› 6wvj

Electron Microscopy
3.36Å resolution

Cryo-EM structure of Bacillus subtilis RNA Polymerase elongation complex

Released:
DOI: 10.2210/pdb6wvj/pdb
PDB entry 6wvj coloured by chain, front view.
PDB entry 6wvj coloured by chain, side view.
PDB entry 6wvj coloured by chain, top view.
Source organisms:
Primary publication:
Molecular basis for RNA polymerase-dependent transcription complex recycling by the helicase-like motor protein HelD.
Newing TP, Oakley AJ, Miller M, Dawson CJ, Brown SHJ, Bouwer JC, Tolun G, Lewis PJ
Nat Commun 11 6420 (2020)
PMID: 33339820
Related structures: EMD-21920

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 octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120889 (preferred)
Entry contents:
4 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (7 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 314 amino acids
Theoretical weight: 34.84 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P20429 (Residues: 1-314; Coverage: 100%)
Gene names: BSU01430, rpoA
Sequence domains:
DNA-directed RNA polymerase subunit beta Chain: C
Molecule details ›
Chain: C
Length: 1193 amino acids
Theoretical weight: 133.85 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P37870 (Residues: 1-1193; Coverage: 100%)
Gene names: BSU01070, crsE, rfm, rpoB
Sequence domains:
DNA-directed RNA polymerase subunit beta' Chain: D
Molecule details ›
Chain: D
Length: 1199 amino acids
Theoretical weight: 134.44 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P37871 (Residues: 1-1199; Coverage: 100%)
Gene names: BSU01080, lpm, rpoC, std
Sequence domains:
DNA-directed RNA polymerase subunit omega Chain: F
Molecule details ›
Chain: F
Length: 67 amino acids
Theoretical weight: 7.77 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O35011 (Residues: 1-67; Coverage: 100%)
Gene names: BSU15690, rpoZ, yloH
Sequence domains: RNA polymerase Rpb6
DNA (5'-D(*TP*GP*TP*CP*GP*GP*GP*CP*GP*TP*CP*CP*GP*CP*GP*CP*GP*CP*C)-3') Chain: T
Molecule details ›
Chain: T
Length: 19 nucleotides
Theoretical weight: 5.81 KDa
DNA (5'-D(P*AP*CP*GP*CP*CP*CP*GP*AP*CP*A)-3') Chain: N
Molecule details ›
Chain: N
Length: 10 nucleotides
Theoretical weight: 3 KDa
RNA (5'-R(P*GP*GP*CP*GP*CP*GP*CP*G)-3') Chain: R
Molecule details ›
Chain: R
Length: 8 nucleotides
Theoretical weight: 2.6 KDa

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.36Å
Relevant EMDB volumes: EMD-21920
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

β-CASP proteins removing RNA polymerase from DNA: when a torpedo is needed to shoot a sitting duck.
Wiedermannová et al. (2021)
2 more

4 mentions without citation

RNA polymerases from low G+C gram-positive bacteria.
Miller et al. (2021)
3 more