› 7rdq

Electron Microscopy
3Å resolution

Cryo-EM structure of Thermus thermophilus reiterative transcription complex with 11nt oligo-G RNA

Released:
DOI: 10.2210/pdb7rdq/pdb
PDB entry 7rdq coloured by chain, front view.
PDB entry 7rdq coloured by chain, side view.
PDB entry 7rdq coloured by chain, top view.
Source organism: Thermus thermophilus HB8
Primary publication:
Structural and mechanistic basis of reiterative transcription initiation.
Liu Y, Yu L, Pukhrambam C, Winkelman JT, Firlar E, Kaelber JT, Zhang Y, Nickels BE, Ebright RH
OpenAccess logo Proc Natl Acad Sci U S A 119 (2022)
PMID: 35082149
Related structures: EMD-24424

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 nonamer (preferred)
PDBe Complex ID:
PDB-CPX-121911 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (8 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
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 Chain: C
Molecule details ›
Chain: C
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' Chain: D
Molecule details ›
Chain: D
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 Chain: E
Molecule details ›
Chain: E
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
RNA polymerase sigma factor SigA Chain: F
Molecule details ›
Chain: F
Length: 423 amino acids
Theoretical weight: 48.6 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5SKW1 (Residues: 1-423; Coverage: 100%)
Gene names: TTHA0532, sigA
Sequence domains:
DNA (31-MER) nontemplate strand Chain: H
Molecule details ›
Chain: H
Length: 33 nucleotides
Theoretical weight: 10.33 KDa
DNA (31-MER) template strand Chain: G
Molecule details ›
Chain: G
Length: 33 nucleotides
Theoretical weight: 10.1 KDa
RNA (5'-R(P*GP*GP*GP*GP*GP*GP*GP*GP*GP*GP*G)-3') Chain: I
Molecule details ›
Chain: I
Length: 11 nucleotides
Theoretical weight: 3.75 KDa

Ligands and Environments

2 bound ligands:
Ligand MG 5 x MG
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3Å
Relevant EMDB volumes: EMD-24424
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 citation in other articles

Predicting Corynebacterium glutamicum promoters based on novel feature descriptor and feature selection technique.
Li et al. (2023)
1 more