› 3okw

X-ray diffraction
2.3Å resolution

Mouse Semaphorin 6A, extracellular domains 1-2

Released:
DOI: 10.2210/pdb3okw/pdb
PDB entry 3okw coloured by chain, front view.
PDB entry 3okw coloured by chain, side view.
PDB entry 3okw coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structural basis of semaphorin-plexin signalling.
Janssen BJ, Robinson RA, Pérez-Brangulí F, Bell CH, Mitchell KJ, Siebold C, Jones EY
Nature 467 1118-22 (2010)
PMID: 20877282

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128689 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (3 distinct):
Semaphorin-6A Chains: A, B
Molecule details ›
Chains: A, B
Length: 565 amino acids
Theoretical weight: 63.97 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
UniProt:
  • Canonical: O35464 (Residues: 19-571; Coverage: 55%)
Gene names: Sema6a, Semaq
Sequence domains:
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
3 bound ligands:
Ligand NAG 2 x NAG
Ligand CIT 1 x CIT
Ligand GOL 10 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P31
Unit cell:
a: 97.036Å b: 97.036Å c: 153.055Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.186 0.184 0.219
Expression system: Homo sapiens

Quick links

Citations

50 review citations

Getting neural circuits into shape with semaphorins.
Pasterkamp RJ. (2012)
49 more

6 mentions without citation

Cells under siege: viral glycoprotein interactions at the cell surface.
Bowden et al. (2011)
5 more