› 2jlg

X-ray diffraction
2.8Å resolution

STRUCTURAL EXPLANATION FOR THE ROLE OF MN IN THE ACTIVITY OF PHI6 RNA-DEPENDENT RNA POLYMERASE

Released:
DOI: 10.2210/pdb2jlg/pdb
PDB entry 2jlg coloured by chain, front view.
PDB entry 2jlg coloured by chain, side view.
PDB entry 2jlg coloured by chain, top view.
Source organism: Pseudomonas virus phi6
Primary publication:
Structural explanation for the role of Mn2+ in the activity of phi6 RNA-dependent RNA polymerase.
Poranen MM, Salgado PS, Koivunen MR, Wright S, Bamford DH, Stuart DI, Grimes JM
Nucleic Acids Res 36 6633-44 (2008)
PMID: 18940872

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115429 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
RNA-directed RNA polymerase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 664 amino acids
Theoretical weight: 74.9 KDa
Source organism: Pseudomonas virus phi6
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P11124 (Residues: 2-665; Coverage: 100%)
Gene name: P2
Sequence domains: Viral RNA-dependent RNA polymerase
Structure domains:
5'-D(*DT DT DT DC DCP)-3' Chains: D, E, F
Molecule details ›
Chains: D, E, F
Length: 5 nucleotides
Theoretical weight: 1.45 KDa
Source organism: Pseudomonas virus phi6
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand GTP 4 x GTP
Ligand MN 1 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX9.6
Spacegroup: P32
Unit cell:
a: 109.026Å b: 109.026Å c: 158.835Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.22 0.216 0.295
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

5 review citations

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

4 mentions without citation

Cystoviral RNA-directed RNA polymerases: Regulation of RNA synthesis on multiple time and length scales.
Alphonse et al. (2017)
3 more