› 8abz

Electron Microscopy
3.4Å resolution

RNA polymerase at U-rich pause bound to non-regulatory RNA - pause prone, closed clamp state

Released:
DOI: 10.2210/pdb8abz/pdb
PDB entry 8abz coloured by chain, front view.
PDB entry 8abz coloured by chain, side view.
PDB entry 8abz coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structural insights into RNA-mediated transcription regulation in bacteria.
Dey S, Batisse C, Shukla J, Webster MW, Takacs M, Saint-André C, Weixlbaumer A
Mol Cell (2022)
PMID: 36220101
Related structures: EMD-15328

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-216599 (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: 329 amino acids
Theoretical weight: 36.56 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A7Z4 (Residues: 1-329; Coverage: 100%)
Gene names: JW3257, b3295, pez, phs, rpoA, sez
Sequence domains:
DNA-directed RNA polymerase subunit beta Chain: C
Molecule details ›
Chain: C
Length: 1342 amino acids
Theoretical weight: 150.82 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A8V2 (Residues: 1-1342; Coverage: 100%)
Gene names: JW3950, b3987, groN, nitB, rif, ron, rpoB, stl, stv, tabD
Sequence domains:
DNA-directed RNA polymerase subunit beta' Chain: D
DNA-directed RNA polymerase subunit omega Chain: E
Non-template DNA Chain: N
Template DNA Chain: T
Non-regulatory RNA Chain: R

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand ZN 2 x ZN
1 modified residue:
Ligand IGU 2 x IGU

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.4Å
Relevant EMDB volumes: EMD-15328
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

7 citation in other articles

Structural basis for intrinsic transcription termination.
You et al. (2023)
6 more