Evidence map›Paper›PMID 29980672›Full record

ArticleNature communications2018

Structures of DNA-bound human ligase IV catalytic core reveal insights into substrate binding and catalysis.

Andrea M Kaminski, Percy P Tumbale, Matthew J Schellenberg, R Scott Williams, Jason G Williams, Thomas A Kunkel, Lars C Pedersen, Katarzyna Bebenek

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.

0numbers the graph read from it
0cells of the map it votes in
34citing papers in PubMed
2.3field-weighted citation impact, top 11% 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

34 citing papers in PubMed, 53 citations in OpenAlex.

  1. Article
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  7. A dual role of Cohesin in DNA DSB repair.Nature communications · 2025
    Article
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  20. DNA double-strand break repair in cancer: A path to achieving precision medicine.International review of cell and molecular biology · 2021
    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

8 authors at 1 institution in 1 country.

Andrea M KaminskiGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.ORCID http://orcid.org/0000-0002-6263-4186
Percy P TumbaleGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
Matthew J SchellenbergGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
R Scott WilliamsGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
Jason G WilliamsEpigenetics & Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
Thomas A KunkelGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
Lars C PedersenGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA. pederse2@niehs.nih.gov.
Katarzyna BebenekGenome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, 27709, NC, USA.
National Institutes of Health · US

Funding

Structural Biology of Genome Maintenance and DNA repairZIAES102765 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI WILLIAMS, ROBERT · 2010 to 2025
$35.2M
Structure-Function Studies Of DNA Replication FidelityZIAES065070 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI KUNKEL, THOMAS A · 2009 to 2025
$30.6M
Crystallographic studies of macromolecular structuresZICES102645 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI PEDERSEN, LARS · 2018 to 2025
$12.6M
Crystallographic studies of macromolecular structuresZIAES102645 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI PEDERSEN, LARS · 2009 to 2017
$9.4M
Structure-Function Studies Of DNA Replication FidelityZ01ES065070 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI KUNKEL, THOMAS A · 1991 to 2008
$4.3M
Mass Spectrometry CharacterizationZICES103206 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI DETERDING, LEESA · 2018 to 2021
$2.8M
Protein MicrocharacterizationZ01ES102488 · NIEHS · NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES · PI WILLIAMS, JASON · 2008 to 2008
$564k
Intramural NIH HHS Z01 ES065070Intramural NIH HHS Z01 ES102488Intramural NIH HHS ZIA ES102645NIEHS NIH HHS Z01 ES065070U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) 1Z01 ES102765U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) 1ZIA ES102645U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) ZES102488-09
6 · The paper itself

Abstract

DNA ligase IV (LigIV) performs the final DNA nick-sealing step of classical nonhomologous end-joining, which is critical for immunoglobulin gene maturation and efficient repair of genotoxic DNA double-strand breaks. Hypomorphic LigIV mutations cause extreme radiation sensitivity and immunodeficiency in humans. To better understand the unique features of LigIV function, here we report the crystal structure of the catalytic core of human LigIV in complex with a nicked nucleic acid substrate in two distinct states-an open lysyl-AMP intermediate, and a closed DNA-adenylate form. Results from structural and mutagenesis experiments unveil a dynamic LigIV DNA encirclement mechanism characterized by extensive interdomain interactions and active site phosphoanhydride coordination, all of which are required for efficient DNA nick sealing. These studies provide a scaffold for defining impacts of LigIV catalytic core mutations and deficiencies in human LIG4 syndrome.

Indexed as

BiocatalysisCatalytic DomainAdenineBase SequenceDNADNA Ligase ATPHumansLysineMutagenesisMutationPolymorphism, GeneticProtein BindingSubstrate SpecificityAdenineDNADNA Ligase ATPLIG4 protein, humanLysine

Identifiers

PMID29980672
PMCPMC6035275
OpenAlexW2810963777

What OpenQuestion holds

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Registered trials

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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.