7nvz

Electron Microscopy
7.2Å resolution

RNA polymerase II pre-initiation complex with closed promoter DNA in distal position

Released:
Primary publication:
Structures of mammalian RNA polymerase II pre-initiation complexes.
Nature 594 124-128 (2021)
PMID: 33902107
Related structures: EMD-12618

Function and Biology Details

Reactions catalysed:
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Acetyl-CoA + [protein]-L-lysine = CoA + [protein]-N(6)-acetyl-L-lysine
ATP + H(2)O = ADP + phosphate
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero 32-mer (preferred)
PDBe Complex ID:
PDB-CPX-236748 (preferred)
Entry contents:
30 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (32 distinct):
General transcription and DNA repair factor IIH helicase subunit XPD Chain: 0
Molecule details ›
Chain: 0
Length: 760 amino acids
Theoretical weight: 87.02 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
General transcription factor IIH subunit 1 Chain: 1
Molecule details ›
Chain: 1
Length: 548 amino acids
Theoretical weight: 62.12 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
General transcription factor IIH subunit 4 Chain: 2
CDK-activating kinase assembly factor MAT1 Chain: 3
General transcription factor IIH subunit 3 Chain: 4
General transcription factor IIH subunit 5 Chain: 5
General transcription factor IIH subunit 2 Chain: 6
General transcription and DNA repair factor IIH helicase/translocase subunit XPB Chain: 7
DNA-directed RNA polymerase subunit Chain: A
DNA-directed RNA polymerase subunit beta Chain: B
DNA-directed RNA polymerase RpoA/D/Rpb3-type domain-containing protein Chain: C
RNA polymerase Rpb4/RPC9 core domain-containing protein Chain: D
DNA-directed RNA polymerase II subunit E Chain: E
DNA-directed RNA polymerases I, II, and III subunit RPABC2 Chain: F
DNA-directed RNA polymerase II subunit RPB7 Chain: G
DNA-directed RNA polymerases I, II, and III subunit RPABC3 Chain: H
DNA-directed RNA polymerase II subunit RPB9 Chain: I
DNA-directed RNA polymerases I, II, and III subunit RPABC5 Chain: J
DNA-directed RNA polymerase RBP11-like dimerisation domain-containing protein Chain: K
RNA polymerase II, I and III subunit K Chain: L
Transcription initiation factor IIB Chain: M
TATA-box-binding protein Chain: O
General transcription factor IIF subunit 1 Chain: Q
General transcription factor IIF subunit 2 Chain: R
Transcription initiation factor IIA subunit 1 Chain: U
Transcription initiation factor IIA subunit 2 Chain: V
General transcription factor IIE subunit 1 Chain: W
Transcription initiation factor IIE subunit beta Chain: X
Unassigned peptide, likely TFIIE-beta Chain: Y
Unassigned peptide, likely XPB Chain: Z
Non-template DNA Chain: N
Template DNA Chain: T

Ligands and Environments

3 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 7.2Å
Relevant EMDB volumes: EMD-12618
Expression systems:
  • Trichoplusia ni
  • Escherichia coli
  • Not provided