› 4wk4

X-ray diffraction
2.5Å resolution

Metal Ion and Ligand Binding of Integrin

Released:
DOI: 10.2210/pdb4wk4/pdb
PDB entry 4wk4 coloured by chain, front view.
PDB entry 4wk4 coloured by chain, side view.
PDB entry 4wk4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Metal ion and ligand binding of integrin α5β1.
Xia W, Springer TA
Proc Natl Acad Sci U S A 111 17863-8 (2014)
PMID: 25475857

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138714 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (8 distinct):
Integrin alpha-5 heavy chain Chain: A
Molecule details ›
Chain: A
Length: 450 amino acids
Theoretical weight: 47.92 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P08648 (Residues: 42-491; Coverage: 45%)
Gene names: FNRA, ITGA5
Sequence domains: FG-GAP repeat
Structure domains: Integrin alpha, N-terminal
Integrin beta-1 Chain: B
Molecule details ›
Chain: B
Length: 445 amino acids
Theoretical weight: 49.5 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P05556 (Residues: 21-465; Coverage: 57%)
Gene names: FNRB, ITGB1, MDF2, MSK12
Sequence domains:
Structure domains:
ALA-CYS-ARG-GLY-ASP-GLY-TRP-CYS Chain: C
Molecule details ›
Chain: C
Length: 8 amino acids
Theoretical weight: 868 Da
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
3 bound ligands:
Ligand CA 6 x CA
Ligand MG 1 x MG
Ligand NAG 3 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P212121
Unit cell:
a: 57.52Å b: 112.16Å c: 169.54Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.189 0.187 0.236
Expression systems:
  • Homo sapiens
  • Not provided

Quick links

Citations

7 review citations

Targeting TGF-β signal transduction for fibrosis and cancer therapy.
Peng et al. (2022)
6 more

12 mentions without citation

Metal ion and ligand binding of integrin α5β1.
Xia et al. (2014)
11 more