Structure of PDB 1o38 Chain A Binding Site BS02

Receptor Information
>1o38 Chain A (length=223) Species: 9913 (Bos taurus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRL
GEDNINVVEGNEQFISASKSIVHPSYNSNTLNNDIMLIKLKSAASLNSRV
ASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKAPILSDSSCKS
AYPGQITSNMFCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQK
NKPGVYTKVCNYVSWIKQTIASN
Ligand information
Ligand ID653
InChIInChI=1S/C22H21N5O/c23-9-8-13-10-16(14-4-2-1-3-5-14)20(28)17(11-13)22-26-18-7-6-15(21(24)25)12-19(18)27-22/h1-7,10-12,28H,8-9,23H2,(H3,24,25)(H,26,27)/p+1
InChIKeyYYUZFCLHOQHMPT-UHFFFAOYSA-O
SMILES
SoftwareSMILES
CACTVS 3.341NC(=[NH2+])c1ccc2[nH]c(nc2c1)c3cc(CC[NH3+])cc(c3[O-])c4ccccc4
ACDLabs 10.04[O-]c4c(c1ccccc1)cc(cc4c3nc2cc(ccc2n3)\C(=[NH2+])N)CC[NH3+]
OpenEye OEToolkits 1.5.0c1ccc(cc1)c2cc(cc(c2[O-])c3[nH]c4ccc(cc4n3)C(=[NH2+])N)CC[NH3+]
FormulaC22 H22 N5 O
Name5-(2-AMINOETHYL)-3-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL-2-YL}-1,1'-BIPHENYL-2-OLATE;
CRA_23653
ChEMBL
DrugBankDB04246
ZINC
PDB chain1o38 Chain A Residue 246 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1o38 Elaborate manifold of short hydrogen bond arrays mediating binding of active site-directed serine protease inhibitors.
Resolution1.38 Å
Binding residue
(original residue number in PDB)		H57 D189 S190 Q192 S195 V213 W215 G219
Binding residue
(residue number reindexed from 1)		H40 D171 S172 Q174 S177 V191 W193 G196
Annotation score1
Binding affinityMOAD: Ki=0.15uM
PDBbind-CN: -logKd/Ki=6.82,Ki=0.15uM
Enzymatic activity
Catalytic site (original residue number in PDB) H57 D102 Q192 G193 D194 S195 G196
Catalytic site (residue number reindexed from 1) H40 D84 Q174 G175 D176 S177 G178
Enzyme Commision number 3.4.21.4: trypsin.
Gene Ontology
Molecular Function
GO:0004175 endopeptidase activity
GO:0004252 serine-type endopeptidase activity
GO:0005515 protein binding
GO:0008236 serine-type peptidase activity
GO:0046872 metal ion binding
GO:0097655 serpin family protein binding
Biological Process
GO:0006508 proteolysis
GO:0007586 digestion
Cellular Component
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0097180 serine protease inhibitor complex

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1o38, PDBe:1o38, PDBj:1o38
PDBsum1o38
PubMed12742021
UniProtP00760|TRY1_BOVIN Serine protease 1 (Gene Name=PRSS1)

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