Structure of PDB 5ka7 Chain A Binding Site BS01

Receptor Information
>5ka7 Chain A (length=298) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SMEMEKEFEQIDKSGSWAAIYQDIRHEASDFPCRVAKLPKNKNRNRYRDV
SPFDHSRIKLHQEDNDYINASLIKMEEAQRSYILTQGPLPNTCGHFWEMV
WEQKSRGVVMLNRVMEKGSLKCAQYWPQKEEKEMIFEDTNLKLTLISEDI
KSYYTVRQLELENLTTQETREILHFHYTAWPDFGVPESPASFLNFLFKVR
ESGSLSPEHGPVVVHCSAGIGRSGTFCLADTCLLLMDKRKDPSSVDIKKV
LLEMRKFRMGLIQTADQLRFSYLAVIEGAKFIMGDSSVQDQWKELSHE
Ligand information
Ligand IDOTA
InChIInChI=1S/C10H10N2O5S/c13-7(10(16)17)12-8-6(9(14)15)4-1-2-11-3-5(4)18-8/h11H,1-3H2,(H,12,13)(H,14,15)(H,16,17)
InChIKeyZIBMATWHOAGNTR-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04O=C(O)C(=O)Nc1sc2c(c1C(=O)O)CCNC2
OpenEye OEToolkits 1.5.0C1CNCc2c1c(c(s2)NC(=O)C(=O)O)C(=O)O
CACTVS 3.341OC(=O)C(=O)Nc1sc2CNCCc2c1C(O)=O
FormulaC10 H10 N2 O5 S
Name2-(OXALYL-AMINO)-4,5,6,7-TETRAHYDRO-THIENO[2,3-C]PYRIDINE-3-CARBOXYLIC ACID
ChEMBLCHEMBL139393
DrugBankDB03670
ZINCZINC000001551920
PDB chain5ka7 Chain A Residue 303 [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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PDB5ka7 Conformational Rigidity and Protein Dynamics at Distinct Timescales Regulate PTP1B Activity and Allostery.
Resolution2.061 Å
Binding residue
(original residue number in PDB)		Y46 D48 K120 D181 F182 C215 S216 A217 I219 G220 R221 Q262
Binding residue
(residue number reindexed from 1)		Y47 D49 K121 D182 F183 C216 S217 A218 I220 G221 R222 Q263
Annotation score1
Binding affinityMOAD: Kd=45uM
PDBbind-CN: -logKd/Ki=4.35,Kd=45uM
BindingDB: IC50=500000nM,Ki=11500nM
Enzymatic activity
Catalytic site (original residue number in PDB) D181 C215 R221 S222 Q262
Catalytic site (residue number reindexed from 1) D182 C216 R222 S223 Q263
Enzyme Commision number 3.1.3.48: protein-tyrosine-phosphatase.
Gene Ontology
Molecular Function
GO:0004725 protein tyrosine phosphatase activity
Biological Process
GO:0006470 protein dephosphorylation
GO:0016311 dephosphorylation

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5ka7, PDBe:5ka7, PDBj:5ka7
PDBsum5ka7
PubMed28212750
UniProtP18031|PTN1_HUMAN Tyrosine-protein phosphatase non-receptor type 1 (Gene Name=PTPN1)

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