› 8tlt

Electron Microscopy
2.85Å resolution

Cryo-EM structure of Rev1(deltaN)-Polzeta-DNA-dCTP complex

Released:
DOI: 10.2210/pdb8tlt/pdb
PDB entry 8tlt coloured by chain, front view.
PDB entry 8tlt coloured by chain, side view.
PDB entry 8tlt coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Cryo-EM structure of the Rev1-PolĪ¶ holocomplex reveals the mechanism of their cooperativity in translesion DNA synthesis.
Malik R, Johnson RE, Ubarretxena-Belandia I, Prakash L, Prakash S, Aggarwal AK
Nat Struct Mol Biol (2024)
PMID: 38720088
Related structures: EMD-41372

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-246259 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
DNA polymerase zeta catalytic subunit Chain: A
Molecule details ›
Chain: A
Length: 1538 amino acids
Theoretical weight: 177.07 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P14284 (Residues: 1-1504; Coverage: 100%)
Gene names: P2535, PSO1, REV3, YPL167C
Sequence domains:
DNA polymerase zeta processivity subunit Chains: D, E
Molecule details ›
Chains: D, E
Length: 245 amino acids
Theoretical weight: 28.79 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P38927 (Residues: 1-245; Coverage: 100%)
Gene names: REV7, YIL139C
Sequence domains: HORMA domain
DNA polymerase delta small subunit Chain: F
Molecule details ›
Chain: F
Length: 494 amino acids
Theoretical weight: 55.99 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P46957 (Residues: 1-487; Coverage: 100%)
Gene names: HUS2, HYS2, J1427, POL31, SDP5, YJR006W, YJR83.7
Sequence domains:
DNA polymerase delta subunit 3 Chain: G
Molecule details ›
Chain: G
Length: 350 amino acids
Theoretical weight: 40.38 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P47110 (Residues: 1-350; Coverage: 100%)
Gene names: J1626, POL32, YJR043C
DNA repair protein REV1 Chain: B
Molecule details ›
Chain: B
Length: 985 amino acids
Theoretical weight: 112.38 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P12689 (Residues: 1-985; Coverage: 100%)
Gene names: O6339, REV1, YOR346W
Sequence domains:
DNA (5'-D(P*CP*CP*CP*TP*CP*CP*CP*CP*TP*AP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 11 nucleotides
Theoretical weight: 3.19 KDa
DNA (5'-D(*TP*AP*AP*TP*GP*GP*TP*AP*GP*GP*GP*GP*AP*GP*GP*GP*AP*AP*T)-3') Chain: T
Molecule details ›
Chain: T
Length: 19 nucleotides
Theoretical weight: 6.01 KDa

Ligands and Environments

3 bound ligands:
Ligand SF4 1 x SF4
Ligand CA 1 x CA
Ligand DCP 1 x DCP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.85Å
Relevant EMDB volumes: EMD-41372
Expression system: Saccharomyces cerevisiae

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