Structure of PDB 1b5g Chain H Binding Site BS03

Receptor Information
>1b5g Chain H (length=250) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLLYPPW
DKNFTENDLLVRIGKHSRTRYERNIEKISMLEKIYIHPRYNWRENLDRDI
ALMKLKKPVAFSDYIHPVCLPDRETAASLLQAGYKGRVTGWGNLKEGQPS
VLQVVNLPIVERPVCKDSTRIRITDNMFCAGYKPDEGKRGDACEGDSGGP
FVMKSPFNNRWYQMGIVSWGEGCDRDGKYGFYTHVFRLKKWIQKVIDQFG
Ligand information
Ligand ID0ZE
InChIInChI=1S/C29H37N7O3S/c30-28(31)33-16-6-10-21(24(37)26-35-20-9-4-5-11-23(20)40-26)34-25(38)22-13-12-19-14-15-29(32,27(39)36(19)22)17-18-7-2-1-3-8-18/h1-5,7-9,11,19,21-22,24,37H,6,10,12-17,32H2,(H,34,38)(H4,30,31,33)/p+1/t19-,21+,22+,24+,29+/m1/s1
InChIKeyDKILHAQNHIMEGI-ICSWELKVSA-O
SMILES
SoftwareSMILES
CACTVS 3.370NC(=[NH2+])NCCC[C@H](NC(=O)[C@@H]1CC[C@@H]2CC[C@](N)(Cc3ccccc3)C(=O)N12)[C@H](O)c4sc5ccccc5n4
OpenEye OEToolkits 1.7.0c1ccc(cc1)CC2(CCC3CCC(N3C2=O)C(=O)NC(CCCNC(=[NH2+])N)C(c4nc5ccccc5s4)O)N
OpenEye OEToolkits 1.7.0c1ccc(cc1)C[C@]2(CC[C@H]3CC[C@H](N3C2=O)C(=O)N[C@@H](CCCNC(=[NH2+])N)[C@@H](c4nc5ccccc5s4)O)N
ACDLabs 12.01O=C4N1C(CCC1C(=O)NC(CCCNC(=[NH2+])\N)C(O)c2nc3ccccc3s2)CCC4(N)Cc5ccccc5
CACTVS 3.370NC(=[NH2+])NCCC[CH](NC(=O)[CH]1CC[CH]2CC[C](N)(Cc3ccccc3)C(=O)N12)[CH](O)c4sc5ccccc5n4
FormulaC29 H38 N7 O3 S
Name[[[(4S,5S)-4-[[(3S,6S,8aR)-6-azanyl-5-oxo-6-(phenylmethyl)-1,2,3,7,8,8a-hexahydroindolizin-3-yl]carbonylamino]-5-(1,3-b enzothiazol-2-yl)-5-hydroxy-pentyl]amino]-azanyl-methylidene]azanium;
MOL-168
ChEMBL
DrugBank
ZINC
PDB chain1b5g Chain H Residue 372 [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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PDB1b5g Bound structures of novel P3-P1' beta-strand mimetic inhibitors of thrombin.
Resolution2.07 Å
Binding residue
(original residue number in PDB)
H57 Y60A W60D D189 A190 E192 G193 S195 S214 W215 G216 G219
Binding residue
(residue number reindexed from 1)
H43 Y47 W50 D191 A192 E194 G195 S197 S218 W219 G220 G222
Annotation score1
Binding affinityPDBbind-CN: -logKd/Ki=8.00,Ki=10nM
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:1b5g, PDBe:1b5g, PDBj:1b5g
PDBsum1b5g
PubMed10212123
UniProtP00734|THRB_HUMAN Prothrombin (Gene Name=F2)

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