6wrg

Electron Microscopy
3.58Å resolution

Escherichia coli RNA polymerase and rrnBP1 promoter pre-open complex with DksA/ppGpp

Released:
Source organism: Escherichia coli K-12
Entry authors: Shin Y, Qayyum MZ, Murakami KS
Related structures: EMD-21883

Function and Biology Details

Reaction catalysed:
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
Entry contents:
6 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (8 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 236 amino acids
Theoretical weight: 26.11 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: A0A5B9AW69 (Residues: 1-236; Coverage: 72%)
Gene names: FTV90_00720, FTV93_20930, rpoA
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 K-12
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
Molecule details ›
Chain: D
Length: 1407 amino acids
Theoretical weight: 155.37 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P0A8T7 (Residues: 1-1407; Coverage: 100%)
Gene names: JW3951, b3988, rpoC, tabB
Sequence domains:
DNA-directed RNA polymerase subunit omega Chain: E
Molecule details ›
Chain: E
Length: 91 amino acids
Theoretical weight: 10.25 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P0A800 (Residues: 1-91; Coverage: 100%)
Gene names: JW3624, b3649, rpoZ
Sequence domains: RNA polymerase Rpb6
RNA polymerase sigma factor RpoD Chain: F
Molecule details ›
Chain: F
Length: 613 amino acids
Theoretical weight: 70.35 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P00579 (Residues: 1-613; Coverage: 100%)
Gene names: JW3039, alt, b3067, rpoD
Sequence domains:
RNA polymerase-binding transcription factor DksA Chain: M
Molecule details ›
Chain: M
Length: 151 amino acids
Theoretical weight: 17.55 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P0ABS1 (Residues: 1-151; Coverage: 100%)
Gene names: JW0141, b0145, dksA
Sequence domains: Prokaryotic dksA/traR C4-type zinc finger
DNA (80-MER) Chain: X
Molecule details ›
Chain: X
Length: 80 nucleotides
Theoretical weight: 24.5 KDa
DNA (80-MER) Chain: Y
Molecule details ›
Chain: Y
Length: 80 nucleotides
Theoretical weight: 24.83 KDa

Ligands and Environments


No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.58Å
Relevant EMDB volumes: EMD-21883
Expression system: Escherichia coli K-12