› 4wqs

X-ray diffraction
4.31Å resolution

Thermus thermophilus RNA polymerase backtracked complex

Released:
DOI: 10.2210/pdb4wqs/pdb
PDB entry 4wqs coloured by chain, front view.
PDB entry 4wqs coloured by chain, side view.
PDB entry 4wqs coloured by chain, top view.
Source organism: Thermus thermophilus HB8
Primary publication:
The ratcheted and ratchetable structural states of RNA polymerase underlie multiple transcriptional functions.
Sekine S, Murayama Y, Svetlov V, Nudler E, Yokoyama S
Mol Cell 57 408-21 (2015)
PMID: 25601758

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-118230 (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, K, L
Molecule details ›
Chains: A, B, K, L
Length: 315 amino acids
Theoretical weight: 35.06 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q5SHR6 (Residues: 1-315; Coverage: 100%)
Gene names: TTHA1664, rpoA
Sequence domains:
DNA-directed RNA polymerase subunit beta Chains: C, M
Molecule details ›
Chains: C, M
Length: 1119 amino acids
Theoretical weight: 125.44 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q8RQE9 (Residues: 1-1119; Coverage: 100%)
Gene names: TTHA1813, rpoB
Sequence domains:
DNA-directed RNA polymerase subunit beta' Chains: D, N
Molecule details ›
Chains: D, N
Length: 1524 amino acids
Theoretical weight: 171 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q8RQE8 (Residues: 1-1524; Coverage: 100%)
Gene names: TTHA1812, rpoC
Sequence domains:
DNA-directed RNA polymerase subunit omega Chains: E, O
Molecule details ›
Chains: E, O
Length: 99 amino acids
Theoretical weight: 11.53 KDa
Source organism: Thermus thermophilus HB8
UniProt:
  • Canonical: Q8RQE7 (Residues: 1-99; Coverage: 100%)
Gene names: TTHA1561, rpoZ
Sequence domains: RNA polymerase Rpb6
DNA (28-MER) Chains: G, X
Molecule details ›
Chains: G, X
Length: 28 nucleotides
Theoretical weight: 8.55 KDa
DNA (5'-D(P*GP*TP*AP*GP*CP*TP*TP*GP*TP*GP*GP*TP*AP*GP*TP*GP*AP*CP*GP*AP*G)-3') Chains: I, Z
Molecule details ›
Chains: I, Z
Length: 21 nucleotides
Theoretical weight: 6.57 KDa
RNA (5'-R(P*CP*CP*AP*GP*CP*CP*GP*GP*CP*GP*CP*UP*CP*GP*CP*A)-3') Chains: H, Y
Molecule details ›
Chains: H, Y
Length: 16 nucleotides
Theoretical weight: 5.09 KDa

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P41
Unit cell:
a: 155.983Å b: 155.983Å c: 495Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.282 0.28 0.311

Quick links

Citations

10 review citations

Mechanisms of Bacterial Transcription Termination: All Good Things Must End.
Ray-Soni et al. (2016)
9 more

4 mentions without citation

Structural biology of bacterial RNA polymerase.
Murakami KS. (2015)
3 more