Base Excision Repair, AP Endonucleases and DNA Glycosylases
Base excision repair is an important cellular mechanism that protects the integrity of DNA by repairing damage caused by ... Mol CD, Hosfield DJ and Tainer JA (2000) Abasic site recognition by two apurinic/apyrimidinic endonuclease families in DNA base ... 2000) The lyase activity of the DNA repair protein β‐polymerase protects from DNA‐damage‐induced cytotoxicity. Nature 405: 807- ... The altered DNA base, and in some cases a few nucleotides adjacent to the altered base, is removed by excision, and the DNA is ...http://www.els.net/WileyCDA/ElsArticle/refId-a0000563.html
H2TH domain - Wikipedia
... apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination ... to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of ... is a DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by ... phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity;EC 184.108.40.206). Fpg has a preference for ...https://en.wikipedia.org/wiki/H2TH_domain
FPG IleRS zinc finger - Wikipedia
... apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination ... to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of ... DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These ... phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; EC). Fpg has a preference for oxidised ...https://en.wikipedia.org/wiki/FPG_IleRS_zinc_finger
A general role of the DNA glycosylase Nth1 in the abasic sites cleavage step of base excision repair in Schizosaccharomyces...
... apurinic/apyrimidinic, AP) sites that are both cytotoxic and mutagenic, and must be removed efficiently to maintain genetic ... One of the most frequent lesions formed in cellular DNA are abasic ( ... DNA Mutational Analysis. DNA Repair*. DNA-(Apurinic or Apyrimidinic Site) Lyase / genetics, physiology*. Multienzyme Complexes ... EC 220.127.116.11/DNA-(Apurinic or Apyrimidinic Site) Lyase ... Apurinic/apyrimidinic (AP) sites are one of the most frequently ...http://www.biomedsearch.com/nih/general-role-DNA-glycosylase-Nth1/15452279.html
Nobel prize in Chemistry - 2015 (Background)
Each day our DNA is damaged by UV radiation, free radicals and other carcinogenic substances, but even without such external ... Verly, W.G., Y. Paquette, and L. Thibodeau, Nuclease for DNA apurinic sites may be involved in the maintenance of DNA in normal ... pol-β harbors a lyase activity, which excises the 5′-terminal base- free sugar phosphate residue in a nonhydrolytic elimination ... the apurinic/apyrimidinic (AP) endonuclease, which cleaves the DNA backbone at the 5′ side of the abasic position. The AP ...https://www.slideshare.net/ashokjntu/nobel-prize-in-chemistry-2015-background
APEX1 - Wikipedia
DNA-(apurinic or apyrimidinic site) lyase is an enzyme that in humans is encoded by the APEX1 gene. Apurinic/apyrimidinic (AP) ... Mol CD, Hosfield DJ, Tainer JA (2000). "Abasic site recognition by two apurinic/apyrimidinic endonuclease families in DNA base ... by DNA damaging agents or by DNA glycosylases that remove specific abnormal bases. AP sites are pre-mutagenic lesions that can ... Robson CN, Hickson ID (1991). "Isolation of cDNA clones encoding a human apurinic/apyrimidinic endonuclease that corrects DNA ...https://en.wikipedia.org/wiki/APEX1
The Rate of hOGG1-mediated 8-oxoG Removal from Nucleosomal DNA
... including the removal and replacement of damaged DNA bases via base excision repair (BER). This pathway invo ... Organisms have evolved to repair DNA damage through several pathways, ... DNA damage can lead to mutagenesis and carcinogenesis. ... the damage site is treated by an apurinic/apyrimidinic lyase, ... including the removal and replacement of damaged DNA bases via base excision repair (BER). This pathway involves an enzymatic ...http://www.jbsdonline.com/the-rate-hogg1-mediated-8-oxog-removal-nucleosomal-dna-p18596.html
NTH1 - Endonuclease III homolog - Plasmodium falciparum (isolate 3D7) - NTH1 gene & protein
The DNA N-glycosylase activity releases the damaged DNA base from DNA by cleaving the N-glycosidic bond, leaving an AP site. ... The AP lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination. Primarily recognizes and repairs ... lyase function that catalyzes the first step in base excision repair (BER), the primary repair pathway for the repair of ... Bifunctional DNA N-glycosylase with associated apurinic/apyrimidinic (AP) ...https://www.uniprot.org/uniprot/C6KSY9/
mutM - Formamidopyrimidine-DNA glycosylase - Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99) - mutM gene & protein
... apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta ... elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. ... Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8 ... Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. ...http://www.uniprot.org/uniprot/B2VF70
mutM - Formamidopyrimidine-DNA glycosylase - Nitrosomonas eutropha (strain C91) - mutM gene & protein
... apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta ... elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. ... Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8 ... Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. ...http://www.uniprot.org/uniprot/Q0AD66
mutM - Formamidopyrimidine-DNA glycosylase - Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1) - mutM gene & protein
... apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta ... elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. ... Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8 ... Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. ...http://www.uniprot.org/uniprot/Q6FE90
The Ogg1 protein of Saccharomyces cerevisiae: a 7,8-dihydro-8-oxoguanine DNA glycosylase/AP lyase whose lysine 241 is a...
... hydroxy-5N-formamidopyrimidine-DNA glycosylase of Escherichia coli and an activity nicking DNA at apurinic/apyrimidinic sites. ... Cloning of a yeast 8-oxoguanine DNA glycosylase reveals the existence of a base-excision DNA-repair protein superfamily. Curr ... Mechanism of DNA strand nicking at apurinic/apyrimidinic sites by Escherichia coli [formamidopyrimidine]DNA glycosylase. ... DNA containing a chemically reduced apurinic site is a high affinity ligand for the E. coli formamidopyrimidine-DNA glycosylase ...http://pubmedcentralcanada.ca/pmcc/articles/PMC146873/
DNA polymerase β is able to repair breaks in switch regions and plays an inhibitory role during immunoglobulin class switch...
5-phosphate lyase and DNA synthesis activities of mammalian DNA polymerase beta by apurinic/apyrimidinic endonuclease 1. J. ... DNA polymerase beta promotes recruitment of DNA ligase III alpha-XRCC1 to sites of base excision repair. Biochemistry. 44:10613 ... Coordination of steps in single-nucleotide base excision repair mediated by apurinic/apyrimidinic endonuclease 1 and DNA ... DNA polymerase lambda protects mouse fibroblasts against oxidative DNA damage and is recruited to sites of DNA damage/repair. J ...http://pubmedcentralcanada.ca/pmcc/articles/PMC2118644/?lang=en-ca
Biomolecules | Free Full-Text | Functional Aspects of PARP1 in DNA Repair and Transcription | HTML
Inhibiting its enzyme activity with small molecules thus achieves synthetic lethality by preventing unwanted DNA repair in the ... we shall discuss how transcription and DNA repair are so intricately linked that disturbance by PARP1 enzymatic inhibition, ... is an ADP-ribosylating enzyme essential for initiating various forms of DNA repair. ... Apurinic/apyrimidinic (AP) site recognition by the 5'-dRP/AP lyase in poly(ADP-ribose) polymerase-1 (PARP-1). Proc. Natl. Acad ...http://mdpi.com/2218-273X/2/4/524/htm
Targeting Purine and Pyrimidine Metabolism in Human Apicomplexan Parasites
... falciparum to correct apurinic or apyrimidinic sites on DNA appear to differ from those of the human host . Another ... T-rich DNA of P. falciparum . In the meantime, several 3D models of the enzyme were published, based on homology modelling ... Protein constituting aminodeoxychorismate lyase activity. PG. Proguanil. PNP. Purine nucleoside phosphorylase. PRPP. 5- ... Home , About , Journals , Submit , Contact Us , Français. Enter Your Search:. Search tips. Search criteria. Articles. Journal ...http://pubmedcentralcanada.ca/pmcc/articles/PMC2720675/
A DNA glycosylase which excises imidazole ring-opened purines and nicks DNA at apurinic/apyrimidinic sites. J Biol Chem 1990; ... lyase-initiated base excision repair (BER) pathway (4, 5). The importance of this specific enzymatic activity in 8-oxodG repair ... Base excision repair by NTH1 and hOGG1: a two edged sword in the processing of DNA damage in γ-irradiated human cells. DNA ... Age-related and tissue-specific accumulation of oxidative DNA base damage in 7,8-dihydro-8-oxoguanine-DNA glycosylase (ogg1) ...http://mct.aacrjournals.org/content/8/7/2015
Hoch 6423 - Exodeoxyribonuclease III Xth - Haliangium ochraceum (strain DSM 14365 / JCM 11303 / SMP-2) - Hoch 6423 gene &...
... apurinic or apyrimidinic site) lyase activity Source: UniProtKB-EC. *class III/IV DNA-(apurinic or apyrimidinic site) lyase ... based on their membership in UniProt Reference Clusters (,a href="http://www.uniprot.org/help/uniref">UniRef,/a>).,p>,a href='/ ... LyaseImported. ,p>Information which has been imported from another database using automatic procedures.,/p> ,p>,a href="/manual ... Integrated resource of protein families, domains and functional sites. More...InterProi. View protein in InterPro. IPR004808. ...http://www.uniprot.org/uniprot/D0LQ83
OGG1 - N-glycosylase/DNA lyase - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) - OGG1 gene & protein
Has a beta-lyase activity that nicks DNA 3' to the lesion. ... DNA repair enzyme that incises DNA at 8-oxoG residues. Excises ... 7,8-dihydro-8-oxoguanine and 2,6-diamino-4-hydroxy-5-N-methylformamidopyrimidine (FAPY) from damaged DNA. ... apurinic or apyrimidinic site) lyase activity Source: UniProtKB-EC. *class III/IV DNA-(apurinic or apyrimidinic site) lyase ... site' target='_top'>More...,/a>,/p>Active sitei. 241. Schiff-base intermediate with DNA. 1. ...http://www.uniprot.org/uniprot/P53397
DNA glycosylase - Wikipedia
... creating an apurinic/apyrimidinic site, commonly referred to as an AP site. This is accomplished by flipping the damaged base ... "Role of the Arabidopsis DNA glycosylase/lyase ROS1 in active DNA demethylation". Proc. Natl. Acad. Sci. U.S.A. 103 (31): 11796- ... Base excision repair is the mechanism by which damaged bases in DNA are removed and replaced. DNA glycosylases catalyze the ... AlkA refers to 3-methyladenine DNA glycosylase II. DNA glycosylases involved in base excision repair (BER) may be associated ...https://en.wikipedia.org/wiki/DNA_glycosylase
ENGINEERED DEMETER 5-METHYLCYTOSINE DNA GLYOSYLASE WITH IMPROVED YIELD, STABILITY AND SOLUBILITY - Patent application
... apurinic/apyrimidinic (AP) lyase activities. The DNA glycosylase activity removes the damaged or mispaired base by cleaving the ... multiple sites on the DNA.  Primer extension can be performed by any method that allow for polymerase-based extension of ... 0006] DNA glycosylases function in the base excision repair pathway by removing damaged or mismatched bases from DNA (Scharer, ... A DNA ligase seals the nick to complete the repair process. DNA glycosylase/lyases have not been implicated in mammalian ...http://www.patentsencyclopedia.com/app/20120149023
Strand-specific PCR of UV radiation-damaged genomic DNA revealed an essential role of DNA-PKcs in the transcription-coupled...
... has N-glycosylase and apurinic/apyrimidinic lyase (AP lyase) activities; it can locate and bind to pyrimidine dimers in dsDNA ... Depletion of DNA-PKcs leads to deficiency of the transcription-coupled repair of UV-induced DNA damage. On the basis of the ... at the DNA damage site is believed to create a conducive environment for DNA repair [7, 9]. In this report, we provide evidence ... Development and validation of the novel method of TCR assay based on DNA strand-specific PCR. Although depletion of DNA-PKcs ...https://bmcbiochem.biomedcentral.com/articles/10.1186/1471-2091-12-2
Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus...
... phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity). The crystal structure of MutM from an ... DNA glycosylase activity, which excises various damaged bases from DNA to produce an aldehydic abasic site; (ii) an AP lyase ... A DNA glycosylase which excises imidazole ring‐opened purines and nicks DNA at apurinic/apyrimidinic sites. J Biol Chem, 265, ... DNA glycosylase of Escherichia coli and an activity nicking DNA at apurinic/apyrimidinic sites. Proc Natl Acad Sci USA, 86, ...http://emboj.embopress.org/content/19/15/3857
A Novel Inhibitor of DNA Polymerase β Enhances the Ability of Temozolomide to Impair the Growth of Colon Cancer Cells |...
Intragenic suppression of an active site mutation in the human apurinic/apyrimidinic endonuclease. J Mol Biol 1999;287:47-57. ... A. dRP-lyase activity. Top, schematic representation of dRP-lyase DNA substrate and product. Autoradiogram shows the effect of ... Structure-Based Molecular Docking of SMIs at the APC-Binding Site of Pol-β. Ideally, a drug should be highly active with only ... B. SMI has no effect on APE1 binding to AP-site DNA. A 32-mer duplex DNA (10 nmol/L) containing a single tetrahydrofuran was ...http://mcr.aacrjournals.org/content/7/12/1973.long
Repair of Nucleic Acids for Improved Amplification - Patent application
... apurinic/apyrimidinic (AP) sites, mutagenized nucleotides, modified nucleotides, nicks, gaps and DNA-DNA or DNA-protein cross- ... glycosylases and lyases responsible for base excision repair.  A damaged base can be removed by a DNA glycosylase enzyme ... The product of this reaction is an apurinic or apyrimidinic site (AP site) that must be correctly filled. This can be achieved ... Bst DNA polymerase, T4 DNA polymerase, T7 DNA polymerase, E. coli DNA polymerase I and an archaeal DNA polymerase or ...http://www.patentsencyclopedia.com/app/20110201056
LIG1 - Wikipedia
... only a single nucleotide is added and DNA Polymerase acts as a lyase to excise the AP site. In LP-BER, several bases are ... 1999). "Reconstitution of proliferating cell nuclear antigen-dependent repair of apurinic/apyrimidinic sites with purified ... First, a DNA glycosylase cleaves the N-glycosidic bond, releasing the damaged base and creating an AP site- a site that lacks a ... LIG1 encodes DNA ligase I, which functions in DNA replication and the base excision repair process. Eukaryotic DNA ligase 1 ...https://en.wikipedia.org/wiki/LIG1