ArticleThe Biochemical journal2009
Active site substitutions delineate distinct classes of eubacterial flap endonuclease.
Article in The Biochemical journal, 2009. 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, 20 citations in OpenAlex.
- DNA polymerase I: structure, activity, and function in bacterial DNA replication and repair.Critical reviews in biochemistry and molecular biology · 2026Review
- DnaE uses strand displacement synthesis during Okazaki fragment repair.bioRxiv : the preprint server for biology · 2026Article
- Article
- Bacillus subtilis encodes a discrete flap endonuclease that cleaves RNA-DNA hybrids.PLoS genetics · 2023Article
- The Impact of RNA-DNA Hybrids on Genome Integrity in Bacteria.Annual review of microbiology · 2022Review
- Gene cloning and characterization of Tk1281, a flap endonuclease 1 from Thermococcus kodakarensis.Folia microbiologica · 2020Article
- Comprehensive classification of the PIN domain-like superfamily.Nucleic acids research · 2017Article
- Phosphate steering by Flap Endonuclease 1 promotes 5'-flap specificity and incision to prevent genome instability.Nature communications · 2017Article
- Direct observation of DNA threading in flap endonuclease complexes.Nature structural & molecular biology · 2016Article
- Investigating the mechanisms of ribonucleotide excision repair in Escherichia coli.Mutation research · 2014Article
- The structure of Escherichia coli ExoIX--implications for DNA binding and catalysis in flap endonucleases.Nucleic acids research · 2013Article
- Bacterial DNA polymerases participate in oligonucleotide recombination.Molecular microbiology · 2013Article
- Characterization of an unusual bipolar helicase encoded by bacteriophage T5.Nucleic acids research · 2013Article
- Unpairing and gating: sequence-independent substrate recognition by FEN superfamily nucleases.Trends in biochemical sciences · 2012Review
- The DNA Exonucleases of Escherichia coli.EcoSal Plus · 2011Article
- Neutralizing mutations of carboxylates that bind metal 2 in T5 flap endonuclease result in an enzyme that still requires two metal ions.The Journal of biological chemistry · 2011Article
- A model for transition of 5'-nuclease domain of DNA polymerase I from inert to active modes.PloS one · 2011Article
- Predicted poxvirus FEN1-like nuclease required for homologous recombination, double-strand break repair and full-size genome formation.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
FENs (flap endonucleases) play essential roles in DNA replication, pivotally in the resolution of Okazaki fragments. In eubacteria, DNA PolI (polymerase I) contains a flap processing domain, the N-terminal 5'-->3' exonuclease. We present evidence of paralogous FEN-encoding genes present in many eubacteria. Two distinct classes of these independent FEN-encoding genes exist with four groups of eubacteria, being identified based on the number and type of FEN gene encoded. The respective proteins possess distinct motifs hallmarking their differentiation. Crucially, based on primary sequence and predicted secondary structural motifs, we reveal key differences at their active sites. These results are supported by biochemical characterization of two family members--ExoIX (exonuclease IX) from Escherichia coli and SaFEN (Staphylococcus aureus FEN). These proteins displayed marked differences in their ability to process a range of branched and linear DNA structures. On bifurcated substrates, SaFEN exhibited similar substrate specificity to previously characterized FENs. In quantitative exonuclease assays, SaFEN maintained a comparable activity with that reported for PolI. However, ExoIX showed no observable enzymatic activity. A threaded model is presented for SaFEN, demonstrating the probable interaction of this newly identified class of FEN with divalent metal ions and a branched DNA substrate. The results from the present study provide an intriguing model for the cellular role of these FEN sub-classes and illustrate the evolutionary importance of processing aberrant DNA, which has led to their maintenance alongside DNA PolI in many eubacteria.
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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.