› 2yd9

X-ray diffraction
2.6Å resolution

Crystal structure of the N-terminal Ig1-3 module of Human Receptor Protein Tyrosine Phosphatase Sigma

Released:
DOI: 10.2210/pdb2yd9/pdb
PDB entry 2yd9 coloured by chain, front view.
PDB entry 2yd9 coloured by chain, side view.
PDB entry 2yd9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Proteoglycan-specific molecular switch for RPTPσ clustering and neuronal extension.
Coles CH, Shen Y, Tenney AP, Siebold C, Sutton GC, Lu W, Gallagher JT, Jones EY, Flanagan JG, Aricescu AR
Science 332 484-8 (2011)
PMID: 21454754

Function and Biology Details

Reaction catalysed: 
Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate
Biochemical function:
  • not assigned
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-171645 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Receptor-type tyrosine-protein phosphatase S Chain: A
Molecule details ›
Chain: A
Length: 304 amino acids
Theoretical weight: 33.26 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q13332 (Residues: 30-334; Coverage: 15%)
Gene name: PTPRS
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

4 bound ligands:
Ligand CL 4 x CL
Ligand IOD 4 x IOD
Ligand NAG 2 x NAG
Ligand B3P 1 x B3P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: I222
Unit cell:
a: 71.699Å b: 90.043Å c: 143.283Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.249 0.247 0.289
Expression system: Homo sapiens

Quick links

Citations

73 review citations

Demystifying heparan sulfate-protein interactions.
Xu et al. (2014)
72 more

5 mentions without citation

Extracellular regulation of type IIa receptor protein tyrosine phosphatases: mechanistic insights from structural analyses.
Coles et al. (2015)
4 more