› 7k01

Electron Microscopy
3.9Å resolution

Structure of TFIIH in TFIIH/Rad4-Rad23-Rad33 DNA opening complex

Released:
DOI: 10.2210/pdb7k01/pdb
PDB entry 7k01 coloured by chain, front view.
PDB entry 7k01 coloured by chain, side view.
PDB entry 7k01 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Cryo-EM structure of TFIIH/Rad4-Rad23-Rad33 in damaged DNA opening in nucleotide excision repair.
van Eeuwen T, Shim Y, Kim HJ, Zhao T, Basu S, Garcia BA, Kaplan CD, Min JH, Murakami K
OpenAccess logo Nat Commun 12 3338 (2021)
PMID: 34099686
Related structures: EMD-22587

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139251 (preferred)
Entry contents:
7 distinct polypeptide molecules
Macromolecules (7 distinct):
General transcription and DNA repair factor IIH subunit TFB1 Chain: 1
Molecule details ›
Chain: 1
Length: 642 amino acids
Theoretical weight: 72.99 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32776 (Residues: 1-642; Coverage: 100%)
Gene names: D9740.3, TFB1, YDR311W
Sequence domains:
General transcription and DNA repair factor IIH subunit TFB4 Chain: 4
Molecule details ›
Chain: 4
Length: 338 amino acids
Theoretical weight: 37.51 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q12004 (Residues: 1-338; Coverage: 100%)
Gene names: TFB4, YPR056W
Sequence domains: Transcription factor Tfb4
General transcription and DNA repair factor IIH helicase/translocase subunit XPB/SSL2 Chain: 7
Molecule details ›
Chain: 7
Length: 843 amino acids
Theoretical weight: 95.46 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q00578 (Residues: 1-843; Coverage: 100%)
Gene names: LOM3, RAD25, SSL2, UVS112, YIL143C
Sequence domains:
General transcription and DNA repair factor IIH subunit TFB5 Chain: 5
Molecule details ›
Chain: 5
Length: 72 amino acids
Theoretical weight: 8.24 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E7C1 (Residues: 1-72; Coverage: 100%)
Gene names: TFB5, YDR079C-A
Sequence domains: Transcription factor TFIIH complex subunit Tfb5
General transcription and DNA repair factor IIH subunit TFB2 Chain: 2
Molecule details ›
Chain: 2
Length: 513 amino acids
Theoretical weight: 58.6 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q02939 (Residues: 1-513; Coverage: 100%)
Gene names: TFB2, YPL122C
Sequence domains:
General transcription and DNA repair factor IIH helicase subunit XPD/RAD3 Chain: 0
Molecule details ›
Chain: 0
Length: 778 amino acids
Theoretical weight: 89.9 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P06839 (Residues: 1-778; Coverage: 100%)
Gene names: RAD3, REM1, YER171W
Sequence domains:
General transcription and DNA repair factor IIH subunit SSL1 Chain: 6
Molecule details ›
Chain: 6
Length: 461 amino acids
Theoretical weight: 52.37 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q04673 (Residues: 1-461; Coverage: 100%)
Gene names: SSL1, YLR005W
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 5 x ZN
Ligand SF4 1 x SF4
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.9Å
Relevant EMDB volumes: EMD-22587

Quick links

Citations

4 review citations

Mechanism of action of nucleotide excision repair machinery.
D'Souza et al. (2022)
3 more

1 mention without citation

Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Yang et al. (2022)