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Protein Structures and Oligomeric States

Enter a protein name, UniProt accession or PDB ID. Name searches ask you to confirm the protein identity before related structures are queried.

Current Protein Identity：Q0ED31 New Search
19PDB entries
32Biological assembly
94chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
3NGB Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120 Deposited 2010-06-11 Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 BGC beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；10% PEG 4000, 9% Isopropanol, 0.1M Ammonium Sulfate, 0.1M Tris/Cl-, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.68 Å R-free 0.256
3NGB Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120 Deposited 2010-06-11 Assembly 2 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain A 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain A 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 BGC beta-D-glucopyranose × 7 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；10% PEG 4000, 9% Isopropanol, 0.1M Ammonium Sulfate, 0.1M Tris/Cl-, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.68 Å R-free 0.256
3NGB Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120 Deposited 2010-06-11 Assembly 3 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain D 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain D 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain D 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 BGC beta-D-glucopyranose × 2 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；10% PEG 4000, 9% Isopropanol, 0.1M Ammonium Sulfate, 0.1M Tris/Cl-, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.68 Å R-free 0.256
3NGB Crystal structure of broadly and potently neutralizing antibody VRC01 in complex with HIV-1 gp120 Deposited 2010-06-11 Assembly 4 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain I 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain I 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain I 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 BGC beta-D-glucopyranose × 3 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；10% PEG 4000, 9% Isopropanol, 0.1M Ammonium Sulfate, 0.1M Tris/Cl-, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.68 Å R-free 0.256
3U7Y Structure of NIH45-46 Fab in complex with gp120 of 93TH057 HIV Deposited 2011-10-14 Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：gp120 core (UNP RESIDUES 43-122, 201-303, 325-486)
Chain G 201–303（103 aa） Fragment：gp120 core (UNP RESIDUES 43-122, 201-303, 325-486)
Chain G 325–486（162 aa） Fragment：gp120 core (UNP RESIDUES 43-122, 201-303, 325-486)
Mutation：V65C, S115C Mutation：V65C, S115C Mutation：V65C, S115C FLC CITRATE ANION × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5；293 K；12% isopropanol, 10% polyethylene glycol 10,000, 0.1 M sodium citrate pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.45 Å R-free 0.256
4DKU Crystal structure of clade A/E 93TH057 HIV-1 gp120 core in complex with NBD-09027 Deposited 2012-02-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 43–122（80 aa） Fragment：Chimera residue 44-492
Chain A 201–303（103 aa） Fragment：Chimera residue 44-492
Chain A 325–486（162 aa） Fragment：Chimera residue 44-492
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 0KU N-(4-chlorophenyl)-N'-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2S)-piperidin-2-yl]methyl}ethanediamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.49 Å R-free 0.249
4DKU Crystal structure of clade A/E 93TH057 HIV-1 gp120 core in complex with NBD-09027 Deposited 2012-02-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 43–122（80 aa） Fragment：Chimera residue 44-492
Chain B 201–303（103 aa） Fragment：Chimera residue 44-492
Chain B 325–486（162 aa） Fragment：Chimera residue 44-492
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 0KU N-(4-chlorophenyl)-N'-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2S)-piperidin-2-yl]methyl}ethanediamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.49 Å R-free 0.249
4DKV Crystal structure of clade A/E 93TH057 HIV-1 gp120 core in complex with NBD-10007 Deposited 2012-02-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 43–122（80 aa） Fragment：Chimera residues 44-492
Chain A 201–303（103 aa） Fragment：Chimera residues 44-492
Chain A 325–486（162 aa） Fragment：Chimera residues 44-492
Mutation：V1V2 and V3 deletion, His 375 to Ser Mutation：V1V2 and V3 deletion, His 375 to Ser Mutation：V1V2 and V3 deletion, His 375 to Ser NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 0KW N-(4-chlorophenyl)-N'-{(S)-[5-(2-hydroxyethyl)-4-methyl-1,3-thiazol-2-yl][(2S)-piperidin-2-yl]methyl}ethanediamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.18 Å R-free 0.235
4DKV Crystal structure of clade A/E 93TH057 HIV-1 gp120 core in complex with NBD-10007 Deposited 2012-02-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 43–122（80 aa） Fragment：Chimera residues 44-492
Chain B 201–303（103 aa） Fragment：Chimera residues 44-492
Chain B 325–486（162 aa） Fragment：Chimera residues 44-492
Mutation：V1V2 and V3 deletion, His 375 to Ser Mutation：V1V2 and V3 deletion, His 375 to Ser Mutation：V1V2 and V3 deletion, His 375 to Ser NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 0KW N-(4-chlorophenyl)-N'-{(S)-[5-(2-hydroxyethyl)-4-methyl-1,3-thiazol-2-yl][(2S)-piperidin-2-yl]methyl}ethanediamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.18 Å R-free 0.235
4OLU Crystal structure of antibody VRC07 in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；12% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.20 Å R-free 0.248
4OLV Crystal structure of antibody VRC07-G54F in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；12% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.50 Å R-free 0.253
4OLW Crystal structure of antibody VRC07-G54H in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；10% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.71 Å R-free 0.257
4OLX Crystal structure of antibody VRC07-G54L in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
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；293 K；12% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.20 Å R-free 0.247
4OLY Crystal structure of antibody VRC07-G54R in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；12% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.35 Å R-free 0.244
4OLZ Crystal structure of antibody VRC07-G54W in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；14% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.10 Å R-free 0.254
4OM0 Crystal structure of antibody VRC07-G54Y in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；14% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.29 Å R-free 0.247
4OM1 Crystal structure of antibody VRC07-I30Q, G54W, S58N in complex with clade A/E 93TH057 HIV-1 gp120 core Deposited 2014-01-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；14% PEG 4000, 0.2M Sodium Acetate, 0.1M Tris 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.13 Å R-free 0.226
4P9H Crystal structure of 8ANC195 Fab in complex with gp120 of 93TH057 HIV-1 and soluble CD4 D1D2 Deposited 2014-04-04 Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count
Chain G 43–122（80 aa） Fragment：GP120 CORE, (UNP RESIDUES 43-122, 201-303, 325-486)
Not recorded 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
4RZ8 Crystal structure of HIV-1 gp120 core in complex with NBD-11021, a small molecule CD4-antagonist Deposited 2014-12-18 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain A 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain A 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 3ZM 5-(4-chlorophenyl)-N-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2R)-piperidin-2-yl]methyl}-1H-pyrrole-2-carboxamide × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.243
4RZ8 Crystal structure of HIV-1 gp120 core in complex with NBD-11021, a small molecule CD4-antagonist Deposited 2014-12-18 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain B 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain B 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 9 3ZM 5-(4-chlorophenyl)-N-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2R)-piperidin-2-yl]methyl}-1H-pyrrole-2-carboxamide × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.243
4RZ8 Crystal structure of HIV-1 gp120 core in complex with NBD-11021, a small molecule CD4-antagonist Deposited 2014-12-18 Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain C 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain C 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain C 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 3ZM 5-(4-chlorophenyl)-N-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2R)-piperidin-2-yl]methyl}-1H-pyrrole-2-carboxamide × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.243
4RZ8 Crystal structure of HIV-1 gp120 core in complex with NBD-11021, a small molecule CD4-antagonist Deposited 2014-12-18 Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain D 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain D 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain D 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S Mutation：V1V2 and V3 deletion, H375S NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 3ZM 5-(4-chlorophenyl)-N-{(S)-[5-(hydroxymethyl)-4-methyl-1,3-thiazol-2-yl][(2R)-piperidin-2-yl]methyl}-1H-pyrrole-2-carboxamide × 1 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；10% PEG 8000, 5% iso-propanol, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.243
4XNZ Crystal structure of broadly and potently neutralizing antibody VRC06B in complex with HIV-1 clade A/E strain 93TH057 gp120 Deposited 2015-01-16 Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；7% PEG 3350, 2.5% isopropanol, 0.1M Tris-HCl, pH 8.5
Resolution 3.39 Å R-free 0.301
4XNZ Crystal structure of broadly and potently neutralizing antibody VRC06B in complex with HIV-1 clade A/E strain 93TH057 gp120 Deposited 2015-01-16 Assembly 2 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain A 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain A 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；7% PEG 3350, 2.5% isopropanol, 0.1M Tris-HCl, pH 8.5
Resolution 3.39 Å R-free 0.301
4XNZ Crystal structure of broadly and potently neutralizing antibody VRC06B in complex with HIV-1 clade A/E strain 93TH057 gp120 Deposited 2015-01-16 Assembly 3 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain D 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain D 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Chain D 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；293 K；7% PEG 3350, 2.5% isopropanol, 0.1M Tris-HCl, pH 8.5
Resolution 3.39 Å R-free 0.301
4YDJ Crystal structure of broadly and potently neutralizing antibody 44-VRC13.01 in complex with HIV-1 clade AE strain 93TH057 gp120 Deposited 2015-02-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 IPA ISOPROPYL ALCOHOL × 2 BU3 (R,R)-2,3-BUTANEDIOL × 1 NA SODIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；9.5% PEG 8000, 15% isopropanol, 0.1M imidazole, pH 6.5
Resolution 2.31 Å R-free 0.249
4YDJ Crystal structure of broadly and potently neutralizing antibody 44-VRC13.01 in complex with HIV-1 clade AE strain 93TH057 gp120 Deposited 2015-02-22 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain I 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain I 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain I 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 IPA ISOPROPYL ALCOHOL × 1 BU3 (R,R)-2,3-BUTANEDIOL × 3 PEG DI(HYDROXYETHYL)ETHER × 3 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；293 K；9.5% PEG 8000, 15% isopropanol, 0.1M imidazole, pH 6.5
Resolution 2.31 Å R-free 0.249
4YDK Crystal structure of broadly and potently neutralizing antibody C38-VRC16.01 in complex with HIV-1 clade AE strain 93TH057 gp120 Deposited 2015-02-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486,UNP residues 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 PEG DI(HYDROXYETHYL)ETHER × 7 GOL GLYCEROL × 13 NHE 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9.5；293 K；7.5% PEG 8000, 0.1M CHES, pH 9.5
Resolution 2.05 Å R-free 0.206
4YDL Crystal structure of broadly and potently neutralizing antibody C38-VRC18.02 in complex with HIV-1 clade AE strain 93TH057gp120 Deposited 2015-02-22 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；9.0% PEG 4000, 4.5% isopropanol, 0.1M HEPES, pH 7.5
Resolution 1.80 Å R-free 0.207
4YDL Crystal structure of broadly and potently neutralizing antibody C38-VRC18.02 in complex with HIV-1 clade AE strain 93TH057gp120 Deposited 2015-02-22 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain A 43–122（80 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain A 201–303（103 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Chain A 325–486（162 aa） Fragment：UNP residues 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 11 EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；9.0% PEG 4000, 4.5% isopropanol, 0.1M HEPES, pH 7.5
Resolution 1.80 Å R-free 0.207
4YFL Crystal structure of VH1-46 germline-derived CD4-binding site-directed antibody 1B2530 in complex with HIV-1 clade A/E 93TH057 gp120 Deposited 2015-02-25 Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain G 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Chain G 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Chain G 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 6 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；8% w/v PEG 8000, 0.2 M sodium acetate and 0.1 m sodium cacodylate, pH 6.5
Resolution 3.39 Å R-free 0.326
4YFL Crystal structure of VH1-46 germline-derived CD4-binding site-directed antibody 1B2530 in complex with HIV-1 clade A/E 93TH057 gp120 Deposited 2015-02-25 Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count
Chain E 43–122（80 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Chain E 201–303（103 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Chain E 325–486（162 aa） Fragment：UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486,UNP RESIDUES 43-122, 201-303, 325-486
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.5；298 K；8% w/v PEG 8000, 0.2 M sodium acetate and 0.1 m sodium cacodylate, pH 6.5
Resolution 3.39 Å R-free 0.326

This page presents structural evidence recorded in PDB/mmCIF.“No recorded non-water small molecule” does not prove that the experimental sample was ligand-free; experimental conditions belong to the PDB experiment, while ligands and copy counts are shown for each biological assembly.