Structure of PDB 1y5u Chain T Binding Site BS02

Receptor Information
>1y5u Chain T (length=223) Species: 9913 (Bos taurus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IVGGYTCGANTVPYQVSLNSGYHFCGGSLINSQWVVSAAHCYKSGIQVRL
GEDNINVVEGNEQFISASKSIVHPSYNSETYNNDIMLIKLKSAASLNSRV
ASISLPTSCASAGTQCLISGWGNTKSSGTSYPDVLKCLKAPILSDSSCKS
AYPGQITSNMFCAGYLEGGKDSCQGDSGGPVVCSGKLQGIVSWGSGCAQK
NKPGVYTKVCNYVSWIKQTIASN
Ligand information
Ligand IDTL4
InChIInChI=1S/C20H22N4O4/c21-19(22)11-4-6-13(7-5-11)27-15-9-25-18-16(10-26-17(15)18)28-14-3-1-2-12(8-14)20(23)24/h1-8,15-18H,9-10H2,(H3,21,22)(H3,23,24)/t15-,16+,17-,18-/m1/s1
InChIKeyDKBAWRNTUZFJKV-XMTFNYHQSA-N
SMILES
SoftwareSMILES
CACTVS 3.341NC(=N)c1ccc(O[C@@H]2CO[C@@H]3[C@H](CO[C@H]23)Oc4cccc(c4)C(N)=N)cc1
OpenEye OEToolkits 1.5.0c1cc(cc(c1)O[C@H]2CO[C@H]3[C@@H]2OC[C@H]3Oc4ccc(cc4)C(=N)N)C(=N)N
OpenEye OEToolkits 1.5.0c1cc(cc(c1)OC2COC3C2OCC3Oc4ccc(cc4)C(=N)N)C(=N)N
ACDLabs 10.04O(c1ccc(C(=[N@H])N)cc1)C3C4OCC(Oc2cc(C(=[N@H])N)ccc2)C4OC3
CACTVS 3.341NC(=N)c1ccc(O[CH]2CO[CH]3[CH](CO[CH]23)Oc4cccc(c4)C(N)=N)cc1
FormulaC20 H22 N4 O4
Name2-O-{3-[AMINO(IMINO)METHYL]PHENYL}-5-O-{4-[AMINO(IMINO)METHYL]PHENYL}-1,4:3,6-DIANHYDRO-D-GLUCITOL;
2-O-(3'-AMIDINOPHENYL)-5-O-(4''-AMIDINOPHENYL}-1,4:3,6-DIANHYDRO-D-SORBITOL
ChEMBL
DrugBankDB04793
ZINCZINC000003990709
PDB chain1y5u Chain T Residue 360 [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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PDB1y5u Understanding binding selectivity toward trypsin and factor Xa: the role of aromatic interactions
Resolution1.6 Å
Binding residue
(original residue number in PDB)
T98 Y99 Q175 D189 S190 C191 S195 V213 W215 G219
Binding residue
(residue number reindexed from 1)
T80 Y81 Q155 D171 S172 C173 S177 V191 W193 G196
Annotation score1
Binding affinityMOAD: Kd=0.22uM
Enzymatic activity
Catalytic site (original residue number in PDB) G193 S195 G196
Catalytic site (residue number reindexed from 1) G175 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

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Cellular Component
External links
PDB RCSB:1y5u, PDBe:1y5u, PDBj:1y5u
PDBsum1y5u
PubMed17191291
UniProtP00760|TRY1_BOVIN Serine protease 1 (Gene Name=PRSS1)

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