SMTL ID : 6fkm.1

Drosophila Plexin A in complex with Semaphorin 1b

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.96 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 7 residues within 4Å: Chain B: R.254, N.256, S.258, P.260, G.261, Y.266, A.367 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:P.260 Hydrogen bonds: B:G.261 NAG-NAG-BMA-MAN-MAN.2: 6 residues within 4Å: Chain B: E.36, F.37, L.39, N.48, I.57, Y.89 No protein-ligand interaction detected (PLIP)

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

NAG.3: 4 residues within 4Å: Chain A: E.82, N.143, S.145, I.146 No protein-ligand interaction detected (PLIP) NAG.4: 1 residues within 4Å: Chain A: N.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.161 NAG.5: 4 residues within 4Å: Chain A: N.342, T.440, S.441, D.442 No protein-ligand interaction detected (PLIP) NAG.6: 3 residues within 4Å: Chain A: N.90, R.106, P.108 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rozbesky, D. et al., Structural basis of semaphorin-plexin cis interaction. Embo J. (2020)

Release Date

2019-02-06

Peptides

Plexin A, isoform A: A
MIP07328p: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Plexin A, isoform A

MIP07328p

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