› 6om1

X-ray diffraction
2.66Å resolution

Crystal structure of an atypical integrin

Released:
DOI: 10.2210/pdb6om1/pdb
PDB entry 6om1 coloured by chain, front view.
PDB entry 6om1 coloured by chain, side view.
PDB entry 6om1 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
General structural features that regulate integrin affinity revealed by atypical αVβ8.
Wang J, Su Y, Iacob RE, Engen JR, Springer TA
Nat Commun 10 5481 (2019)
PMID: 31792290

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139211 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (9 distinct):
Integrin alpha-V heavy chain Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 599 amino acids
Theoretical weight: 65.74 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P06756 (Residues: 31-429, 430-624; Coverage: 58%)
Gene names: ITGAV, MSK8, VNRA, VTNR
Sequence domains:
Integrin beta-8 Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 456 amino acids
Theoretical weight: 50.66 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P26012 (Residues: 43-498; Coverage: 63%)
Gene name: ITGB8
Sequence domains:

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, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
5 bound ligands:
Ligand NAG 12 x NAG
Ligand CA 20 x CA
Ligand EDO 13 x EDO
Ligand MG 4 x MG
Ligand MES 4 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P1
Unit cell:
a: 144.24Å b: 55.07Å c: 175.07Å
α: 90.37° β: 107° γ: 90.01°
R-values:
R R work R free
0.249 0.248 0.28
Expression system: Homo sapiens

Quick links

Citations

2 review citations

αvβ8 integrin adhesion and signaling pathways in development, physiology and disease.
McCarty JH. (2020)
1 more

2 mentions without citation

General structural features that regulate integrin affinity revealed by atypical αVβ8.
Wang et al. (2019)
1 more