SMTL ID : 3al8.2 (1 other biounit)

Plexin A2 / Semaphorin 6A complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: R.439, I.440, G.441, S.442, N.447 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 1 residues within 4Å: Chain B: N.133 No protein-ligand interaction detected (PLIP)

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

NAG-NAG-BMA-MAN-MAN-MAN-MAN.3: 2 residues within 4Å: Chain B: A.295, N.297 No protein-ligand interaction detected (PLIP)

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

NAG.4: 6 residues within 4Å: Chain A: R.266, N.268, H.276, Y.278, A.387, N.393 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.268, A:Y.278, A:N.393 NAG.5: 4 residues within 4Å: Chain A: Y.418, N.420, H.421, E.544 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.544 Hydrogen bonds: A:H.421, A:E.544 NAG.6: 2 residues within 4Å: Chain B: N.46, T.48 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.48, B:T.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nogi, T. et al., Structural basis for semaphorin signalling through the plexin receptor. Nature (2010)

Release Date

2010-10-06

Peptides

Semaphorin-6A: A
Plexin-A2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Semaphorin-6A

Plexin-A2

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