Structure of PDB 6v2f Chain E Binding Site BS01

Receptor Information
>6v2f Chain E (length=206) Species: 11676 (Human immunodeficiency virus 1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PIVMVHQCISPRTLNAWVKVVEEKAFSPEVIPMFSALSCGATPQDLNTML
NTVGGHQAAMQMLKETINEEAAEWDRLHPPGQMREPRGSDIAGTTSTLQE
QIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYSPTSILDIRQGPKEPFRD
YVDRFYKTLRAEQASQEVKNAATETLLVQNANPDCKTILKALGPGATLEE
MMTACQ
Ligand information
Ligand IDQNG
InChIInChI=1S/C39H32ClF10N7O5S2/c1-36(2,63(3,59)60)10-9-21-5-6-22(23-7-8-26(40)30-32(23)57(17-37(43,44)45)54-35(30)55-64(4,61)62)31(51-21)27(13-18-11-19(41)14-20(42)12-18)52-28(58)16-56-34-29(33(53-56)39(48,49)50)24-15-25(24)38(34,46)47/h5-8,11-12,14,24-25,27H,13,15-17H2,1-4H3,(H,52,58)(H,54,55)/t24-,25+,27-/m0/s1
InChIKeyBRYXUCLEHAUSDY-WEWMWRJBSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01C(Cc1cc(F)cc(c1)F)(c2nc(ccc2c3ccc(c4c3n(CC(F)(F)F)nc4NS(C)(=O)=O)Cl)C#CC(S(C)(=O)=O)(C)C)NC(=O)Cn5c6c(c(n5)C(F)(F)F)C7C(C6(F)F)C7
CACTVS 3.385CC(C)(C#Cc1ccc(c(n1)[CH](Cc2cc(F)cc(F)c2)NC(=O)Cn3nc(c4[CH]5C[CH]5C(F)(F)c34)C(F)(F)F)c6ccc(Cl)c7c(N[S](C)(=O)=O)nn(CC(F)(F)F)c67)[S](C)(=O)=O
CACTVS 3.385CC(C)(C#Cc1ccc(c(n1)[C@H](Cc2cc(F)cc(F)c2)NC(=O)Cn3nc(c4[C@H]5C[C@H]5C(F)(F)c34)C(F)(F)F)c6ccc(Cl)c7c(N[S](C)(=O)=O)nn(CC(F)(F)F)c67)[S](C)(=O)=O
OpenEye OEToolkits 2.0.7CC(C)(C#Cc1ccc(c(n1)C(Cc2cc(cc(c2)F)F)NC(=O)Cn3c4c(c(n3)C(F)(F)F)C5CC5C4(F)F)c6ccc(c7c6n(nc7NS(=O)(=O)C)CC(F)(F)F)Cl)S(=O)(=O)C
OpenEye OEToolkits 2.0.7CC(C)(C#Cc1ccc(c(n1)[C@H](Cc2cc(cc(c2)F)F)NC(=O)Cn3c4c(c(n3)C(F)(F)F)[C@H]5C[C@H]5C4(F)F)c6ccc(c7c6n(nc7NS(=O)(=O)C)CC(F)(F)F)Cl)S(=O)(=O)C
FormulaC39 H32 Cl F10 N7 O5 S2
NameN-[(1S)-1-(3-{4-chloro-3-[(methylsulfonyl)amino]-1-(2,2,2-trifluoroethyl)-1H-indazol-7-yl}-6-[3-methyl-3-(methylsulfonyl)but-1-yn-1-yl]pyridin-2-yl)-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-5,5-difluoro-3-(trifluoromethyl)-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide;
Lenacapavir
ChEMBLCHEMBL4594438
DrugBankDB15673
ZINC
PDB chain6v2f Chain E Residue 300 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6v2f Clinical targeting of HIV capsid protein with a long-acting small molecule.
Resolution2.0 Å
Binding residue
(original residue number in PDB)
N53 T54 L56 N57 Q63 M66 Q67 L69 K70 I73 N74 T107 Y130
Binding residue
(residue number reindexed from 1)
N47 T48 L50 N51 Q57 M60 Q61 L63 K64 I67 N68 T94 Y117
Annotation score1
Binding affinityMOAD: Kd=240pM
Enzymatic activity
Enzyme Commision number ?
Gene Ontology

View graph for
Biological Process
External links
PDB RCSB:6v2f, PDBe:6v2f, PDBj:6v2f
PDBsum6v2f
PubMed32612233
UniProtP12493|GAG_HV1N5 Gag polyprotein (Gene Name=gag)

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