SMTL ID : 3vhk.1

Crystal structure of the VEGFR2 kinase domain in complex with a back pocket binder

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

monomer

Ligands

1 x BPK: {3-[(5-methyl-2-phenyl-1,3-oxazol-4-yl)methoxy]phenyl}methanol(Non-covalent)

BPK.1: 16 residues within 4Å: Chain A: V.45, A.63, K.65, E.82, L.86, V.95, V.111, V.113, L.216, I.222, L.232, I.241, C.242, D.243, F.244 Ligands: EDO.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.45, A:A.63, A:K.65, A:E.82, A:L.86, A:V.95, A:V.111, A:V.113, A:L.216, A:L.232 Hydrogen bonds: A:D.243 pi-Stacking: A:H.223, A:F.244 pi-Cation interactions: A:K.65

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: A.63, E.114, F.115, C.116, G.119, L.232 Ligands: BPK.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.114, A:C.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iwata, H. et al., A Back-to-Front Fragment-Based Drug Design Search Strategy Targeting the DFG-Out Pocket of Protein Tyrosine Kinases. ACS MED.CHEM.LETT. (2012)

Release Date

2012-09-05

Peptides

Vascular endothelial growth factor receptor 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Vascular endothelial growth factor receptor 2