SIRT1 gene expression upon genotoxic damage is regulated by APE1 through nCaRE-promoter elements (548 views)
Mol Biol Cell (ISSN: 1059-1524), 2014 Feb 15; 25(4): 532-547.
Export to BibTeX Export to EndNote
Paper type: Journal Article,
Impact factor: 4.466, 5-year impact factor: 4.806
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-84894235904&partnerID=40&md5=5d402e12c00ac3c057c0e38da15ee902
Keywords: Apex1 Protein, Human, Cell Nucleus Antigen, Dna (apurinic Or Apyrimidinic Site) Lyase, Dna Binding Protein, Dna Glycosyltransferase, Hydrogen Peroxide, Ku Antigen, Mesylic Acid Methyl Ester, Oxoguanine Glycosylase 1, Protein Binding, Rna Polymerase Ii, Sirt1 Protein, Sirtuin 1, Small Interfering Rna, Antagonists And Inhibitors, Binding Site, Biology, Dna Damage, Dna Responsive Element, Drug Effects, Gene Expression Regulation, Genetic Transcription, Hela Cell Line, Human Genome, Metabolism, Molecular Genetics, Nucleotide Sequence, Signal Transduction, Base Sequence, Computational Biology, Dna Glycosylases, Dna-(apurinic Or Apyrimidinic Site) Lyase, Dna-Binding Proteins, Methyl Methanesulfonate, Molecular Sequence Annotation, Molecular Sequence Data, Response Elements,
Affiliations:
*** IBB - CNR ***
Department of Biomedical Sciences and Technologies, University of Udine, 33100 Udine, Italy
Proteomics and Mass Spectrometry Laboratory, ISPAAM, National Research Council, 80147 Naples, Italy
Department of Pharmacy, University of Naples Federico II, 80134 Naples, Italy
Institute of Biostructures and Bioimaging, National Research Council, 80134 Naples, Italy
References:
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Altschul, S. F., Amino acid substitution matrices from an information theoretic perspective (1991) J Mol Biol, 219, pp. 555-565
Beernink, P. T., Segelke, B. W., Hadi, M. Z., Erzberger, J. P., Wilson III, D. M., Rupp, B., Two divalent metal ions in the active site of a new crystal form of human apurinic/apyrimidinic endonuclease, Ape1: Implications for the catalytic mechanism (2001) J Mol Biol, 307, pp. 1023-1034
Berquist, B. R., McNeill, D. R., Wilson, D. M., Characterization of abasic endonuclease activity of human Ape1 on alternative substrates, as well as effects of ATP and sequence context on AP site incision (2008) J Mol Biol, 379, pp. 17-27
Bhakat, K. K., Izumi, T., Yang, S., Hazra, T. K., Mitra, S., Role of acetylated human AP-endonuclease (APE1/Ref-1) in regulation of the parathyroid hormone gene (2003) EMBO J, 22, pp. 6299-6309
Cohen, H. Y., Miller, C., Bitterman, K. J., Wall, N. R., Hekking, B., Kessler, B., Howitz, K. T., Sinclair, D. A., Calorie restriction promotes mammalian cell survival by inducing the SIRT1 deacetylase (2004) Science, 305, pp. 390-392
Cor, D., Cunto, F. D., Provero, P., Silengo, L., Caselle, M., Computational identification of transcription factor binding sites by functional analysis of sets of genes sharing overrepresented upstream motifs (2004) BMC Bioinformatics, 5, p. 57
Cunningham, L. A., Cot, A. G., Cam-Ozdemir, C., Lewis, S. M., Rapid, stabilizing palindrome rearrangements in somatic cells by the center-break mechanism (2003) Mol Cell Biol, 23, pp. 8740-8750
D clais, A., Fogg, J. M., Freeman, A. D. J., Coste, F., Hadden, J. M., Phillips, S. E. V., Lilley, D. M. J., The complex between a four-way DNA junction and T7 endonuclease i (2003) EMBO J, 22, pp. 1398-1409
Deininger, P. L., Jolly, D. J., Rubin, C. M., Friedmann, T., Schmid, C. W., Base sequence studies of 300 nucleotide renatured repeated human DNA clones (1981) J Mol Biol, 151, pp. 17-33
Georgiadis, M. M., Luo, M., Gaur, R. K., Delaplane, S., Li, X., Kelley, M. R., Evolution of the redox function in mammalian apurinic/apyrimidinic endonuclease (2008) Mutat Res, 643, pp. 54-63
Gillespie, M. N., Pastukh, V. M., Ruchko, M. V., Controlled DNA "damage" and repair in hypoxic signaling (2010) Respir Physiol Neurobiol, 174, pp. 244-251
Gorman, M. A., Morera, S., Rothwell, D. G., Fortelle, E. D. L., Mol, C. D., Tainer, J. A., Hickson, I. D., Freemont, P. S., The crystal structure of the human DNA repair endonuclease HAP1 suggests the recognition of extra-helical deoxyribose at DNA abasic sites (1997) EMBO J, 16, pp. 6548-6558
Huang, R. P., Adamson, E. D., Characterization of the DNA-binding properties of the early growth response-1 (Egr-1) transcription factor: Evidence for modulation by a redox mechanism (1993) DNA Cell Biol, 12, pp. 265-273
Krayev, A. S., Kramerov, D. A., Skryabin, K. G., Ryskov, A. P., Bayev, A. A., Georgiev, G. P., The nucleotide sequence of the ubiquitous repetitive DNA sequence B1 complementary to the most abundant class of mouse fold-back RNA (1980) Nucleic Acids Res, 8, pp. 1201-1215
Kriegs, J. O., Churakov, G., Jurka, J., Brosius, J., Schmitz, J., Evolutionary history of 7SL RNA-derived SINEs in Supraprimates (2007) Trends Genet, 23, pp. 158-161
Kuninger, D. T., Izumi, T., Papaconstantinou, J., Mitra, S., Human AP-endonuclease 1 and hnRNP-L interact with a nCaRE-like repressor element in the AP-endonuclease 1 promoter (2002) Nucleic Acids Res, 30, pp. 823-829
Lieber, M. R., The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway (2010) Annu Rev Biochem, 79, pp. 181-211
McHaffie, G. S., Ralston, S. H., Origin of a negative calcium response element in an ALU-repeat: Implications for regulation of gene expression by extracellular calcium (1995) Bone, 17, pp. 11-14
Murphy, W. J., Resolution of the early placental mammal radiation using Bayesian phylogenetics (2001) Science, 294, pp. 2348-2351
Parkinson, M. J., Lilley, D. M., The junction-resolving enzyme T7 endonuclease I: Quaternary structure and interaction with DNA (1997) J Mol Biol, 270, pp. 169-178
Pearson, C. E., Ruiz, M. T., Price, G. B., Zannis-Hadjopoulos, M., Cruciform DNA binding protein in HeLa cell extracts (1994) Biochemistry, 33, pp. 14185-14196
Pearson, W. R., Flexible sequence similarity searching with the FASTA3 program package (2000) Methods Mol Biol, 132, pp. 185-219
Robson, C. N., Hickson, I. D., Isolation of cDNA clones encoding a human apurinic/apyrimidinic endonuclease that corrects DNA repair and mutagenesis defects in E. Coli xth (exonuclease III) mutants (1991) Nucleic Acids Res, 19, pp. 5519-5523
Shlyakhtenko, L. S., Hsieh, P., Grigoriev, M., Potaman, V. N., Sinden, R. R., Lyubchenko, Y. L., A cruciform structural transition provides a molecular switch for chromosome structure and dynamics (2000) J Mol Biol, 296, pp. 1169-1173
Spudich, G., Fern ndez-Su rez, X. M., Birney, E., Genome browsing with Ensembl: A practical overview (2007) Brief Funct Genomic Proteomic, 6, pp. 202-219
Walker, J. R., Corpina, R. A., Goldberg, J., Structure of the Ku heterodimer bound to DNA and its implications for double-strand break repair (2001) Nature, 412, pp. 607-614
Wilson III, D. M., Simeonov, A., Small molecule inhibitors of DNA repair nuclease activities of APE1 (2010) Cell Mol Life Sci, 67, pp. 3621-3631
Ziel, K. A., Grishko, V., Campbell, C. C., Breit, J. F., Wilson, G. L., Gillespie, M. N., Oxidants in signal transduction: Impact on DNA integrity and gene expression (2005) FASEB J, 19, pp. 387-394
Mol Biol Cell (ISSN: 1059-1524), 2014 Feb 15; 25(4): 532-547.
Export to BibTeX Export to EndNote
Paper type: Journal Article,
Impact factor: 4.466, 5-year impact factor: 4.806
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-84894235904&partnerID=40&md5=5d402e12c00ac3c057c0e38da15ee902
Keywords: Apex1 Protein, Human, Cell Nucleus Antigen, Dna (apurinic Or Apyrimidinic Site) Lyase, Dna Binding Protein, Dna Glycosyltransferase, Hydrogen Peroxide, Ku Antigen, Mesylic Acid Methyl Ester, Oxoguanine Glycosylase 1, Protein Binding, Rna Polymerase Ii, Sirt1 Protein, Sirtuin 1, Small Interfering Rna, Antagonists And Inhibitors, Binding Site, Biology, Dna Damage, Dna Responsive Element, Drug Effects, Gene Expression Regulation, Genetic Transcription, Hela Cell Line, Human Genome, Metabolism, Molecular Genetics, Nucleotide Sequence, Signal Transduction, Base Sequence, Computational Biology, Dna Glycosylases, Dna-(apurinic Or Apyrimidinic Site) Lyase, Dna-Binding Proteins, Methyl Methanesulfonate, Molecular Sequence Annotation, Molecular Sequence Data, Response Elements,
Affiliations:
*** IBB - CNR ***
Department of Biomedical Sciences and Technologies, University of Udine, 33100 Udine, Italy
Proteomics and Mass Spectrometry Laboratory, ISPAAM, National Research Council, 80147 Naples, Italy
Department of Pharmacy, University of Naples Federico II, 80134 Naples, Italy
Institute of Biostructures and Bioimaging, National Research Council, 80134 Naples, Italy
References:
Adelmant, G., DNA ends alter the molecular composition and localization of Ku multicomponent complexes (2012) Mol Cell Proteomics, 11, pp. 411-42
Altschul, S.F., Amino acid substitution matrices from an information theoretic perspective (1991) J Mol Biol, 219, pp. 555-565
Alvarez, D., Novac, O., Callejo, M., Ruiz, M.T., Price, G.B., Zannis-Hadjopoulos, M., 14-3-3sigma is a cruciform DNA binding protein and associates in vivo with origins of DNA replication (2002) J Cell Biochem, 87, pp. 194-207
Amente, S., Bertoni, A., Morano, A., Lania, L., Avvedimento, E.V., Majello, B., LSD1-mediated demethylation of histone H3 lysine 4 triggers Myc-induced transcription (2010) Oncogene, 29, pp. 3691-3702
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Berquist, B.R., McNeill, D.R., Wilson, D.M., Characterization of abasic endonuclease activity of human Ape1 on alternative substrates, as well as effects of ATP and sequence context on AP site incision (2008) J Mol Biol, 379, pp. 17-27
Bhakat, K.K., Izumi, T., Yang, S., Hazra, T.K., Mitra, S., Role of acetylated human AP-endonuclease (APE1/Ref-1) in regulation of the parathyroid hormone gene (2003) EMBO J, 22, pp. 6299-6309
Bhattacharyya, A., Chattopadhyay, R., Burnette, B.R., Cross, J.V., Mitra, S., Ernst, P.B., Bhakat, K.K., Crowe, S.E., Acetylation of apurinic/apyrimidinic endonuclease-1 regulates Helicobacter pylori-mediated gastric epithelial cell apoptosis (2009) Gastroenterology, 136, pp. 2258-2269
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SIRT1 gene expression upon genotoxic damage is regulated by APE1 through nCaRE-promoter elements
Apurinic/apyrimidinic endonuclease 1 (APE1) is a multifunctional protein contributing to genome stability via repair of DNA lesions via the base excision repair pathway. It also plays a role in gene expression regulation and RNA metabolism. Another, poorly characterized function is its ability to bind to negative calcium responsive elements (nCaRE) of some gene promoters. The presence of many functional nCaRE sequences regulating gene transcription can be envisioned, given their conservation within ALU repeats. To look for functional nCaRE sequences within the human genome, we performed bioinformatic analyses and identified 57 genes potentially regulated by APE1. We focused on sirtuin-1 (SIRT1) deacetylase due to its involvement in cell stress, including senescence, apoptosis, and tumorigenesis, and its role in the deacetylation of APE1 after genotoxic stress. The human SIRT1 promoter presents two nCaRE elements stably bound by APE1 through its N-terminus. We demonstrate that APE1 is part of a multiprotein complex including hOGG1, Ku70, and RNA Pol II, which is recruited on SIRT1 promoter to regulate SIRT1 gene functions during early response to oxidative stress. These findings provide new insights into the role of nCaRE sequences in the transcriptional regulation of mammalian genes.
Apurinic/apyrimidinic endonuclease 1 (APE1) is a multifunctional protein contributing to genome stability via repair of DNA lesions via the base excision repair pathway. It also plays a role in gene expression regulation and RNA metabolism. Another, poorly characterized function is its ability to bind to negative calcium responsive elements (nCaRE) of some gene promoters. The presence of many functional nCaRE sequences regulating gene transcription can be envisioned, given their conservation within ALU repeats. To look for functional nCaRE sequences within the human genome, we performed bioinformatic analyses and identified 57 genes potentially regulated by APE1. We focused on sirtuin-1 (SIRT1) deacetylase due to its involvement in cell stress, including senescence, apoptosis, and tumorigenesis, and its role in the deacetylation of APE1 after genotoxic stress. The human SIRT1 promoter presents two nCaRE elements stably bound by APE1 through its N-terminus. We demonstrate that APE1 is part of a multiprotein complex including hOGG1, Ku70, and RNA Pol II, which is recruited on SIRT1 promoter to regulate SIRT1 gene functions during early response to oxidative stress. These findings provide new insights into the role of nCaRE sequences in the transcriptional regulation of mammalian genes.
SIRT1 gene expression upon genotoxic damage is regulated by APE1 through nCaRE-promoter elements
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SIRT1 gene expression upon genotoxic damage is regulated by APE1 through nCaRE-promoter elements
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Impact Factor: 3.73
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Fantini D, Vascotto C, Marasco D, D'Ambrosio C, Romanello M, Vitagliano L, Pedone C, Poletto M, Cesaratto L, Quadrifoglio F, Scaloni A, Radicella JP, Tell G
* Critical lysine residues within the overlooked N-terminal domain of human APE1 regulate its biological functions (415 views)
Nucleic Acids Res (ISSN: 1362-4962, 0305-1048, 1362-4962electronic), 2010 Dec; 38(22): 8239-8256.
Impact Factor: 7.836
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Malgieri G, Russo L, Esposito S, Baglivo I, Zaccaro L, Pedone EM, Di Blasio B, Isernia C, Pedone PV, Fattorusso R
* The Prokaryotic Cys2his2 Zinc Finger Domain Adopts A Novel Fold As Revealed By The Solution Structure Of Agrobacterium Tumefaciens Ros Dna Binding Domain (480 views)
P Natl Acad Sci Usa (ISSN: 0027-8424, 1091-6490, 0027-8424print), 2007 Oct 30; 104(44): 17341-17346.
Impact Factor: 9.598
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Chambery A, Pisante M, Di Maro A, Di Zazzo E, Ruvo M, Costantini S, Colonna G, Parente A
* Invariant Ser211 is involved in the catalysis of PD-L4, type I RIP from Phytolacca dioica leaves (364 views)
Proteins (ISSN: 0887-3585, 1097-0134, 1097-0134electronic), 2007 Apr 1; 67(1): 209-218.
Impact Factor: 3.354
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Esposito S, Baglivo I, Malgieri G, Russo L, Zaccaro L, D'Andrea LD, Mammucari M, Di Blasio B, Isernia C, Fattorusso R, Pedone PV
* A novel type of zinc finger DNA binding domain in the Agrobacterium tumefaciens transcriptional regulator Ros (723 views)
Biochemistry (ISSN: 0006-2960, 1520-4995, 1520-4995electronic), 2006 Sep 29; 45(34): 10394-10405.
Impact Factor: 3.633
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Saviano M, Isernia C, Bassarello C, Di Lello P, Galdiero S, Mierke DF, Benedetti E, Pedone C
* Conformational analysis by NMR and distance geometry techniques of a peptide mimetic of the third helix of the Antennapedia homeodomain (473 views)
J Pept Res (ISSN: 1397-002x), 2005 Feb; 65(2): 200-208.
Impact Factor: 1.741
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Rivieccio V, Mannini R, Concilio L, D'Auria S, Pedone C, Grimaldi G
* Expression, purification and partial characterization of the Krüppel-associated box (KRAB) from the human ZNF2 protein (362 views)
Protein Pept Lett (ISSN: 0929-8665, 1875-5305), 2005; 12(6): 527-532.
Impact Factor: 0.84
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Dathan N, Zaccaro L, Esposito S, Isernia C, Omichinski JG, Riccio A, Pedone C, Di Blasio B, Fattorusso R, Pedone PV
* The Arabidopsis SUPERMAN protein is able to specifically bind DNA through its single Cys(2)-His(2) zinc finger motif (693 views)
Nucleic Acids Res (ISSN: 0305-1048, 1362-4962, 1362-4962electronic), 2002 Nov 15; 30(22): 4945-4951.
Impact Factor: 7.051
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Saviano M, Romanelli A, Bucci E, Pedone C, Mischiati C, Bianchi N, Feriotto G, Borgatti M, Gambari R
Computational procedures to explain the different biological activity of DNA/DNA, DNA/PNA and PNA/PNA hybrid molecules mimicking NF-κB binding sites (493 views)
J Biomol Struct Dyn (ISSN: 0739-1102, 1538-0254electronic, 0739-1102linking), 2000 Dec; 18(3): 353-362.
Impact Factor: 1.826
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10 Records (9 excluding Abstracts).
Total impact factor: 44.388 (40.658 excluding Abstracts).
Total 5 year impact factor: 47.195 (42.951 excluding Abstracts).
Total impact factor: 44.388 (40.658 excluding Abstracts).
Total 5 year impact factor: 47.195 (42.951 excluding Abstracts).
548 views. Last view on Tuesday 09 May 2023, 12:51:48
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