› 2e9t

X-ray diffraction
2.6Å resolution

Foot-and-mouth disease virus RNA-polymerase RNA dependent in complex with a template-primer RNA and 5F-UTP

Released:
DOI: 10.2210/pdb2e9t/pdb
PDB entry 2e9t coloured by chain, front view.
PDB entry 2e9t coloured by chain, side view.
PDB entry 2e9t coloured by chain, top view.
Source organism: Foot-and-mouth disease virus C-S8c1
Primary publication:
Sequential structures provide insights into the fidelity of RNA replication.
Ferrer-Orta C, Arias A, Pérez-Luque R, Escarmís C, Domingo E, Verdaguer N
Proc Natl Acad Sci U S A 104 9463-8 (2007)
PMID: 17517631

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:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192995 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct RNA molecules
Macromolecules (3 distinct):
RNA-dependent RNA polymerase Chains: A, D
Molecule details ›
Chains: A, D
Length: 476 amino acids
Theoretical weight: 53.49 KDa
Source organism: Foot-and-mouth disease virus C-S8c1
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: Q9QCE4 (Residues: 1858-2327; Coverage: 20%)
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:
5'-R(P*UP*AP*GP*GP*GP*CP*CP*C)-3' Chains: B, E
Molecule details ›
Chains: B, E
Length: 8 nucleotides
Theoretical weight: 2.54 KDa
Source organism: Foot-and-mouth disease virus C-S8c1
Expression system: Not provided
5'-R(*GP*GP*GP*CP*CP*CP*(5FU))-3' Chains: C, F
Molecule details ›
Chains: C, F
Length: 7 nucleotides
Theoretical weight: 2.23 KDa
Source organism: Foot-and-mouth disease virus C-S8c1
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 4 x MG
Ligand PPV 2 x PPV
1 modified residue:
Ligand 5FU 2 x 5FU

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P3121
Unit cell:
a: 95.597Å b: 95.597Å c: 201.155Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.236 0.233 0.289
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

20 review citations

Common and unique features of viral RNA-dependent polymerases.
te Velthuis AJ. (2014)
19 more

13 mentions without citation

Picornavirus RNA polyadenylation by 3D(pol), the viral RNA-dependent RNA polymerase.
Kempf et al. (2015)
12 more