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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：P0C6F2 New Search
18PDB entries
20Biological assembly
97chain/assembly records
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method 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
3LP3 p15 HIV RNaseH domain with inhibitor MK3 Deposited 2010-02-04 Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain A 1014–1149（136 aa） Fragment：residues 1014-1149
Not recorded MN MANGANESE (II) ION × 2 LP9 3-[4-(diethylamino)phenoxy]-6-(ethoxycarbonyl)-5,8-dihydroxy-7-oxo-7,8-dihydro-1,8-naphthyridin-1-ium × 1 X-RAY DIFFRACTION
X-ray crystallization conditions hanging drop；pH 6.8；298 K；0.1 M Sodium citrate pH 5.0, 15-20% PEG 8000, hanging drop, temperature 298K
Resolution 2.80 Å R-free 0.288
3LP3 p15 HIV RNaseH domain with inhibitor MK3 Deposited 2010-02-04 Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric（1） Consistent with protein count
Chain B 1014–1149（136 aa） Fragment：residues 1014-1149
Not recorded MN MANGANESE (II) ION × 2 LP9 3-[4-(diethylamino)phenoxy]-6-(ethoxycarbonyl)-5,8-dihydroxy-7-oxo-7,8-dihydro-1,8-naphthyridin-1-ium × 1 X-RAY DIFFRACTION
X-ray crystallization conditions hanging drop；pH 6.8；298 K；0.1 M Sodium citrate pH 5.0, 15-20% PEG 8000, hanging drop, temperature 298K
Resolution 2.80 Å R-free 0.288
3LP3 p15 HIV RNaseH domain with inhibitor MK3 Deposited 2010-02-04 Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1014–1149（136 aa） Fragment：residues 1014-1149
Chain B 1014–1149（136 aa） Fragment：residues 1014-1149
Not recorded MN MANGANESE (II) ION × 4 LP9 3-[4-(diethylamino)phenoxy]-6-(ethoxycarbonyl)-5,8-dihydroxy-7-oxo-7,8-dihydro-1,8-naphthyridin-1-ium × 2 X-RAY DIFFRACTION
X-ray crystallization conditions hanging drop；pH 6.8；298 K；0.1 M Sodium citrate pH 5.0, 15-20% PEG 8000, hanging drop, temperature 298K
Resolution 2.80 Å R-free 0.288
3TH9 Crystal Structure of HIV-1 Protease Mutant Q7K V32I L63I with a cyclic sulfonamide inhibitor Deposited 2011-08-18 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：HIV protease
Chain B 489–587（99 aa） Fragment：HIV protease
Mutation：Q7K V32I L63I Mutation：Q7K V32I L63I 9Y9 tert-butyl {(2S,3R)-4-[(4S)-7-fluoro-4-methyl-1,1-dioxido-4,5-dihydro-1,2-benzothiazepin-2(3H)-yl]-3-hydroxy-1-phenylbutan-2-yl}carbamate × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.4；295 K；0.1 M sodium acetate buffer, 0.4M NaCl, pH 5.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.34 Å R-free 0.190
3VFA Crystal Structure of HIV-1 Protease Mutant V82A with novel P1'-Ligands GRL-02031 Deposited 2012-01-09 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：UNP residues 501-599
Chain B 489–587（99 aa） Fragment：UNP residues 501-599
Mutation：Q507K, L33I5, L563I, C567A, V582A, C595A Mutation：Q507K, L33I5, L563I, C567A, V582A, C595A 031 (3aS,5R,6aR)-hexahydro-2H-cyclopenta[b]furan-5-yl [(1S,2R)-1-benzyl-2-hydroxy-3-([(4-methoxyphenyl)sulfonyl]{[(2R)-5-oxopyrrolidin-2-yl]methyl}amino)propyl]carbamate × 1 NA SODIUM ION × 1 CL CHLORIDE ION × 8 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；0.6M NaCl, 0.1M Sodium Acetate buffer pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.43 Å R-free 0.218
4I8W Crystal structure of wild type HIV-1 protease in complex with non-peptidic inhibitor, GRL007 Deposited 2012-12-04 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa）
Chain B 489–587（99 aa）
Not recorded G07 4-{[(2R,3S)-3-({[(3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yloxy]carbonyl}amino)-2-hydroxy-4-phenylbutyl](2-methylpropyl)sulfamoyl}benzoic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9；298 K；1.6 M ammonium sulfate (precipitant) in 0.1 M BICINE buffer, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.96 Å R-free 0.233
4I8Z Crystal structure of wild type HIV-1 protease in complex with non-peptidic inhibitor, GRL008 Deposited 2012-12-04 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa）
Chain B 489–587（99 aa）
Not recorded G08 (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(2S,3R)-4-{[(4-carbamoylphenyl)sulfonyl](2-methylpropyl)amino}-3-hydroxy-1-phenylbutan-2-yl]carbamate × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9；298 K；1.6 M ammonium sulfate (precipitant) in 0.1 M BICINE buffer, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 1.75 Å R-free 0.220
4MC1 HIV protease in complex with SA526P Deposited 2013-08-21 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：UNP residues 489-587
Chain B 489–587（99 aa） Fragment：UNP residues 489-587
Mutation：Q7K V32I L63I Mutation：Q7K V32I L63I CL CHLORIDE ION × 3 526 (3S)-tetrahydrofuran-3-yl {(2S,3R)-4-[(4S)-4-tert-butyl-7-fluoro-1,1-dioxido-4,5-dihydro-1,2-benzothiazepin-2(3H)-yl]-3-hydroxy-1-phenylbutan-2-yl}carbamate × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；295 K；0.7 M sodium chloride, 100 mM sodium citrate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.39 Å R-free 0.188
4MC2 HIV protease in complex with SA525P Deposited 2013-08-21 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：UNP residues 489-587
Chain B 489–587（99 aa） Fragment：UNP residues 489-587
Mutation：Q7K V32I L63I Mutation：Q7K V32I L63I 525 (3S)-tetrahydrofuran-3-yl {(2S,3R)-4-[(4R)-4-tert-butyl-7-fluoro-1,1-dioxido-4,5-dihydro-1,2-benzothiazepin-2(3H)-yl]-3-hydroxy-1-phenylbutan-2-yl}carbamate × 2 CL CHLORIDE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；295 K；0.7 M sodium chloride, 100 mM sodium citrate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.56 Å R-free 0.207
4MC6 HIV protease in complex with SA499 Deposited 2013-08-21 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：UNP residues 489-587
Chain B 489–587（99 aa） Fragment：UNP residues 489-587
Mutation：Q7K V32I L63I Mutation：Q7K V32I L63I 23K 1-tert-butyl-3-{(2S,3R)-4-[(4R)-7-fluoro-1,1-dioxido-4-(propan-2-yl)-4,5-dihydro-1,2-benzothiazepin-2(3H)-yl]-3-hydroxy-1-phenylbutan-2-yl}urea × 1 EDO 1,2-ETHANEDIOL × 1 CL CHLORIDE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；295 K；0.7 M sodium chloride, 100 mM sodium citrate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.31 Å R-free 0.198
4MC9 HIV protease in complex with AA74 Deposited 2013-08-21 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：UNP residues 489-587
Chain B 489–587（99 aa） Fragment：UNP residues 489-587
Mutation：Q7K V32I L63I Mutation：Q7K V32I L63I 23L (3S)-tetrahydrofuran-3-yl {(2S,3R)-4-[(4R)-7-fluoro-1,1-dioxido-4-(propan-2-yl)-4,5-dihydro-1,2-benzothiazepin-2(3H)-yl]-3-hydroxy-1-phenylbutan-2-yl}carbamate × 2 EDO 1,2-ETHANEDIOL × 2 CL CHLORIDE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5；295 K；0.7 M sodium chloride, 100 mM sodium citrate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Resolution 1.19 Å R-free 0.195
4NYF HIV integrase in complex with inhibitor Deposited 2013-12-10 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 1199–1357（159 aa） Fragment：Integrase catalytic domain residues 1199-1357
Chain B 1199–1357（159 aa） Fragment：Integrase catalytic domain residues 1199-1357
Mutation：C56S, W131D, F139D, F185K Mutation：C56S, W131D, F139D, F185K 4BI (2S)-tert-butoxy[4-(4-chlorophenyl)-2-methylquinolin-3-yl]ethanoic acid × 1 CD CADMIUM ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；297 K；1.2 -1.5 M Ammonium Sulfate, 100mM Na citrate pH 5.6, 50mM Cadmium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Resolution 1.90 Å R-free 0.223
4QGI X-ray crystal structure of HIV-1 protease variant G48T/L89M in complex with Saquinavir Deposited 2014-05-22 Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain A 489–587（99 aa） Fragment：HIV-1 Protease Chain A, unp residues 489-587
Chain B 489–587（99 aa） Fragment：HIV-1 Protease Chain A, unp residues 489-587
Mutation：G48T, L89M Mutation：G48T, L89M ROC (2S)-N-[(2S,3R)-4-[(2S,3S,4aS,8aS)-3-(tert-butylcarbamoyl)-3,4,4a,5,6,7,8,8a-octahydro-1H-isoquinolin-2-yl]-3-hydroxy-1 -phenyl-butan-2-yl]-2-(quinolin-2-ylcarbonylamino)butanediamide × 1 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；293 K；0.1 M Sodium citrate, 20% 2-propanol, 20% PEG 4000 , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 1.90 Å R-free 0.246
5K14 HIV-1 Reverse Transcriptase in complex with a 2,6-difluorophenyl DAPY analog Deposited 2016-05-17 Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric（2） Consistent with protein count
Chain B 588–1027（440 aa）
Not recorded IB1 4-{[4-(2,6-difluoro-4-methoxybenzene-1-carbonyl)pyrimidin-2-yl]amino}benzonitrile × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6；293 K；1.0M K/Na tartrate 100mM MES pH 6.0
Resolution 2.40 Å R-free 0.261
6Y9V Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-8,13) Deposited 2020-03-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 133–352（220 aa）
Chain B 133–352（220 aa）
Chain C 133–352（220 aa）
Chain D 133–352（220 aa）
Chain G 133–352（220 aa）
Chain H 133–352（220 aa）
Chain N 133–352（220 aa）
Chain Y 133–352（220 aa）
Chain d 133–352（220 aa）
Chain e 133–352（220 aa）
Chain j 133–352（220 aa）
Chain k 133–352（220 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.90 Å
6Y9W Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,8) Deposited 2020-03-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 133–352（220 aa）
Chain B 133–352（220 aa）
Chain C 133–352（220 aa）
Chain D 133–352（220 aa）
Chain G 133–352（220 aa）
Chain H 133–352（220 aa）
Chain N 133–352（220 aa）
Chain Y 133–352（220 aa）
Chain d 133–352（220 aa）
Chain e 133–352（220 aa）
Chain j 133–352（220 aa）
Chain k 133–352（220 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.10 Å
6Y9X Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,7) Deposited 2020-03-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 133–352（220 aa）
Chain B 133–352（220 aa）
Chain C 133–352（220 aa）
Chain D 133–352（220 aa）
Chain G 133–352（220 aa）
Chain H 133–352（220 aa）
Chain N 133–352（220 aa）
Chain Y 133–352（220 aa）
Chain d 133–352（220 aa）
Chain e 133–352（220 aa）
Chain j 133–352（220 aa）
Chain k 133–352（220 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.40 Å
6Y9Y Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-7,13) Deposited 2020-03-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 133–352（220 aa）
Chain B 133–352（220 aa）
Chain C 133–352（220 aa）
Chain D 133–352（220 aa）
Chain G 133–352（220 aa）
Chain H 133–352（220 aa）
Chain N 133–352（220 aa）
Chain Y 133–352（220 aa）
Chain d 133–352（220 aa）
Chain e 133–352（220 aa）
Chain j 133–352（220 aa）
Chain k 133–352（220 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 6.10 Å
6Y9Z Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,9) Deposited 2020-03-10 Assembly 1 Protein heterocomplex Heteromer；Protein × 13 PDB declaration: tridecameric（13） Consistent with protein count
Chain A 133–352（220 aa）
Chain B 133–352（220 aa）
Chain C 133–352（220 aa）
Chain D 133–352（220 aa）
Chain G 133–352（220 aa）
Chain H 133–352（220 aa）
Chain N 133–352（220 aa）
Chain Y 133–352（220 aa）
Chain d 133–352（220 aa）
Chain e 133–352（220 aa）
Chain j 133–352（220 aa）
Chain k 133–352（220 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 4.80 Å
9JA0 The capsid protein of HIV 1 Deposited 2024-08-23 Assembly 1 Protein homooligomer Homooligomer；Protein × 12 PDB declaration: dodecameric（12） Consistent with protein count
Chain A 133–353（221 aa）
Chain B 133–353（221 aa）
Chain C 133–353（221 aa）
Chain D 133–353（221 aa）
Chain E 133–353（221 aa）
Chain F 133–353（221 aa）
Chain G 133–353（221 aa）
Chain H 133–353（221 aa）
Chain I 133–353（221 aa）
Chain J 133–353（221 aa）
Chain K 133–353（221 aa）
Chain L 133–353（221 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.14 Å

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.