› 7nwl

Electron Microscopy
3.1Å resolution

Cryo-EM structure of human integrin alpha5beta1 (open form) in complex with fibronectin and TS2/16 Fv-clasp

Released:
DOI: 10.2210/pdb7nwl/pdb
PDB entry 7nwl coloured by chain, front view.
PDB entry 7nwl coloured by chain, side view.
PDB entry 7nwl coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into integrin α5β1 opening by fibronectin ligand.
Schumacher S, Dedden D, Nunez RV, Matoba K, Takagi J, Biertümpfel C, Mizuno N
Sci Adv 7 (2021)
PMID: 33962943
Related structures: EMD-12634

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208783 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (10 distinct):
Integrin alpha-5 Chain: A
Molecule details ›
Chain: A
Length: 1008 amino acids
Theoretical weight: 110.11 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P08648 (Residues: 42-1049; Coverage: 100%)
Gene names: FNRA, ITGA5
Sequence domains:
Integrin beta-1 Chain: B
Molecule details ›
Chain: B
Length: 778 amino acids
Theoretical weight: 86.34 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P05556 (Residues: 21-798; Coverage: 100%)
Gene names: FNRB, ITGB1, MDF2, MSK12
Sequence domains:
Ugl-Y3 Chain: C
Molecule details ›
Chain: C
Length: 368 amino acids
Theoretical weight: 39.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P02751 (Residues: 1173-1631; Coverage: 15%)
Gene names: FN, FN1
Sequence domains: Fibronectin type III domain
TS2/16 VH(S112C)-SARAH Chimera Chain: D
Molecule details ›
Chain: D
Length: 172 amino acids
Theoretical weight: 19.46 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
TS2/16 VL-SARAH(S37C) Chimera Chain: E
Molecule details ›
Chain: E
Length: 164 amino acids
Theoretical weight: 18.27 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA
Ligand NAG 8 x NAG
Ligand BMA 4 x BMA
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 2 x NAG
Ligand BMA 1 x BMA
Ligand MAN 2 x MAN
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 3 x NAG
Ligand BMA 1 x BMA
Ligand MAN 2 x MAN
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Ligand NAG 2 x NAG
Ligand BMA 1 x BMA
Ligand MAN 1 x MAN
1 bound ligand:
Ligand MN 7 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.1Å
Relevant EMDB volumes: EMD-12634
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

7 review citations

Bottom-up reconstitution of focal adhesion complexes.
Schumacher et al. (2022)
6 more

4 mentions without citation

Cryo-electron Microscopic Analysis of Single-Pass Transmembrane Receptors.
Cai et al. (2022)
3 more