SMTL ID : 6tkk.1

Neuropilin 1-b1 domain in a complex with the C-terminal VEGFB186 peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.06 Å

Oligo State

monomer

Ligands

1 x ACE- ARG- PRO- GLN- PRO- ARG: ACE-ARG-PRO-GLN-PRO-ARG(Non-covalent)

ACE-ARG-PRO-GLN-PRO-ARG.1: 10 residues within 4Å: Chain A: Y.28, W.32, T.47, D.51, S.77, T.80, K.82, Y.84, G.145, I.146 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:W.32 Hydrogen bonds: A:Y.28, A:S.77, A:Y.84, A:Y.84, A:I.146, A:I.146 Water bridges: A:Y.28, A:W.32, A:W.32, A:D.51, A:S.77 Salt bridges: A:D.51

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

EDO.2: 3 residues within 4Å: Chain A: T.141, W.142 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.142, A:W.142 EDO.3: 1 residues within 4Å: Chain A: V.121 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.40, A:V.121 EDO.4: 2 residues within 4Å: Chain A: T.141 Ligands: EDO.2 1 PLIP interactions: 1 interactions with chain A Water bridges: A:W.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Eldrid, C. et al., Neuropilin 1-b1 domain in a complex with the C-terminal VEGFB186 peptide. To Be Published

Release Date

2020-12-16

Peptides

Neuropilin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neuropilin-1

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