Structure of PDB 8asf Chain H Binding Site BS02

Receptor Information
>8asf Chain H (length=251) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPW
DKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDI
ALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKETGQP
SVLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGG
PFVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQF
G
Ligand information
Ligand IDNWF
InChIInChI=1S/C29H35ClN4O4S3/c30-25-8-7-24(41-25)27(36)31-12-23-29(38)33-10-1-2-22(15-33)28(37)34-13-21(14-34)18-40-17-20-5-3-19(4-6-20)16-39-11-9-26(35)32-23/h3-8,21-23H,1-2,9-18H2,(H,31,36)(H,32,35)/t22-,23+/m0/s1
InChIKeyDMWNMQDHKVVIKK-XZOQPEGZSA-N
SMILES
SoftwareSMILES
CACTVS 3.385Clc1sc(cc1)C(=O)NC[CH]2NC(=O)CCSCc3ccc(CSCC4CN(C4)C(=O)[CH]5CCC[N](C5)C2=O)cc3
OpenEye OEToolkits 3.1.0.0c1cc2ccc1CSCCC(=O)N[C@@H](C(=O)N3CCC[C@@H](C3)C(=O)N4CC(C4)CSC2)CNC(=O)c5ccc(s5)Cl
OpenEye OEToolkits 3.1.0.0c1cc2ccc1CSCCC(=O)NC(C(=O)N3CCCC(C3)C(=O)N4CC(C4)CSC2)CNC(=O)c5ccc(s5)Cl
CACTVS 3.385Clc1sc(cc1)C(=O)NC[C@H]2NC(=O)CCSCc3ccc(CSCC4CN(C4)C(=O)[C@H]5CCC[N@@](C5)C2=O)cc3
FormulaC29 H35 Cl N4 O4 S3
Name5-chloranyl-~{N}-[[(9~{S},15~{R})-8,14,17-tris(oxidanylidene)-3,20-dithia-7,13,16-triazatetracyclo[20.2.2.1^{5,7}.1^{9,13}]octacosa-1(25),22(26),23-trien-15-yl]methyl]thiophene-2-carboxamide
ChEMBL
DrugBank
ZINC
PDB chain8asf Chain H Residue 301 [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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PDB8asf Crystal structure of Thrombin in complex with optimized macrocycles T1 and T3
Resolution2.58 Å
Binding residue
(original residue number in PDB)
Y60A W60D E97A L99 D189 A190 C191 E192 W215 G216 G219 F227
Binding residue
(residue number reindexed from 1)
Y47 W50 E94 L96 D192 A193 C194 E195 W220 G221 G223 F232
Annotation score1
Enzymatic activity
Enzyme Commision number 3.4.21.5: thrombin.
Gene Ontology
Molecular Function
GO:0004252 serine-type endopeptidase activity
GO:0005509 calcium ion binding
Biological Process
GO:0006508 proteolysis
GO:0007596 blood coagulation

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:8asf, PDBe:8asf, PDBj:8asf
PDBsum8asf
PubMed
UniProtP00734|THRB_HUMAN Prothrombin (Gene Name=F2)

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