SMTL ID : 4cl7.1 (1 other biounit)

Crystal structure of VEGFR-1 domain 2 in presence of Cobalt

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

3 x CO: COBALT (II) ION(Non-covalent)

CO.1: 4 residues within 4Å: Chain A: H.16, H.92 Chain B: H.16, H.92 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:H.16, A:H.92, B:H.16, B:H.92, H2O.1, H2O.1 CO.2: 1 residues within 4Å: Chain A: H.83 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.83, H2O.3, H2O.3, H2O.3 CO.6: 1 residues within 4Å: Chain B: H.83 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:H.83, H2O.6, H2O.6, H2O.6, H2O.6

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

EDO.3: 6 residues within 4Å: Chain A: V.29, T.30, S.31, P.32, S.57, R.58 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.57 EDO.4: 6 residues within 4Å: Chain A: N.33, I.34, T.35, T.79, V.80 Ligands: EDO.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.33, A:T.35, A:T.35, A:T.79 EDO.5: 6 residues within 4Å: Chain A: T.35, E.77, A.78, T.79, L.84 Ligands: EDO.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.35, A:T.79, A:T.79 Water bridges: A:T.37, A:T.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gaucher, J.-F. et al., Biophysical Studies of the Induced Dimerization of Human Vegf R Receptor 1 Binding Domain by Divalent Metals Competing with Vegf-A. Plos One (2016)

Release Date

2015-01-28

Peptides

VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 1

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