› 3ola

X-ray diffraction
2.55Å resolution

Poliovirus polymerase elongation complex with 2'-deoxy-CTP

Released:
DOI: 10.2210/pdb3ola/pdb
PDB entry 3ola coloured by chain, front view.
PDB entry 3ola coloured by chain, side view.
PDB entry 3ola coloured by chain, top view.
Source organism: Poliovirus 1
Primary publication:
Structural basis for active site closure by the poliovirus RNA-dependent RNA polymerase.
Gong P, Peersen OB
Proc Natl Acad Sci U S A 107 22505-10 (2010)
PMID: 21148772

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.
Selective cleavage of Tyr-|-Gly bond in picornavirus polyprotein.
NTP + H(2)O = NDP + phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-218876 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct RNA molecules
1 distinct DNA/RNA hybrid molecule
Macromolecules (5 distinct):
Polymerase Chains: A, E, I, M
Molecule details ›
Chains: A, E, I, M
Length: 471 amino acids
Theoretical weight: 53.76 KDa
Source organism: Human poliovirus 1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B3VQP5 (Residues: 1749-2209; Coverage: 21%)
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:
RNA (5'-R(*AP*AP*GP*UP*CP*UP*CP*CP*AP*GP*GP*UP*CP*UP*CP*UP*CP*GP*UP*CP*CP*GP*GP*AP*AP*A)-3') Chains: B, F, J, N
Molecule details ›
Chains: B, F, J, N
Length: 26 nucleotides
Theoretical weight: 8.28 KDa
Source organism: Poliovirus 1
Expression system: Not provided
RNA (5'-R(*GP*GP*GP*AP*GP*AP*UP*GP*A)-3') Chains: D, H, L, P
Molecule details ›
Chains: D, H, L, P
Length: 9 nucleotides
Theoretical weight: 2.97 KDa
Source organism: Poliovirus 1
Expression system: Not provided
RNA (5'-R(*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-3') Chains: K, O
Molecule details ›
Chains: K, O
Length: 14 nucleotides
Theoretical weight: 4.56 KDa
Source organism: Poliovirus 1
Expression system: Not provided
DNA/RNA (5'-R(*GP*CP*CP*CP*GP*GP*AP*CP*GP*AP*GP*AP*GP*A)-D(P*C)-3') Chains: C, G
Molecule details ›
Chains: C, G
Length: 15 nucleotides
Theoretical weight: 4.85 KDa
Source organism: Poliovirus 1
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand ZN 4 x ZN
Ligand IPA 10 x IPA
Ligand PEG 3 x PEG
Ligand GOL 2 x GOL
Ligand DCP 2 x DCP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 4.2.2
Spacegroup: P1
Unit cell:
a: 60.562Å b: 60.56Å c: 192.832Å
α: 83.57° β: 83.56° γ: 77.59°
R-values:
R R work R free
0.229 0.226 0.284
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

43 review citations

Mechanisms of viral mutation.
Sanjuán et al. (2016)
42 more

5 mentions without citation

Organization of the Flavivirus RNA replicase complex.
Brand et al. (2017)
4 more