIP.664 Env bound to 3-sCD4, 3-VRC34.01 Fab with two gp120 protomers rotated, Population 5 Deposited 2024-08-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric
Chain M 26–206（181 aa）
Chain N 26–206（181 aa）
Chain O 26–206（181 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.19 Å
9MET CXCR4-HIV-2/gp120-CD4 Deposited 2024-12-08 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric
Chain A 26–201（176 aa） Fragment：Ig-like V-type and Ig-like C2-type 1 domains (UNP residues 26-201)
Chain R 26–201（176 aa） Fragment：Ig-like V-type and Ig-like C2-type 1 domains (UNP residues 26-201)
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 5.65 Å
9OAJ AMC008 v4.2 SOSIP Env trimer in complex with CD4 D1D2 Deposited 2025-04-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric
Chain C 1–458（458 aa）
Chain D 1–458（458 aa）
Chain G 1–458（458 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 21 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.91 Å

78 other PDB entries and 99 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CD4_HUMAN
Isoform —
PDB entities 4
Chains and sequence ranges Author chain Y； PDBConstruct 1–371； UniProt 26–396 Author chain Z； PDBConstruct 1–371； UniProt 26–396

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 8fyj

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8fyj
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8fyj
Deposition date deposition_date2023-01-26
Structure title titleStructure of HIV-1 BG505 SOSIP-HT2 in complex with two CD4 molecules (class I)
Keywords keywordsViral protein, HIV-1, IMMUNE SYSTEM, Viral protein-IMMUNE SYSTEM complex; Viral protein/IMMUNE SYSTEM
Experimental Method methodELECTRON MICROSCOPY
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier48.05 Å
Radius of gyration Rg (electron density) rg_electron47.77 Å
Forward intensity I(0) i0682927000.00
Molecular weight molecular_weight214330.0 kDa
Excluded volume excluded_volume267820 ų
Envelope volume envelope_volume386550 ų
Hydration-shell volume shell_volume69074 ų
Envelope diameter envelope_diameter178.9 Å
Shell Rg shell_rg50.19 Å
Envelope Rg envelope_rg47.79 Å
Shape Rg shape_rg47.74 Å
Total Rg total_rg47.98 Å
Total atoms total_atoms15027
Residues n_residues1849
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax169.9 Å
Rg (real space) rg_real48.07 Å
Rg uncertainty (real space) rg_real_error1.78 Å
I(0) (real space) i0_real6.8290e+08
I(0) uncertainty (real space) i0_real_error1.4190e+07
Rg (reciprocal space) rg_reciprocal48.05 Å
I(0) (reciprocal space) i0_reciprocal682900000.0000
Solution quality estimate total_estimate0.8529
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary66.9 Å
Skewness Skewness skewness0.332
Kurtosis Kurtosis kurtosis-0.099
Angular range angular_range— – 0.1650 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha46880000.0000
Real-space data points n_real_points34
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.737; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.878
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (9)

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8. Citations (1)

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9. Files and Curves (10)