› 5neu

Electron Microscopy
12.3Å resolution

Localised Reconstruction of Integrin alpha V beta 6 bound to Foot and Mouth Disease Virus O1 Manisa - Pose B.

Released:
DOI: 10.2210/pdb5neu/pdb
PDB entry 5neu coloured by chain, front view.
PDB entry 5neu coloured by chain, side view.
PDB entry 5neu coloured by chain, top view.
Source organisms:
Primary publication:
Rules of engagement between αvβ6 integrin and foot-and-mouth disease virus.
Kotecha A, Wang Q, Dong X, Ilca SL, Ondiviela M, Zihe R, Seago J, Charleston B, Fry EE, Abrescia NGA, Springer TA, Huiskonen JT, Stuart DI
Nat Commun 8 15408 (2017)
PMID: 28534487
Related structures: EMD-3635

Function and Biology Details

Reactions catalysed: 
Autocatalytically cleaves itself from the polyprotein of the foot-and-mouth disease virus by hydrolysis of a Lys-|-Gly bond, but then cleaves host cell initiation factor eIF-4G at bonds -Gly-|-Arg- and -Lys-|-Arg-.
NTP + H(2)O = NDP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 360-mer (preferred)
PDBe Complex ID:
PDB-CPX-112303 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
O1 Manisa VP1 Chain: 1
Molecule details ›
Chain: 1
Length: 208 amino acids
Theoretical weight: 22.85 KDa
Source organism: Foot-and-mouth disease virus
Expression system: Cricetinae gen. sp.
UniProt:
  • Canonical: Q6PMW3 (Residues: 725-932; Coverage: 9%)
Sequence domains: picornavirus capsid protein
O1 Manisa VP2 Chain: 2
Molecule details ›
Chain: 2
Length: 218 amino acids
Theoretical weight: 24.42 KDa
Source organism: Foot-and-mouth disease virus
Expression system: Cricetinae gen. sp.
UniProt:
  • Canonical: Q6PMW3 (Residues: 287-504; Coverage: 9%)
Sequence domains: picornavirus capsid protein
Capsid protein Chain: 3
Molecule details ›
Chain: 3
Length: 220 amino acids
Theoretical weight: 23.93 KDa
Source organism: Foot-and-mouth disease virus
Expression system: Cricetinae gen. sp.
UniProt:
  • Canonical: Q6PMW3 (Residues: 505-724; Coverage: 9%)
Sequence domains: picornavirus capsid protein
O1 Manisa VP4 Chain: 4
Molecule details ›
Chain: 4
Length: 85 amino acids
Theoretical weight: 8.77 KDa
Source organism: Foot-and-mouth disease virus
Expression system: Cricetinae gen. sp.
UniProt:
  • Canonical: D1H101 (Residues: 202-286; Coverage: 7%)
Sequence domains: Viral protein VP4 subunit
Integrin alpha-V heavy chain Chain: A
Molecule details ›
Chain: A
Length: 590 amino acids
Theoretical weight: 64.94 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P06756 (Residues: 31-624; Coverage: 58%)
Gene names: ITGAV, MSK8, VNRA, VTNR
Sequence domains:
Integrin beta-6 Chain: B
Molecule details ›
Chain: B
Length: 470 amino acids
Theoretical weight: 51.53 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P18564 (Residues: 22-491; Coverage: 61%)
Gene name: ITGB6
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 12.3Å
Relevant EMDB volumes: EMD-3635
Expression systems:
  • Cricetinae gen. sp.
  • Homo sapiens

Quick links

Citations

13 review citations

Short linear motif candidates in the cell entry system used by SARS-CoV-2 and their potential therapeutic implications.
Mészáros et al. (2021)
12 more

2 mentions without citation

Biological and Clinical Consequences of Integrin Binding via a Rogue RGD Motif in the SARS CoV-2 Spike Protein.
Makowski et al. (2021)
1 more