ArticleNature chemical biology2019
Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Article in Nature chemical biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 39 citations in OpenAlex.
- Structural and Functional Insights into UDGs.Protein and peptide letters · 2025Review
- Exploration and Application of DNA-Binding Proteins to Make a Versatile DNA-Protein Covalent-Linking Patch (D-Pclip): The Case of a Biosensing Element.Journal of the American Chemical Society · 2024Article
- Structural and functional coupling in cross-linking uracil-DNA glycosylase UDGX.Bioscience reports · 2024Article
- Rapid genome-wide profiling of DNA methylation and genetic variation using guide positioning sequencing (GPS).Frontiers in cell and developmental biology · 2024Article
- Mutational and structural analyses of UdgX: insights into the active site pocket architecture and its evolution.Nucleic acids research · 2023Article
- The Design and Application of DNA-Editing Enzymes as Base Editors.Annual review of biochemistry · 2023Review
- Reclassification of family A DNA polymerases reveals novel functional subfamilies and distinctive structural features.Nucleic acids research · 2023Article
- Base excision repair of the N-(2-deoxy-d-erythro-pentofuranosyl)-urea lesion by the hNEIL1 glycosylase.Nucleic acids research · 2023Article
- HMGN1 enhances CRISPR-directed dual-function A-to-G and C-to-G base editing.Nature communications · 2023Article
- DR0022 from Deinococcus radiodurans is an acid uracil-DNA glycosylase.The FEBS journal · 2022Article
- Bacterial DNA excision repair pathways.Nature reviews. Microbiology · 2022Review
- Human TDP1, APE1 and TREX1 repair 3'-DNA-peptide/protein cross-links arising from abasic sites in vitro.Nucleic acids research · 2022Article
- Efficient C•G-to-G•C base editors developed using CRISPRi screens, target-library analysis, and machine learning.Nature biotechnology · 2021Article
- Detection of Genomic Uracil Patterns.International journal of molecular sciences · 2021Review
- Structural and functional analysis of the Francisella lysine decarboxylase as a key actor in oxidative stress resistance.Scientific reports · 2021Article
- Visualization of uracils created by APOBEC3A using UdgX shows colocalization with RPA at stalled replication forks.Nucleic acids research · 2020Article
- Catalytic mechanism of the mismatch-specific DNA glycosylase methyl-CpG-binding domain 4.The Biochemical journal · 2020Article
- DNA-Protein Cross-Link Formation in Nucleosome Core Particles Treated with Methyl Methanesulfonate.Chemical research in toxicology · 2019Article
Corrections and comments
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Authors and funding
10 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Uracil DNA glycosylases (UDGs) are important DNA repair enzymes that excise uracil from DNA, yielding an abasic site. Recently, UdgX, an unconventional UDG with extremely tight binding to DNA containing uracil, was discovered. The structure of UdgX from Mycobacterium smegmatis in complex with DNA shows an overall similarity to that of family 4 UDGs except for a protruding loop at the entrance of the uracil-binding pocket. Surprisingly, H109 in the loop was found to make a covalent bond to the abasic site to form a stable intermediate, while the excised uracil remained in the pocket of the active site. H109 functions as a nucleophile to attack the oxocarbenium ion, substituting for the catalytic water molecule found in other UDGs. To our knowledge, this change from a catalytic water attack to a direct nucleophilic attack by the histidine residue is unprecedented. UdgX utilizes a unique mechanism of protecting cytotoxic abasic sites from exposure to the cellular environment.
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Registered trials
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.