› 7um0

Electron Microscopy
3.8Å resolution

Structure of the phage AR9 non-virion RNA polymerase holoenzyme in complex with two DNA oligonucleotides containing the AR9 P077 promoter as determined by cryo-EM

Released:
DOI: 10.2210/pdb7um0/pdb
PDB entry 7um0 coloured by chain, front view.
PDB entry 7um0 coloured by chain, side view.
PDB entry 7um0 coloured by chain, top view.
Source organism: Bacillus phage AR9
Primary publication:
Structural basis of template strand deoxyuridine promoter recognition by a viral RNA polymerase.
Fraser A, Sokolova ML, Drobysheva AV, Gordeeva JV, Borukhov S, Jumper J, Severinov KV, Leiman PG
OpenAccess logo Nat Commun 13 3526 (2022)
PMID: 35725571
Related structures: EMD-24763

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 hexamer (preferred)
PDBe Complex ID:
PDB-CPX-244674 (preferred)
Entry contents:
5 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (6 distinct):
DNA-directed RNA polymerase subunit Chain: A
Molecule details ›
Chain: A
Length: 464 amino acids
Theoretical weight: 54.92 KDa
Source organism: Bacillus phage AR9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A172JIC8 (Residues: 1-464; Coverage: 100%)
Gene name: AR9_g226
DNA-directed RNA polymerase Chain: d
Molecule details ›
Chain: d
Length: 448 amino acids
Theoretical weight: 51.95 KDa
Source organism: Bacillus phage AR9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A172JIH0 (Residues: 1-426; Coverage: 100%)
Gene name: AR9_g270
DNA-directed RNA polymerase beta subunit Chain: c
Molecule details ›
Chain: c
Length: 496 amino acids
Theoretical weight: 58.11 KDa
Source organism: Bacillus phage AR9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A172JI16 (Residues: 1-496; Coverage: 100%)
Gene name: AR9_g105
DNA-directed RNA polymerase Chain: D
Molecule details ›
Chain: D
Length: 631 amino acids
Theoretical weight: 73.1 KDa
Source organism: Bacillus phage AR9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A172JI62 (Residues: 1-631; Coverage: 100%)
Gene name: AR9_g154
Sequence domains: RNA polymerase Rpb1, domain 5
DNA-directed RNA polymerase Chain: C
Molecule details ›
Chain: C
Length: 665 amino acids
Theoretical weight: 76.98 KDa
Source organism: Bacillus phage AR9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A172JHZ2 (Residues: 1-665; Coverage: 100%)
Gene name: AR9_g089
Sequence domains: RNA polymerase Rpb2, domain 6
DNA (5'-D(P*GP*UP*U)-3') Chain: B
Molecule details ›
Chain: B
Length: 3 nucleotides
Theoretical weight: 865 Da

Ligands and Environments

1 bound ligand:
Ligand ZN 1 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-24763
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 citations in other articles

Tail-tape-fused virion and non-virion RNA polymerases of a thermophilic virus with an extremely long tail.
Chaban et al. (2024)