Structure of PDB 4agd Chain A

Receptor sequence
>4agdA (length=303) Species: 9606 (Homo sapiens) [Search protein sequence]
LSIVMDPDELPLPYDASKWEFPRDRLKLGKPLGRGAFGQVIEADAFGIDK
TATCRTVAVKMLKEGATHSEHRALMSELKILIHIGHHLNVVNLLGACTKP
GGPLMVIVEFCKFGNLSTYLRSKRNEFVPYYKDFLTLEHLICYSFQVAKG
MEFLASRKCIHRDLAARNILLSEKNVVKICDFGLARDIYKDPDYVRKGDA
RLPLKWMAPETIFDRVYTIQSDVWSFGVLLWEIFSLGASPYPGVKIDEEF
CRRLKEGTRMRAPDYTTPEMYQTMLDCWHGEPSQRPTFSELVEHLGNLLQ
ANA
3D structure
PDB4agd Molecular Conformations, Interactions, and Properties Associated with Drug Efficiency and Clinical Performance Among Vegfr Tk Inhibitors.
ChainA
Resolution2.81 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) D1028 A1030 R1032 N1033 D1046 D1064
Catalytic site (residue number reindexed from 1) D163 A165 R167 N168 D181 D199
Enzyme Commision number 2.7.10.1: receptor protein-tyrosine kinase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 B49 A L840 K868 V899 F918 C919 K920 G922 L1035 D1046 F1047 A1168 L32 K60 V91 F110 C111 K112 G114 L170 D181 F182 A303 PDBbind-CN: -logKd/Ki=8.41,Ki=3.9nM
BindingDB: IC50=18900nM,Kd=1.5nM,Ki=9nM
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

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Molecular Function
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Biological Process
External links
PDB RCSB:4agd, PDBe:4agd, PDBj:4agd
PDBsum4agd
PubMed22988103
UniProtP35968|VGFR2_HUMAN Vascular endothelial growth factor receptor 2 (Gene Name=KDR)

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