ArticleNature chemical biology2011
Single-molecule analysis reveals three phases of DNA degradation by an exonuclease.
Article in Nature chemical biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Topology-Gated λ Exonuclease Enables Amplification-Free Signal Boosting.Journal of the American Chemical Society · 2026Article
- Single-molecule fluorescence reveals the DNA unwinding mechanism of mitochondrial helicase TWINKLE and its interplay with single-stranded DNA-binding proteins.Nucleic acids research · 2025Article
- Single-molecule studies of repair proteins in base excision repair.BMB reports · 2025Review
- Nuclease-induced stepwise photodropping (NISP) to precisely investigate single-stranded DNA degradation behaviors of exonucleases and endonucleases.Nucleic acids research · 2024Article
- Discrete RNA-DNA hybrid cleavage by the EXD2 exonuclease pinpoints two rate-limiting steps.The EMBO journal · 2023Article
- Improving the specificity of nucleic acid detection with endonuclease-actuated degradation.Communications biology · 2022Article
- RNase H is an exo- and endoribonuclease with asymmetric directionality, depending on the binding mode to the structural variants of RNA:DNA hybrids.Nucleic acids research · 2022Article
- The mechanism of gap creation by a multifunctional nuclease during base excision repair.Science advances · 2021Article
- Half a century of bacteriophage lambda recombinase: In vitro studies of lambda exonuclease and Red-beta annealase.IUBMB life · 2020Review
- Systematic Probing of the Sequence Selectivity of Exonuclease III with a Photosensitization Colorimetric Assay.ACS omega · 2019Article
- Dynamic coordination of two-metal-ions orchestrates λ-exonuclease catalysis.Nature communications · 2018Article
- Noncanonical substrate preference of lambda exonuclease for 5'-nonphosphate-ended dsDNA and a mismatch-induced acceleration effect on the enzymatic reaction.Nucleic acids research · 2018Article
- Single particle tracking-based reaction progress kinetic analysis reveals a series of molecular mechanisms of cetuximab-induced EGFR processes in a single living cell.Chemical science · 2017Article
- Allosteric ring assembly and chemo-mechanical melting by the interaction between 5'-phosphate and λ exonuclease.Nucleic acids research · 2015Article
- Immobilization of lambda exonuclease onto polymer micropillar arrays for the solid-phase digestion of dsDNAs.Analytical chemistry · 2014Article
- Dynamic look at DNA unwinding by a replicative helicase.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Probing enzymatic activity inside living cells using a nanowire-cell "sandwich" assay.Nano letters · 2013Article
- Frequency of close positioning of chromosomal loci detected by FRET correlates with their participation in carcinogenic rearrangements in human cells.Genes, chromosomes & cancer · 2012Article
- Characterization of the human SNM1A and SNM1B/Apollo DNA repair exonucleases.The Journal of biological chemistry · 2012Article
- Elastic coupling between RNA degradation and unwinding by an exoribonuclease.Science (New York, N.Y.) · 2012Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
λ exonuclease degrades one strand of duplex DNA in the 5'-to-3' direction to generate a 3' overhang required for recombination. Its ability to hydrolyze thousands of nucleotides processively is attributed to its ring structure, and most studies have focused on the processive phase. Here we have used single-molecule fluorescence resonance energy transfer (FRET) to reveal three phases of λ exonuclease reactions: the initiation, distributive and processive phases. The distributive phase comprises early reactions in which the 3' overhang is too short to stably engage with the enzyme. A mismatched base is digested one-fifth as quickly as a Watson-Crick-paired base, and multiple concatenated mismatches have a cooperatively negative effect, highlighting the crucial role of base pairing in aligning the 5' end toward the active site. The rate-limiting step during processive degradation seems to be the post-cleavage melting of the terminal base pair. We also found that an escape from a known pausing sequence requires enzyme backtracking.
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