Structure of PDB 6p6m Chain A Binding Site BS01

Receptor Information
>6p6m Chain A (length=201) Species: 11104 (Hepatitis C virus (isolate 1)) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GSHMASMKKKGSVVIVGRINLSGDTAYAQQTRGEEGCQETSQTGRDKNQV
EGEVQIVSTATQTFLATSINGVLWTVYHGAGTRTIASPKGPVTQMYTNVD
KDLVGWQAPQGSRSLTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSP
RPISYLKGSSGGPLLCPAGHAVGIFRAAVCTRGVAKAVDFIPVESLETTM
R
Ligand information
Ligand IDO31
InChIInChI=1S/C38H46F4N6O9S/c1-35(2,3)28-32(50)48-19-20(17-24(48)30(49)46-37(18-21(37)29(39)40)33(51)47-58(53,54)36(4)14-15-36)56-31-27(43-22-9-5-6-10-23(22)44-31)38(41,42)13-8-16-55-25-11-7-12-26(25)57-34(52)45-28/h5-6,8-10,13,20-21,24-26,28-29H,7,11-12,14-19H2,1-4H3,(H,45,52)(H,46,49)(H,47,51)/b13-8+/t20-,21+,24+,25-,26-,28-,37-/m1/s1
InChIKeyMLSQGNCUYAMAHD-ITNVBOSISA-N
SMILES
SoftwareSMILES
ACDLabs 12.01C7(C(C(NS(C1(C)CC1)(=O)=O)=O)(NC(C3CC4Oc6c(C(C=CCOC2C(CCC2)OC(=O)NC(C(N3C4)=O)C(C)(C)C)(F)F)nc5ccccc5n6)=O)C7)C(F)F
CACTVS 3.385CC(C)(C)[CH]1NC(=O)O[CH]2CCC[CH]2OCC=CC(F)(F)c3nc4ccccc4nc3O[CH]5C[CH]([N](C5)C1=O)C(=O)N[C]6(C[CH]6C(F)F)C(=O)N[S](=O)(=O)C7(C)CC7
OpenEye OEToolkits 2.0.7CC1(CC1)S(=O)(=O)NC(=O)C2(CC2C(F)F)NC(=O)C3CC4CN3C(=O)C(NC(=O)OC5CCCC5OCC=CC(c6c(nc7ccccc7n6)O4)(F)F)C(C)(C)C
OpenEye OEToolkits 2.0.7CC1(CC1)S(=O)(=O)NC(=O)[C@]2(C[C@H]2C(F)F)NC(=O)[C@@H]3C[C@@H]4CN3C(=O)[C@@H](NC(=O)O[C@@H]5CCC[C@H]5OC/C=C/C(c6c(nc7ccccc7n6)O4)(F)F)C(C)(C)C
CACTVS 3.385CC(C)(C)[C@@H]1NC(=O)O[C@@H]2CCC[C@H]2OC/C=C/C(F)(F)c3nc4ccccc4nc3O[C@@H]5C[C@H]([N@](C5)C1=O)C(=O)N[C@@]6(C[C@H]6C(F)F)C(=O)N[S](=O)(=O)C7(C)CC7
FormulaC38 H46 F4 N6 O9 S
Name(3aR,7S,10S,12R,21E,24aR)-7-tert-butyl-N-[(1R,2R)-2-(difluoromethyl)-1-{[(1-methylcyclopropyl)sulfonyl]carbamoyl}cyclop ropyl]-20,20-difluoro-5,8-dioxo-2,3,3a,5,6,7,8,11,12,20,23,24a-dodecahydro-1H,10H-9,12-methanocyclopenta[18,19][1,10,17, 3,6]trioxadiazacyclononadecino[11,12-b]quinoxaline-10-carboxamide;
glecaprevir
ChEMBLCHEMBL3545363
DrugBankDB13879
ZINCZINC000164528615
PDB chain6p6m Chain A Residue 1301 [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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PDB6p6m HCV NS3/4A protease domain of genotype 1a in complex with glecaprevir
Resolution2.201 Å
Binding residue
(original residue number in PDB)
Q1041 F1043 H1057 D1081 R1123 I1132 L1135 K1136 G1137 S1139 F1154 R1155 A1156 A1157 D1168
Binding residue
(residue number reindexed from 1)
Q62 F64 H78 D102 R144 I153 L156 K157 G158 S160 F175 R176 A177 A178 D189
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.48: RNA-directed RNA polymerase.
3.4.21.98: hepacivirin.
3.4.22.-
3.6.1.15: nucleoside-triphosphate phosphatase.
3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0008236 serine-type peptidase activity
Biological Process
GO:0006508 proteolysis
GO:0019087 transformation of host cell by virus

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Molecular Function

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Biological Process
External links
PDB RCSB:6p6m, PDBe:6p6m, PDBj:6p6m
PDBsum6p6m
PubMed
UniProtP26664|POLG_HCV1 Genome polyprotein

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