› 4g7z

X-ray diffraction
3.82Å resolution

Crystal structure of Thermus thermophilus transcription initiation complex containing 5-BrU at template-strand position +1

Released:
DOI: 10.2210/pdb4g7z/pdb
PDB entry 4g7z coloured by chain, front view.
PDB entry 4g7z coloured by chain, side view.
PDB entry 4g7z coloured by chain, top view.
Source organism: Thermus thermophilus HB8
Primary publication:
Structural basis of transcription initiation.
Zhang Y, Feng Y, Chatterjee S, Tuske S, Ho MX, Arnold E, Ebright RH
Science 338 1076-80 (2012)
PMID: 23086998

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)
PDBe Complex ID:
PDB-CPX-117533 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
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:
Structure 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:
Structure 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
Structure domains: Eukaryotic RPB6 RNA polymerase subunit
RNA polymerase sigma factor SigA Chains: F, P
Molecule details ›
Chains: F, P
Length: 443 amino acids
Theoretical weight: 50.77 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:
Structure domains:
5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*AP*GP*G)-3' Chains: H, R
Molecule details ›
Chains: H, R
Length: 27 nucleotides
Theoretical weight: 8.42 KDa
5'-D(*CP*CP*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*(BRU)P*CP*GP*AP*GP*GP*G)-3' Chains: G, Q
Molecule details ›
Chains: G, Q
Length: 21 nucleotides
Theoretical weight: 6.55 KDa

Ligands and Environments

2 bound ligands:
Ligand ZN 4 x ZN
Ligand MG 2 x MG
1 modified residue:
Ligand BRU 2 x BRU

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F1
Spacegroup: P21
Unit cell:
a: 185.465Å b: 103.59Å c: 296.507Å
α: 90° β: 98.53° γ: 90°
R-values:
R R work R free
0.177 0.176 0.232
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

47 review citations

Bacterial sigma factors: a historical, structural, and genomic perspective.
Feklístov et al. (2014)
46 more

3 mentions without citation

Structural basis of transcription initiation.
Zhang et al. (2012)
2 more