› 6xp5

Electron Microscopy
4.2Å resolution

Head-Middle module of Mediator

Released:
DOI: 10.2210/pdb6xp5/pdb
PDB entry 6xp5 coloured by chain, front view.
PDB entry 6xp5 coloured by chain, side view.
PDB entry 6xp5 coloured by chain, top view.
Source organisms:
Primary publication:
Mediator structure and conformation change.
Zhang H, Chen DH, Mattoo RUH, Bushnell DA, Wang Y, Yuan C, Wang L, Wang C, Davis RE, Nie Y, Kornberg RD
Mol Cell 81 1781-1788.e4 (2021)
PMID: 33571424
Related structures: EMD-22284

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
PDBe Complex ID:
PDB-CPX-123905 (preferred)
Entry contents:
15 distinct polypeptide molecules
Macromolecules (15 distinct):
Mediator of RNA polymerase II transcription subunit 21 Chain: U
Molecule details ›
Chain: U
Length: 135 amino acids
Theoretical weight: 15.72 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S8E0 (Residues: 3-137; Coverage: 99%)
Gene name: CTHT_0029550
Sequence domains: Subunit 21 of Mediator complex
Mediator of RNA polymerase II transcription subunit 4 Chain: D
Molecule details ›
Chain: D
Length: 341 amino acids
Theoretical weight: 37.92 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S7Z4 (Residues: 1-341; Coverage: 100%)
Gene names: CTHT_0037540, MED4
Sequence domains: Vitamin-D-receptor interacting Mediator subunit 4
Mediator of RNA polymerase II transcription subunit 6 Chain: F
Molecule details ›
Chain: F
Length: 337 amino acids
Theoretical weight: 36.47 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SGT8 (Residues: 1-135, 136-336; Coverage: 100%)
Gene names: CTHT_0067530, MED6
Sequence domains: MED6 mediator sub complex component
Mediator of RNA polymerase II transcription subunit 7 Chain: G
Molecule details ›
Chain: G
Length: 246 amino acids
Theoretical weight: 27.74 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SEM4 (Residues: 1-246; Coverage: 100%)
Gene name: CTHT_0064270
Sequence domains: MED7 protein
Mediator of RNA polymerase II transcription subunit 9 Chain: I
Molecule details ›
Chain: I
Length: 179 amino acids
Theoretical weight: 18.33 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S292 (Residues: 1-179; Coverage: 100%)
Gene names: CTHT_0016410, MED9
Sequence domains: RNA polymerase II transcription mediator complex subunit 9
Mediator of RNA polymerase II transcription subunit 14 Chain: N
Molecule details ›
Chain: N
Length: 1171 amino acids
Theoretical weight: 133.45 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SCL5 (Residues: 1-730, 731-1168; Coverage: 100%)
Gene name: CTHT_0057660
Sequence domains: Mediator complex subunit MED14
Mediator of RNA polymerase II transcription subunit 17 Chain: Q
Molecule details ›
Chain: Q
Length: 634 amino acids
Theoretical weight: 69.62 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S1R5 (Residues: 1-634; Coverage: 100%)
Gene names: CTHT_0014540, MED17
Sequence domains: Subunit 17 of Mediator complex
Mediator of RNA polymerase II transcription subunit 31 Chain: Z
Molecule details ›
Chain: Z
Length: 124 amino acids
Theoretical weight: 14.49 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S1W4 (Residues: 1-124; Coverage: 100%)
Gene name: CTHT_0015060
Sequence domains: SOH1
Mediator of RNA polymerase II transcription subunit 8 Chain: H
Molecule details ›
Chain: H
Length: 290 amino acids
Theoretical weight: 32.1 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SCZ3 (Residues: 1-290; Coverage: 100%)
Gene names: CTHT_0058900, MED8
Sequence domains: Mediator of RNA polymerase II transcription complex subunit 8
Mediator of RNA polymerase II transcription subunit 11 Chain: K
Molecule details ›
Chain: K
Length: 238 amino acids
Theoretical weight: 25.5 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SH09 (Residues: 1-238; Coverage: 100%)
Gene names: CTHT_0068270, MED11
Sequence domains: Mediator complex protein
Mediator of RNA polymerase II transcription subunit 18 Chain: R
Molecule details ›
Chain: R
Length: 340 amino acids
Theoretical weight: 38.73 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0RYQ4 (Residues: 1-340; Coverage: 100%)
Gene names: CTHT_0007510, MED18
Sequence domains: Med18 protein
Med22 Chain: V
Molecule details ›
Chain: V
Length: 169 amino acids
Theoretical weight: 18.34 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0S3J8 (Residues: 1-77, 79-168; Coverage: 99%)
Gene name: CTHT_0021510
Sequence domains: Surfeit locus protein 5 subunit 22 of Mediator complex
Mediator of RNA polymerase II transcription subunit 1 Chain: a
Molecule details ›
Chain: a
Length: 736 amino acids
Theoretical weight: 81.63 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
UniProt:
  • Canonical: G0SEC7 (Residues: 1-736; Coverage: 100%)
Gene name: CTHT_0063280
Sequence domains: Mediator of RNA polymerase II transcription subunit 1
Unknown peptide Chain: b
Molecule details ›
Chain: b
Length: 21 amino acids
Theoretical weight: 1.81 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Chaetomium thermophilum
HEAT Chain: c
Molecule details ›
Chain: c
Length: 200 amino acids
Theoretical weight: 17.04 KDa
Source organism: Thermochaetoides thermophila
Expression system: Chaetomium thermophilum

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.2Å
Relevant EMDB volumes: EMD-22284
Expression system: Chaetomium thermophilum

Quick links

Citations

3 review citations

The Mediator complex as a master regulator of transcription by RNA polymerase II.
Richter et al. (2022)
2 more

1 mention without citation

Assembly of RNA polymerase II transcription initiation complexes.
Farnung et al. (2022)