Structure of PDB 2qu6 Chain B Binding Site BS01

Receptor Information
>2qu6 Chain B (length=260) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YDASKWEFPRDRLKLGKPLGRQVIEADAFGIDKTATCRTVAVKMLKEGAT
HSEHRALMSELKILIHIGHHLNVVNLLGACTKPGGPLMVITEFCKFGNLS
TYLRSKRNEFVPFLTLEHLICYSFQVAKGMEFLASRKCIHRDLAARNILL
SEKNVVKICDFLPLKWMAPETIFDRVYTIQSDVWSFGVLLWEIFSLGASP
YPGVKIDEEFCRRLKEGTRMRAPDYTTPEMYQTMLDCWHGEPSQRPTFSE
LVEHLGNLLQ
Ligand information
Ligand ID857
InChIInChI=1S/C26H26ClN5O4/c1-28-25(33)22-14-19(9-10-29-22)35-18-6-8-23-21(13-18)31-26(36-23)30-16-5-7-20(27)24(12-16)34-15-17-4-3-11-32(17)2/h5-10,12-14,17H,3-4,11,15H2,1-2H3,(H,28,33)(H,30,31)/t17-/m0/s1
InChIKeyKMNCFOUKJYOZIF-KRWDZBQOSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CNC(=O)c1cc(ccn1)Oc2ccc3c(c2)nc(o3)Nc4ccc(c(c4)OCC5CCCN5C)Cl
OpenEye OEToolkits 1.5.0CNC(=O)c1cc(ccn1)Oc2ccc3c(c2)nc(o3)Nc4ccc(c(c4)OC[C@@H]5CCC[N@]5C)Cl
ACDLabs 10.04O=C(NC)c5nccc(Oc1cc2nc(oc2cc1)Nc4ccc(Cl)c(OCC3N(C)CCC3)c4)c5
CACTVS 3.341CNC(=O)c1cc(Oc2ccc3oc(Nc4ccc(Cl)c(OC[CH]5CCCN5C)c4)nc3c2)ccn1
CACTVS 3.341CNC(=O)c1cc(Oc2ccc3oc(Nc4ccc(Cl)c(OC[C@@H]5CCCN5C)c4)nc3c2)ccn1
FormulaC26 H26 Cl N5 O4
Name4-({2-[(4-chloro-3-{[(2S)-1-methylpyrrolidin-2-yl]methoxy}phenyl)amino]-1,3-benzoxazol-5-yl}oxy)-N-methylpyridine-2-carboxamide
ChEMBLCHEMBL231568
DrugBank
ZINCZINC000014965294
PDB chain2qu6 Chain B Residue 502 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2qu6 Design, Synthesis, and Evaluation of Orally Active Benzimidazoles and Benzoxazoles as Vascular Endothelial Growth Factor-2 Receptor Tyrosine Kinase Inhibitors.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		V848 A866 E885 T916 E917 F918 C919 I1025 R1027 L1035 C1045 D1046 F1047
Binding residue
(residue number reindexed from 1)		V23 A41 E60 T91 E92 F93 C94 I139 R141 L149 C159 D160 F161
Annotation score1
Binding affinityMOAD: Ki=3nM
BindingDB: IC50=4.6nM,Ki=2.8nM
Enzymatic activity
Catalytic site (original residue number in PDB) D1028 A1030 R1032 N1033 D1046
Catalytic site (residue number reindexed from 1) D142 A144 R146 N147 D160
Enzyme Commision number 2.7.10.1: receptor protein-tyrosine kinase.
Gene Ontology
Molecular Function
GO:0004672 protein kinase activity
GO:0004713 protein tyrosine kinase activity
GO:0004714 transmembrane receptor protein tyrosine kinase activity
GO:0005524 ATP binding
Biological Process
GO:0006468 protein phosphorylation
GO:0007169 cell surface receptor protein tyrosine kinase signaling pathway

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2qu6, PDBe:2qu6, PDBj:2qu6
PDBsum2qu6
PubMed17696416
UniProtP35968|VGFR2_HUMAN Vascular endothelial growth factor receptor 2 (Gene Name=KDR)

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