SMTL ID : 8bf4.2 (1 other biounit)

Crystal structure of Mouse Plexin-B1 (20-535) in complex with VHH15 and VHH14

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain B: F.9, T.10, A.11, N.12 Chain C: R.105 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Hydrogen bonds: C:R.105, C:R.105, B:N.12 Hydrophobic interactions: B:F.9, B:A.11 NAG.2: 5 residues within 4Å: Chain B: D.308, Q.312, N.315, R.318, P.357 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.315, B:R.318, B:R.318 NAG.3: 4 residues within 4Å: Chain A: Y.31 Chain B: Y.316, N.330, T.332 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.316, B:N.330

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

EDO.4: 4 residues within 4Å: Chain B: V.134, G.135, S.201, A.202 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.135, B:G.135, B:S.201, B:A.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cowan, R. et al., Nanobody inhibitors of Plexin-B1 identify allostery in plexin-semaphorin interactions and signaling. J.Biol.Chem. (2023)

Release Date

2023-05-03

Peptides

VHH14: A
Plexin-B1: B
VHH15: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
B

VHH14

Plexin-B1

VHH15

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