Current Protein Identity：P01730
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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 |
|---|---|---|---|---|---|---|---|
| 1CDH STRUCTURES OF AN HIV AND MHC BINDING FRAGMENT FROM HUMAN CD4 AS REFINED IN TWO CRYSTAL LATTICES Deposited 1994-01-26 | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Other combination Heteromer；Protein × 16 PDB declaration: hexadecameric（16） Consistent with protein count |
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 | Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 3 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric（5） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric（6） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 4 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 4 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric（18） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 18 PDB declaration: octadecameric（18） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric（3） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric（4） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric（12） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: heptameric（7） Consistent with protein count |
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 |
| 8FYJ Structure of HIV-1 BG505 SOSIP-HT2 in complex with two CD4 molecules (class I) Deposited 2023-01-26 | Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
Chain Y
26–396（371 aa）
Chain Z
26–396（371 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
|
Resolution 4.00 Å |
| 8W90 crystal structure of CD4-D1D2 with Nb457 Deposited 2023-09-04 | Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 21 PDB declaration: 21-meric（21） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 15 PDB declaration: pentadecameric（15） Consistent with protein count |
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 | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric（8） Consistent with protein count |
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 | Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric（9） Consistent with protein count |
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 |