{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,5]],"date-time":"2026-08-05T12:25:44Z","timestamp":1785932744166,"version":"3.56.0"},"reference-count":83,"publisher":"Oxford University Press (OUP)","issue":"13","license":[{"start":{"date-parts":[[2024,6,18]],"date-time":"2024-06-18T00:00:00Z","timestamp":1718668800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001407","name":"Department of Biotechnology","doi-asserted-by":"publisher","award":["BT\/PR38444\/MED\/29\/1499\/2020"],"award-info":[{"award-number":["BT\/PR38444\/MED\/29\/1499\/2020"]}],"id":[{"id":"10.13039\/501100001407","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001332","name":"CSIR","doi-asserted-by":"publisher","award":["MLP2031"],"award-info":[{"award-number":["MLP2031"]}],"id":[{"id":"10.13039\/501100001332","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001332","name":"CSIR","doi-asserted-by":"publisher","award":["HCP0039"],"award-info":[{"award-number":["HCP0039"]}],"id":[{"id":"10.13039\/501100001332","id-type":"DOI","asserted-by":"publisher"}]},{"name":"J.C. 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Replication of the apicoplast genome (plDNA), mediated by the atypical multifunctional DNA polymerase PfPrex, would require additional enzymatic functions for lagging strand processing. We identified an apicoplast-targeted, [4Fe\u20134S]-containing, FEN\/Exo (PfExo) with a long LCR insertion and detected its interaction with PfPrex. Distinct from other known exonucleases across organisms, PfExo recognized a wide substrate range; it hydrolyzed 5\u2032-flaps, processed dsDNA as a 5\u2032-3\u2032 exonuclease, and was a bipolar nuclease on ssDNA and RNA\u2013DNA hybrids. Comparison with the rodent P. berghei ortholog PbExo, which lacked the insertion and [4Fe\u20134S], revealed interspecies functional differences. The insertion-deleted PfExo\u0394ins behaved like PbExo with a limited substrate repertoire because of compromised DNA binding. Introduction of the PfExo insertion into PbExo led to gain of activities that the latter initially lacked. Knockout of PbExo indicated essentiality of the enzyme for survival. Our results demonstrate the presence of a novel apicoplast exonuclease with a functional LCR that diversifies substrate recognition, and identify it as the candidate flap-endonuclease and RNaseH required for plDNA replication and maintenance.<\/jats:p>","DOI":"10.1093\/nar\/gkae512","type":"journal-article","created":{"date-parts":[[2024,6,18]],"date-time":"2024-06-18T10:59:24Z","timestamp":1718708364000},"page":"7843-7862","source":"Crossref","is-referenced-by-count":3,"title":["A <i>Plasmodium<\/i> apicoplast-targeted unique exonuclease\/FEN exhibits interspecies functional differences attributable to an insertion that alters DNA-binding"],"prefix":"10.1093","volume":"52","author":[{"given":"Tribeni","family":"Chatterjee","sequence":"first","affiliation":[{"name":"Division of Biochemistry and Structural Biology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anupama","family":"Tiwari","sequence":"additional","affiliation":[{"name":"Division of Biochemistry and Structural Biology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ritika","family":"Gupta","sequence":"additional","affiliation":[{"name":"Division of Biochemistry and Structural Biology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Himadri","family":"Shukla","sequence":"additional","affiliation":[{"name":"Division of Molecular Microbiology and Immunology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aastha","family":"Varshney","sequence":"additional","affiliation":[{"name":"Division of Molecular Microbiology and Immunology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Satish","family":"Mishra","sequence":"additional","affiliation":[{"name":"Division of Molecular Microbiology and Immunology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9378-7786","authenticated-orcid":false,"given":"Saman","family":"Habib","sequence":"additional","affiliation":[{"name":"Division of Biochemistry and Structural Biology, CSIR-Central Drug Research Institute , Lucknow , India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,6,18]]},"reference":[{"key":"2024072200050324000_B1","doi-asserted-by":"crossref","first-page":"749","DOI":"10.1098\/rstb.2009.0273","article-title":"The evolution, metabolism and functions of the apicoplast","volume":"365","author":"Lim","year":"2010","journal-title":"Philos. 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Med."},{"key":"2024072200050324000_B39","doi-asserted-by":"crossref","first-page":"74","DOI":"10.3390\/ijms20010074","article-title":"Human exonuclease 1 (EXO1) regulatory functions in DNA replication with putative roles in cancer","volume":"20","author":"Keijzers","year":"2019","journal-title":"Int. J. Mol. Sci."},{"key":"2024072200050324000_B40","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1006\/jmbi.1997.0967","article-title":"Biochemical and mutational studies of the 5\u2019-3\u2019 exonuclease of DNA polymerase I of Escherichia coli","volume":"268","author":"Xu","year":"1997","journal-title":"J. Mol. Biol."},{"key":"2024072200050324000_B41","doi-asserted-by":"crossref","first-page":"7317","DOI":"10.1093\/nar\/18.24.7317","article-title":"Characterization of the 5\u2019 to 3\u2019 exonuclease associated with Thermus aquaticus DNA polymerase","volume":"18","author":"Longley","year":"1990","journal-title":"Nucleic Acids Res."},{"key":"2024072200050324000_B42","doi-asserted-by":"crossref","first-page":"612","DOI":"10.1038\/376612a0","article-title":"Crystal structure of Thermus aquaticus DNA polymerase","volume":"376","author":"Kim","year":"1995","journal-title":"Nature"},{"key":"2024072200050324000_B43","doi-asserted-by":"crossref","first-page":"145","DOI":"10.1016\/j.molbiopara.2005.02.002","article-title":"The plastidic DNA replication enzyme complex of Plasmodium falciparum","volume":"141","author":"Seow","year":"2005","journal-title":"Mol. Biochem. Parasitol."},{"key":"2024072200050324000_B44","doi-asserted-by":"crossref","first-page":"705","DOI":"10.1126\/science.1078599","article-title":"Dissecting apicoplast targeting in the malaria parasite Plasmodium falciparum","volume":"299","author":"Foth","year":"2003","journal-title":"Science"},{"key":"2024072200050324000_B45","doi-asserted-by":"crossref","first-page":"2138","DOI":"10.1093\/bioinformatics\/bth195","article-title":"The DISOPRED server for the prediction of protein disorder","volume":"20","author":"Ward","year":"2004","journal-title":"Bioinformatics"},{"key":"2024072200050324000_B46","doi-asserted-by":"crossref","first-page":"1547","DOI":"10.1093\/molbev\/msy096","article-title":"MEGA X: molecular Evolutionary Genetics Analysis across computing platforms","volume":"35","author":"Kumar","year":"2018","journal-title":"Mol. Biol. Evol."},{"key":"2024072200050324000_B47","doi-asserted-by":"crossref","first-page":"2178","DOI":"10.1101\/gr.1224503","article-title":"OrthoMCL: identification of ortholog groups for eukaryotic genomes","volume":"13","author":"Li","year":"2003","journal-title":"Genome Res."},{"key":"2024072200050324000_B48","doi-asserted-by":"crossref","first-page":"691","DOI":"10.1093\/oxfordjournals.molbev.a003851","article-title":"A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach","volume":"18","author":"Whelan","year":"2001","journal-title":"Mol. Biol. Evol."},{"key":"2024072200050324000_B49","doi-asserted-by":"crossref","first-page":"W296","DOI":"10.1093\/nar\/gky427","article-title":"SWISS-MODEL: homology modelling of protein structures and complexes","volume":"46","author":"Waterhouse","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2024072200050324000_B50","doi-asserted-by":"crossref","first-page":"4164","DOI":"10.1093\/nar\/gky238","article-title":"Crystal structure and mutational analysis of Mycobacterium smegmatis FenA highlight active site amino acids and three metal ions essential for flap endonuclease and 5\u2032 exonuclease activities","volume":"46","author":"Uson","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2024072200050324000_B51","doi-asserted-by":"crossref","first-page":"684","DOI":"10.1107\/97809553602060000882","article-title":"PROCHECK: validation of protein-structure coordinates","volume-title":"International Tables for Crystallography","author":"Laskowski","year":"2012"},{"key":"2024072200050324000_B52","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1083\/jcb.99.1.20","article-title":"Identification, developmental regulation, and response to heat shock of two antigenically related forms of a major nuclear envelope protein in Drosophila embryos: application of an improved method for affinity purification of antibodies using polypeptides immobilized on nitrocellulose blots","volume":"99","author":"Smith","year":"1984","journal-title":"J. Cell Biol."},{"key":"2024072200050324000_B53","doi-asserted-by":"crossref","first-page":"36242","DOI":"10.1074\/jbc.M306065200","article-title":"Modulation of the 3\u2032\u21925\u2032-exonuclease activity of human apurinic endonuclease (Ape1) by its 5\u2032-incised abasic DNA product","volume":"278","author":"Wong","year":"2003","journal-title":"J. Biol. Chem."},{"key":"2024072200050324000_B54","doi-asserted-by":"crossref","first-page":"515","DOI":"10.1038\/nsmb.1414","article-title":"DNA apurinic-apyrimidinic site binding and excision by endonuclease IV","volume":"15","author":"Garcin","year":"2008","journal-title":"Nat. Struct. Mol. 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Mol. Biol."},{"key":"2024072200050324000_B74","doi-asserted-by":"crossref","first-page":"2989","DOI":"10.1016\/j.molcel.2021.05.027","article-title":"EXO5-DNA structure and BLM interactions direct DNA resection critical for ATR-dependent replication restart","volume":"81","author":"Hambarde","year":"2021","journal-title":"Mol. 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