› 6ro4

Electron Microscopy
3.5Å resolution

Structure of the core TFIIH-XPA-DNA complex

Released:
DOI: 10.2210/pdb6ro4/pdb
PDB entry 6ro4 coloured by chain, front view.
PDB entry 6ro4 coloured by chain, side view.
PDB entry 6ro4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of TFIIH activation for nucleotide excision repair.
Kokic G, Chernev A, Tegunov D, Dienemann C, Urlaub H, Cramer P
Nat Commun 10 2885 (2019)
PMID: 31253769
Related structures: EMD-4970

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
PDBe Complex ID:
PDB-CPX-120561 (preferred)
Entry contents:
7 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (9 distinct):
General transcription and DNA repair factor IIH helicase/translocase subunit XPB Chain: A
Molecule details ›
Chain: A
Length: 782 amino acids
Theoretical weight: 89.4 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P19447 (Residues: 1-782; Coverage: 100%)
Gene names: ERCC3, XPB, XPBC
Sequence domains:
General transcription factor IIH subunit 5 Chain: F
Molecule details ›
Chain: F
Length: 71 amino acids
Theoretical weight: 8.06 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q6ZYL4 (Residues: 1-71; Coverage: 100%)
Gene names: C6orf175, GTF2H5, TTDA
Sequence domains: Transcription factor TFIIH complex subunit Tfb5
General transcription and DNA repair factor IIH helicase subunit XPD Chain: B
Molecule details ›
Chain: B
Length: 760 amino acids
Theoretical weight: 87.02 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P18074 (Residues: 1-760; Coverage: 100%)
Gene names: ERCC2, XPD, XPDC
Sequence domains:
General transcription factor IIH subunit 3 Chain: E
Molecule details ›
Chain: E
Length: 308 amino acids
Theoretical weight: 34.42 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q13889 (Residues: 1-308; Coverage: 100%)
Gene name: GTF2H3
Sequence domains: Transcription factor Tfb4
General transcription factor IIH subunit 2 Chain: D
Molecule details ›
Chain: D
Length: 395 amino acids
Theoretical weight: 44.48 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q13888 (Residues: 1-395; Coverage: 100%)
Gene names: BTF2P44, GTF2H2
Sequence domains:
General transcription factor IIH subunit 4 Chain: C
Molecule details ›
Chain: C
Length: 462 amino acids
Theoretical weight: 52.25 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q92759 (Residues: 1-462; Coverage: 100%)
Gene name: GTF2H4
Sequence domains:
DNA repair protein complementing XP-A cells Chain: G
Molecule details ›
Chain: G
Length: 273 amino acids
Theoretical weight: 31.42 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P23025 (Residues: 1-273; Coverage: 100%)
Gene names: XPA, XPAC
Sequence domains:
DNA1 Chain: J
Molecule details ›
Chain: J
Length: 49 nucleotides
Theoretical weight: 15.04 KDa
DNA2 Chain: K
Molecule details ›
Chain: K
Length: 49 nucleotides
Theoretical weight: 15.08 KDa

Ligands and Environments

2 bound ligands:
Ligand SF4 1 x SF4
Ligand ZN 6 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-4970
Expression system: Trichoplusia ni

Quick links

Citations

12 review citations

Envisioning how the prototypic molecular machine TFIIH functions in transcription initiation and DNA repair.
Tsutakawa et al. (2020)
11 more

17 mentions without citation

Structure and mechanism of the RNA polymerase II transcription machinery.
Schier et al. (2020)
16 more