Structure of PDB 4y6d Chain A Binding Site BS01

Receptor Information
>4y6d Chain A (length=230) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IVGGQECKDGECPWQALLINEENEGFCGGTILSEFYILTAAHCLYQAKRF
KVRVGDRNTEQEAVHEVEVVIKHNRFTKETYDFDIAVLRLKTPITFRMNV
APACLPERDWAESTLMTQKTGIVSGFGRTHEKGRQSTRLKMLEVPYVDRN
SCKLSSSFIITQNMFCAGYDTKQEDACQGDSGGPHVTRFKDTYFVTGIVS
WGEGCARKGKYGIYTKVTAFLKWIDRSMKT
Ligand information
Ligand ID48U
InChIInChI=1S/C19H19ClFN3O4S2/c1-23(2)18(25)12-3-5-16(14(21)11-12)24-9-7-15(19(24)26)22-30(27,28)10-8-13-4-6-17(20)29-13/h3-6,8,10-11,15,22H,7,9H2,1-2H3/b10-8+/t15-/m0/s1
InChIKeyYVFKLOGRKAMHKF-HQPKTYMTSA-N
SMILES
SoftwareSMILES
CACTVS 3.385CN(C)C(=O)c1ccc(N2CC[C@H](N[S](=O)(=O)\C=C\c3sc(Cl)cc3)C2=O)c(F)c1
CACTVS 3.385CN(C)C(=O)c1ccc(N2CC[CH](N[S](=O)(=O)C=Cc3sc(Cl)cc3)C2=O)c(F)c1
OpenEye OEToolkits 1.9.2CN(C)C(=O)c1ccc(c(c1)F)N2CCC(C2=O)NS(=O)(=O)C=Cc3ccc(s3)Cl
OpenEye OEToolkits 1.9.2CN(C)C(=O)c1ccc(c(c1)F)N2CC[C@@H](C2=O)NS(=O)(=O)/C=C/c3ccc(s3)Cl
ACDLabs 12.01Clc3sc(/C=C/S(=O)(=O)NC2C(=O)N(c1ccc(C(=O)N(C)C)cc1F)CC2)cc3
FormulaC19 H19 Cl F N3 O4 S2
Name4-[(3S)-3-({[(E)-2-(5-chlorothiophen-2-yl)ethenyl]sulfonyl}amino)-2-oxopyrrolidin-1-yl]-3-fluoro-N,N-dimethylbenzamide;
GTC000101
ChEMBLCHEMBL607085
DrugBank
ZINCZINC000045387787
PDB chain4y6d Chain A Residue 301 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB4y6d TBA
Resolution1.55 Å
Binding residue
(original residue number in PDB)
T98 Y99 F174 D189 A190 Q192 V213 W215 G216 G226 I227 Y228
Binding residue
(residue number reindexed from 1)
T80 Y81 F158 D175 A176 Q178 V199 W201 G202 G212 I213 Y214
Annotation score1
Binding affinityBindingDB: IC50=4.83nM,Ki=1.5nM
Enzymatic activity
Catalytic site (original residue number in PDB) H57 D102 Q192 G193 D194 S195 G196
Catalytic site (residue number reindexed from 1) H42 D84 Q178 G179 D180 S181 G182
Enzyme Commision number 3.4.21.6: coagulation factor Xa.
Gene Ontology
Molecular Function
GO:0004252 serine-type endopeptidase activity
Biological Process
GO:0006508 proteolysis

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Molecular Function

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Biological Process
External links
PDB RCSB:4y6d, PDBe:4y6d, PDBj:4y6d
PDBsum4y6d
PubMed
UniProtP00742|FA10_HUMAN Coagulation factor X (Gene Name=F10)

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