SMTL ID : 7y4o.1

Rat Semaphorin 6D extracellular region

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 9 residues within 4Å: Chain A: R.263, N.265, S.267, F.273, Y.275, A.384, P.386, P.387, D.390 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.275 Hydrogen bonds: A:S.267, A:Y.275, A:Y.275, A:D.390, A:D.390 NAG.2: 7 residues within 4Å: Chain B: R.263, N.265, S.267, F.273, Y.275, A.384, P.387 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.275 Hydrogen bonds: B:S.267, B:Y.275, B:Y.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tanaka, T. et al., Hybrid in vitro/in silico analysis of low-affinity protein-protein interactions that regulate signal transduction by Sema6D. Protein Sci. (2022)

Release Date

2022-10-19

Peptides

Semaphorin 6D: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Semaphorin 6D

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