› 4wqt

X-ray diffraction
4.4Å resolution

Thermus thermophilus RNA polymerase complexed with an RNA cleavage stimulating factor (a GreA/Gfh1 chimeric protein)

Released:
DOI: 10.2210/pdb4wqt/pdb
PDB entry 4wqt coloured by chain, front view.
PDB entry 4wqt coloured by chain, side view.
PDB entry 4wqt 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 hexamer (preferred)
PDBe Complex ID:
PDB-CPX-233040 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B, F, G, K, L
Molecule details ›
Chains: A, B, F, G, 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, H, M
Molecule details ›
Chains: C, H, 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, I, N
Molecule details ›
Chains: D, I, 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, J, O
Molecule details ›
Chains: E, J, 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
Transcription elongation factor GreA; Transcription inhibitor protein Gfh1 Chains: X, Y, Z
Molecule details ›
Chains: X, Y, Z
Length: 156 amino acids
Theoretical weight: 17.34 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5SJG6 (Residues: 1-28, 63-156; Coverage: 78%)
  • Canonical: Q5SKM1 (Residues: 30-63; Coverage: 22%)
Gene names: TTHA0622, TTHA1042, gfh1, greA
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 3 x ZN
Ligand MG 3 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P21
Unit cell:
a: 189.568Å b: 263.77Å c: 195.848Å
α: 90° β: 116.83° γ: 90°
R-values:
R R work R free
0.26 0.26 0.313
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

10 review citations

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

5 mentions without citation

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