6V93 image
Deposition Date 2019-12-13
Release Date 2020-08-19
Last Version Date 2025-05-14
Entry Detail
PDB ID:
6V93
Title:
Structure of DNA Polymerase Zeta/DNA/dNTP Ternary Complex
Biological Source:
Method Details:
Experimental Method:
Resolution:
3.10 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:DNA polymerase zeta catalytic subunit
Gene (Uniprot):REV3
Chain IDs:A
Chain Length:1538
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Molecule:DNA polymerase zeta processivity subunit
Gene (Uniprot):REV7
Chain IDs:B (auth: D), C (auth: E)
Chain Length:245
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Molecule:DNA polymerase delta small subunit
Gene (Uniprot):POL31
Chain IDs:D (auth: F)
Chain Length:494
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polypeptide(L)
Molecule:DNA polymerase delta subunit 3
Gene (Uniprot):POL32
Chain IDs:E (auth: G)
Chain Length:350
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Polymer Type:polydeoxyribonucleotide
Molecule:DNA
Chain IDs:F (auth: P), G (auth: T)
Chain Length:30
Number of Molecules:2
Biological Source:synthetic construct
Primary Citation
Structure and mechanism of B-family DNA polymerase zeta specialized for translesion DNA synthesis.
Nat.Struct.Mol.Biol. 27 913 924 (2020)
PMID: 32807989 DOI: 10.1038/s41594-020-0476-7

Abstact

DNA polymerase ζ (Polζ) belongs to the same B-family as high-fidelity replicative polymerases, yet is specialized for the extension reaction in translesion DNA synthesis (TLS). Despite its importance in TLS, the structure of Polζ is unknown. We present cryo-EM structures of the Saccharomyces cerevisiae Polζ holoenzyme in the act of DNA synthesis (3.1 Å) and without DNA (4.1 Å). Polζ displays a pentameric ring-like architecture, with catalytic Rev3, accessory Pol31' Pol32 and two Rev7 subunits forming an uninterrupted daisy chain of protein-protein interactions. We also uncover the features that impose high fidelity during the nucleotide-incorporation step and those that accommodate mismatches and lesions during the extension reaction. Collectively, we decrypt the molecular underpinnings of Polζ's role in TLS and provide a framework for new cancer therapeutics.

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