› 1qgc

Electron Microscopy
30Å resolution

STRUCTURE OF THE COMPLEX OF A FAB FRAGMENT OF A NEUTRALIZING ANTIBODY WITH FOOT AND MOUTH DISEASE VIRUS

Released:
DOI: 10.2210/pdb1qgc/pdb
PDB entry 1qgc coloured by chain, front view.
PDB entry 1qgc coloured by chain, side view.
PDB entry 1qgc coloured by chain, top view.
Source organisms:
Primary publication:
Structure of the complex of an Fab fragment of a neutralizing antibody with foot-and-mouth disease virus: positioning of a highly mobile antigenic loop.
Hewat EA, Verdaguer N, Fita I, Blakemore W, Brookes S, King A, Newman J, Domingo E, Mateu MG, Stuart DI
EMBO J 16 1492-500 (1997)
PMID: 9130694

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
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 domain:

Structure analysis Details

Assembly composition:
hetero 360-mer (preferred)
PDBe Complex ID:
PDB-CPX-208568 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Capsid protein VP1 Chain: 1
Molecule details ›
Chain: 1
Length: 207 amino acids
Theoretical weight: 22.67 KDa
Source organism: Foot and mouth disease virus C
UniProt:
  • Canonical: P03311 (Residues: 724-930; Coverage: 9%)
Sequence domains: picornavirus capsid protein
Capsid protein VP2 Chain: 2
Molecule details ›
Chain: 2
Length: 218 amino acids
Theoretical weight: 24.3 KDa
Source organism: Foot and mouth disease virus C
UniProt:
  • Canonical: P03311 (Residues: 287-504; Coverage: 9%)
Sequence domains: picornavirus capsid protein
Capsid protein VP3 Chain: 3
Molecule details ›
Chain: 3
Length: 219 amino acids
Theoretical weight: 24.02 KDa
Source organism: Foot and mouth disease virus C
UniProt:
  • Canonical: P03311 (Residues: 505-723; Coverage: 9%)
Sequence domains: picornavirus capsid protein
Immunoglobulin kappa constant Chain: 4
Molecule details ›
Chain: 4
Length: 218 amino acids
Theoretical weight: 24.01 KDa
Source organism: Mus musculus
UniProt:
  • Canonical: P01837 (Residues: 1-107; Coverage: 100%)
Gene name: Igkc
Sequence domains: Immunoglobulin C1-set domain
PROTEIN (IMMUNOGLOBULIN HEAVY CHAIN) Chain: A
Molecule details ›
Chain: A
Length: 220 amino acids
Theoretical weight: 23.44 KDa
Source organism: Mus musculus
Capsid protein VP1 Chain: 5
Molecule details ›
Chain: 5
Length: 24 amino acids
Theoretical weight: 2.46 KDa
Source organism: Foot and mouth disease virus C
UniProt:
  • Canonical: P03311 (Residues: 856-879; Coverage: 1%)

Ligands and Environments

No bound ligands
1 modified residue:
Ligand OCS 1 x OCS

Experiments and Validation Details

Entry percentile scores
Resolution: 30Å

Quick links

Citations

9 review citations

Adding the third dimension to virus life cycles: three-dimensional reconstruction of icosahedral viruses from cryo-electron micrographs.
Baker et al. (1999)
8 more

13 mentions without citation

Electron microscopy holdings of the Protein Data Bank: the impact of the resolution revolution, new validation tools, and implications for the future.
Burley et al. (2022)
12 more