Evidence map›Paper›PMID 35217661›Full record

ArticleNature communications2022

Cryo-EM structure of translesion DNA synthesis polymerase ζ with a base pair mismatch.

Radhika Malik, Robert E Johnson, Louise Prakash, Satya Prakash, Iban Ubarretxena-Belandia, Aneel K Aggarwal

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing papers in PubMed
1.4field-weighted citation impact, top 20% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

12 citing papers in PubMed, 16 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. eLife · 2024
    Article
  5. POLD3 as Controller of Replicative DNA Repair.International journal of molecular sciences · 2024
    Review
  6. Article
  7. Review
  8. Article
  9. Review
  10. Article
  11. Article
  12. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 3 institutions in 2 countries.

Radhika MalikDepartment of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, NY, USA.
Robert E JohnsonDepartment of Biochemistry and Molecular Biology, 301 University Blvd. University of Texas Medical Branch, Galveston, TX, USA.
Louise PrakashDepartment of Biochemistry and Molecular Biology, 301 University Blvd. University of Texas Medical Branch, Galveston, TX, USA.
Satya PrakashDepartment of Biochemistry and Molecular Biology, 301 University Blvd. University of Texas Medical Branch, Galveston, TX, USA.ORCID 0000-0001-7228-1444
Iban Ubarretxena-BelandiaDepartment of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, NY, USA. iban.ubarretxena@gmail.com.ORCID 0000-0003-4082-4349
Aneel K AggarwalDepartment of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, NY, USA. aneel.aggarwal@mssm.edu.ORCID 0000-0003-4389-0173
The University of Texas Medical Branch at Galveston · USIcahn School of Medicine at Mount Sinai · USIkerbasque · ES

Funding

TRD #3: An automated and streamlined pipeline for in-situ molecular microscopyP41GM103310 · NIGMS · SCRIPPS RESEARCH INSTITUTE, THE · PI DE MARCO, ALEX, KIEFT, JEFFREY S · 2012 to 2021
$14.7M
Resource for Biocomputing Visualization and InformaticsP41GM103311 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2012 to 2017
$8.2M
Structure and Specificity of Restriction-Modification (R-M) SystemsR35GM131780 · NIGMS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI ANEEL K. AGGARWAL · 2019 to 2026
$3.4M
Dual-Beam Scanning Electron Microscope for New York Structural Biology CenterS10RR029300 · NCRR · NEW YORK STRUCTURAL BIOLOGY CENTER · PI STOKES, DAVID L. · 2010 to 2010
$2.0M
Structure and mechanism of multisubunit complexes of DNA polymerase zetaR01GM124047 · NIGMS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI AGGARWAL, ANEEL K., PRAKASH, LOUISE · 2018 to 2021
$1.9M
Acquisition of Detector for JEOL 3200 FSC Electron MicroscopeS10OD019994 · OD · NEW YORK STRUCTURAL BIOLOGY CENTER · PI CARRAGHER, BRIDGET OLIVIA · 2015 to 2015
$600k
NCRR NIH HHS S10 RR029300NIGMS NIH HHS P41 GM103310NIGMS NIH HHS P41 GM103311NIGMS NIH HHS R01 GM124047NIGMS NIH HHS R35 GM131780NIH HHS S10 OD019994
6 · The paper itself

Abstract

The B-family multi-subunit DNA polymerase ζ (Polζ) is important for translesion DNA synthesis (TLS) during replication, due to its ability to extend synthesis past nucleotides opposite DNA lesions and mismatched base pairs. We present a cryo-EM structure of Saccharomyces cerevisiae Polζ with an A:C mismatch at the primer terminus. The structure shows how the Polζ active site responds to the mismatched duplex DNA distortion, including the loosening of key protein-DNA interactions and a fingers domain in an "open" conformation, while the incoming dCTP is still able to bind for the extension reaction. The structure of the mismatched DNA-Polζ ternary complex reveals insights into mechanisms that either stall or favor continued DNA synthesis in eukaryotes.

Indexed as

Base Pair MismatchSaccharomyces cerevisiae ProteinsCryoelectron MicroscopyDNADNA DamageDNA-Directed DNA PolymeraseDNA ReplicationSaccharomyces cerevisiaeDNADNA-Directed DNA PolymeraseDNA polymerase zetaSaccharomyces cerevisiae Proteins

Identifiers

PMID35217661
PMCPMC8881453
OpenAlexW4214491560

What OpenQuestion holds

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LicenceCC BY
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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.