› 4gwq

X-ray diffraction
4.5Å resolution

Structure of the Mediator Head Module from S. cerevisiae in complex with the carboxy-terminal domain (CTD) of RNA Polymerase II Rpb1 subunit

Released:
DOI: 10.2210/pdb4gwq/pdb
PDB entry 4gwq coloured by chain, front view.
PDB entry 4gwq coloured by chain, side view.
PDB entry 4gwq coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Structure of the mediator head module bound to the carboxy-terminal domain of RNA polymerase II.
Robinson PJ, Bushnell DA, Trnka MJ, Burlingame AL, Kornberg RD
Proc Natl Acad Sci U S A 109 17931-5 (2012)
PMID: 23071300

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-137360 (preferred)
Entry contents:
8 distinct polypeptide molecules
Macromolecules (8 distinct):
Mediator of RNA polymerase II transcription subunit 11 Chain: A
Molecule details ›
Chain: A
Length: 115 amino acids
Theoretical weight: 13.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q99278 (Residues: 1-115; Coverage: 100%)
Gene names: MED11, YM9718.11C, YMR112C
Sequence domains: Mediator complex protein
Mediator of RNA polymerase II transcription subunit 17 Chain: B
Molecule details ›
Chain: B
Length: 687 amino acids
Theoretical weight: 78.58 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32569 (Residues: 1-687; Coverage: 100%)
Gene names: MED17, SRB4, YER022W
Sequence domains: Subunit 17 of Mediator complex
Mediator of RNA polymerase II transcription subunit 8 Chain: C
Molecule details ›
Chain: C
Length: 407 amino acids
Theoretical weight: 45.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38304 (Residues: 1-223; Coverage: 100%)
Gene names: MED8, YBR1403, YBR193C
Sequence domains: Mediator of RNA polymerase II transcription complex subunit 8
Mediator of RNA polymerase II transcription subunit 22 Chain: D
Molecule details ›
Chain: D
Length: 121 amino acids
Theoretical weight: 13.88 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32570 (Residues: 1-121; Coverage: 100%)
Gene names: MED22, SRB6, YBR1721, YBR253W
Sequence domains: Surfeit locus protein 5 subunit 22 of Mediator complex
Mediator of RNA polymerase II transcription subunit 18 Chain: E
Molecule details ›
Chain: E
Length: 307 amino acids
Theoretical weight: 34.32 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32585 (Residues: 1-307; Coverage: 100%)
Gene names: MED18, SRB5, YGR104C
Sequence domains: Med18 protein
Mediator of RNA polymerase II transcription subunit 20 Chain: F
Molecule details ›
Chain: F
Length: 210 amino acids
Theoretical weight: 22.92 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P34162 (Residues: 1-210; Coverage: 100%)
Gene names: HRS2, MED20, SRB2, YHR041C
Sequence domains: TATA-binding related factor (TRF) of subunit 20 of Mediator complex
Mediator of RNA polymerase II transcription subunit 6 Chain: G
Molecule details ›
Chain: G
Length: 295 amino acids
Theoretical weight: 32.84 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38782 (Residues: 1-295; Coverage: 100%)
Gene names: MED6, MTR32, YHR058C
Sequence domains: MED6 mediator sub complex component
DNA-directed RNA polymerase II subunit RPB1 Chain: H
Molecule details ›
Chain: H
Length: 35 amino acids
Theoretical weight: 3.62 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Not provided
UniProt:
  • Canonical: P04050 (Residues: 1619-1653; Coverage: 2%)
Gene names: D2150, RPB1, RPB220, RPO21, SUA8, YDL140C
Sequence domains: RNA polymerase Rpb1 C-terminal repeat

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P3221
Unit cell:
a: 142.449Å b: 142.449Å c: 305.641Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.289 0.286 0.345
Expression system: Not provided

Quick links

Citations

26 review citations

The Mediator complex: a central integrator of transcription.
Allen et al. (2015)
25 more

4 mentions without citation

Mediator structure and rearrangements required for holoenzyme formation.
Tsai et al. (2017)
3 more