SMTL ID : 2qqn.1

Neuropilin-1 b1 Domain in Complex with a VEGF-Blocking Fab

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: A.25, S.26, S.27, Q.28 Chain B: Y.103 Chain C: Y.32 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.28 Water bridges: A:A.25, B:P.102 EDO.2: 10 residues within 4Å: Chain B: F.29, S.30, Y.32, M.34, I.51, S.52, P.53, A.54, G.55, A.72 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:F.29, B:S.52, B:A.54, B:G.55 EDO.3: 4 residues within 4Å: Chain C: G.200, L.201, S.202, V.205 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Appleton, B.A. et al., Structural studies of neuropilin/antibody complexes provide insights into semaphorin and VEGF binding. Embo J. (2007)

Release Date

2007-11-20

Peptides

Neuropilin-1: A
Antibody heavy chain: B
Antibody light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Neuropilin-1

Antibody heavy chain

Antibody light chain