Title:
ENZYME PHOSPHORYLATING 2'-HYDROXYL GROUP OF RNA
Document Type and Number:
WIPO Patent Application WO/2023/195544
Kind Code:
A1
Abstract:
The present invention provides an enzyme that phosphorylates the 2'-hydroxyl group of an RNA, etc.
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| WO/2022/125977 | METHODS FOR DUPLEX REPAIR |
Inventors:
SUZUKI TSUTOMU (JP)
OHIRA TAKAYUKI (JP)
MINOWA KEIICHI (JP)
OHIRA TAKAYUKI (JP)
MINOWA KEIICHI (JP)
Application Number:
PCT/JP2023/014605
Publication Date:
October 12, 2023
Filing Date:
April 10, 2023
Export Citation:
Assignee:
UNIV TOKYO (JP)
International Classes:
C12N9/12; A61K31/7088; A61K38/43; A61P21/00; A61P25/00; A61P43/00; C07H19/067; C12N15/12; C12N15/54; C12N15/63
Domestic Patent References:
| WO2023282306A1 | 2023-01-12 |
Other References:
DATABASE PROTEIN ANONYMOUS : "putative Ser/Thr protein kinase [Nitrososphaera viennensis EN76]", XP093097737, retrieved from NCBI
DATABASE UNIPROTKB ANONYMOUS : "B9LA61 · B9LA61_NAUPA", XP093097738, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "K9Q189 · K9Q189_9CYAN", XP093097739, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q5JDQ4 · Q5JDQ4_THEKO", XP093097765, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q973E6 · Q973E6_SULTO", XP093097769, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "A9A3X9 · A9A3X9_NITMS", XP093097770, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q6LWU2 · Q6LWU2_METMP", XP093097773, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "O66846 · O66846_AQUAE", XP093097774, retrieved from UNIPROT
OHIRA TAKAYUKI, MINOWA KEIICHI, SUGIYAMA KEI, YAMASHITA SEISUKE, SAKAGUCHI YURIKO, MIYAUCHI KENJYO, NOGUCHI RYO, KANEKO AKIRA, ORI: "Reversible RNA phosphorylation stabilizes tRNA for cellular thermotolerance", NATURE, vol. 605, no. 7909, 12 May 2022 (2022-05-12), pages 372 - 379, XP093097736, ISSN: 0028-0836, DOI: 10.1038/s41586-022-04677-2
OHIRA, TAKAYUKI ET AL.: "Reversible RNA phosphorylation modification in extremophiles and its function", KAGAKU TO KOGYO - CHEMISTRY AND CHEMICAL INDUSTRY, NIPPON KAGAKKAI, TOKYO, JP, vol. 75, no. 8, 1 August 2022 (2022-08-01), JP , pages 555 - 557, XP009550233, ISSN: 0022-7684
WOLFF PHILIPPE, VILLETTE CLAIRE, ZUMSTEG JULIE, HEINTZ DIMITRI, ANTOINE LAURA, CHANE-WOON-MING BÉATRICE, DROOGMANS LOUIS, GROSJEAN: "Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea.", RNA, vol. 26, no. 12, 1 December 2020 (2020-12-01), pages 1957 - 1975, XP093097778, DOI: 10.1261/rna.077537.120
BOCCALETTO PIETRO, STEFANIAK FILIP, RAY ANGANA, CAPPANNINI ANDREA, MUKHERJEE SUNANDAN, PURTA ELŻBIETA, KURKOWSKA MAŁGORZATA, SHIRV: "MODOMICS: a database of RNA modification pathways. 2021 update", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, GB, vol. 50, no. D1, 7 January 2022 (2022-01-07), GB , pages D231 - D235, XP093097780, ISSN: 0305-1048, DOI: 10.1093/nar/gkab1083
MOTORIN YURI, HELM MARK: "tRNA Stabilization by Modified Nucleotides", BIOCHEMISTRY, vol. 49, no. 24, 22 June 2010 (2010-06-22), pages 4934 - 4944, XP093040736, ISSN: 0006-2960, DOI: 10.1021/bi100408z
YOSHIHISA TOHRU: "Handling tRNA introns, archaeal way and eukaryotic way", FRONTIERS IN GENETICS, vol. 5, XP093097781, DOI: 10.3389/fgene.2014.00213
JOHANNES POPOW; ALEXANDER SCHLEIFFER; JAVIER MARTINEZ: "Diversity and roles of (t)RNA ligases", CELLULAR AND MOLECULAR LIFE SCIENCES, BIRKHäUSER-VERLAG, BA, vol. 69, no. 16, 17 March 2012 (2012-03-17), Ba , pages 2657 - 2670, XP035087271, ISSN: 1420-9071, DOI: 10.1007/s00018-012-0944-2
BIONDI ELISA, NICKENS DAVID G., WARREN SAMANTHA, SARAN DAYAL, BURKE DONALD H.: "Convergent donor and acceptor substrate utilization among kinase ribozymes", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, GB, vol. 38, no. 19, 1 October 2010 (2010-10-01), GB , pages 6785 - 6795, XP093097782, ISSN: 0305-1048, DOI: 10.1093/nar/gkq433
COPPINS REBECCA L., SILVERMAN SCOTT K.: "Mimicking the First Step of RNA Splicing: An Artificial DNA Enzyme Can Synthesize Branched RNA Using an Oligonucleotide Leaving Group as a 5‘-Exon Analogue", BIOCHEMISTRY, vol. 44, no. 41, 1 October 2005 (2005-10-01), pages 13439 - 13446, XP093097783, ISSN: 0006-2960, DOI: 10.1021/bi0507229
STEFAN WEITZER, JAVIER MARTINEZ: "The human RNA kinase hClp1 is active on 3′ transfer RNA exons and short interfering RNAs", NATURE, ¬MACMILLAN JOURNALS LTD., ETC.|, vol. 447, no. 7141, 10 May 2007 (2007-05-10), pages 222 - 226, XP055098128, ISSN: 00280836, DOI: 10.1038/nature05777
HEINDL KATRIN, MARTINEZ JAVIER: "Nol9 is a novel polynucleotide 5′-kinase involved in ribosomal RNA processing", THE EMBO JOURNAL / EUROPEAN MOLECULAR BIOLOGY ORGANIZATION, IRL PRESS, OXFORD, vol. 29, no. 24, 15 December 2010 (2010-12-15), Oxford , pages 4161 - 4171, XP093097785, ISSN: 0261-4189, DOI: 10.1038/emboj.2010.275
NAVICKAS ALBERTAS, CHAMOIS SÉBASTIEN, SAINT-FORT RÉNETTE, HENRI JULIEN, TORCHET CLAIRE, BENARD LIONEL: "No-Go Decay mRNA cleavage in the ribosome exit tunnel produces 5′-OH ends phosphorylated by Trl1", NATURE COMMUNICATIONS, vol. 11, no. 1, XP093097786, DOI: 10.1038/s41467-019-13991-9
ZHU HUI, YIN SHENMIN, SHUMAN STEWART: "Characterization of Polynucleotide Kinase/Phosphatase Enzymes from Mycobacteriophages Omega and Cjw1 and Vibriophage KVP40", JOURNAL OF BIOLOGICAL CHEMISTRY, AMERICAN SOCIETY FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, US, vol. 279, no. 25, 1 June 2004 (2004-06-01), US , pages 26358 - 26369, XP093097787, ISSN: 0021-9258, DOI: 10.1074/jbc.M403200200
VAN AKEN DIRK, PAULISSEN LUUD M. C., BUCK HENK M.: "Model studies concerning the first step in the hydrolysis of ribonucleic acids by RNase A", THE JOURNAL OF ORGANIC CHEMISTRY, AMERICAN CHEMICAL SOCIETY, vol. 46, no. 16, 1 July 1981 (1981-07-01), pages 3189 - 3193, XP093097789, ISSN: 0022-3263, DOI: 10.1021/jo00329a008
FAKRUDDIN MD, WEI FAN-YAN, SUZUKI TAKEO, ASANO KANA, KAIEDA TAKASHI, OMORI AKIKO, IZUMI RYOMA, FUJIMURA ATSUSHI, KAITSUKA TAKU, MI: "Defective Mitochondrial tRNA Taurine Modification Activates Global Proteostress and Leads to Mitochondrial Disease", CELL REPORTS, ELSEVIER INC, US, vol. 22, no. 2, 1 January 2018 (2018-01-01), US , pages 482 - 496, XP093022585, ISSN: 2211-1247, DOI: 10.1016/j.celrep.2017.12.051
WOLFF PHILIPPE, LECHNER ANTONY, DROOGMANS LOUIS, GROSJEAN HENRI, WESTHOF ERIC: "Identification of Up47 in three thermophilic archaea, one mesophilic archaeon, and one hyperthermophilic bacterium", RNA, vol. 29, no. 5, 1 May 2023 (2023-05-01), pages 551 - 556, XP093097791, DOI: 10.1261/rna.079546.122
DATABASE UNIPROTKB ANONYMOUS : "B9LA61 · B9LA61_NAUPA", XP093097738, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "K9Q189 · K9Q189_9CYAN", XP093097739, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q5JDQ4 · Q5JDQ4_THEKO", XP093097765, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q973E6 · Q973E6_SULTO", XP093097769, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "A9A3X9 · A9A3X9_NITMS", XP093097770, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "Q6LWU2 · Q6LWU2_METMP", XP093097773, retrieved from UNIPROT
DATABASE UNIPROTKB ANONYMOUS : "O66846 · O66846_AQUAE", XP093097774, retrieved from UNIPROT
OHIRA TAKAYUKI, MINOWA KEIICHI, SUGIYAMA KEI, YAMASHITA SEISUKE, SAKAGUCHI YURIKO, MIYAUCHI KENJYO, NOGUCHI RYO, KANEKO AKIRA, ORI: "Reversible RNA phosphorylation stabilizes tRNA for cellular thermotolerance", NATURE, vol. 605, no. 7909, 12 May 2022 (2022-05-12), pages 372 - 379, XP093097736, ISSN: 0028-0836, DOI: 10.1038/s41586-022-04677-2
OHIRA, TAKAYUKI ET AL.: "Reversible RNA phosphorylation modification in extremophiles and its function", KAGAKU TO KOGYO - CHEMISTRY AND CHEMICAL INDUSTRY, NIPPON KAGAKKAI, TOKYO, JP, vol. 75, no. 8, 1 August 2022 (2022-08-01), JP , pages 555 - 557, XP009550233, ISSN: 0022-7684
WOLFF PHILIPPE, VILLETTE CLAIRE, ZUMSTEG JULIE, HEINTZ DIMITRI, ANTOINE LAURA, CHANE-WOON-MING BÉATRICE, DROOGMANS LOUIS, GROSJEAN: "Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea.", RNA, vol. 26, no. 12, 1 December 2020 (2020-12-01), pages 1957 - 1975, XP093097778, DOI: 10.1261/rna.077537.120
BOCCALETTO PIETRO, STEFANIAK FILIP, RAY ANGANA, CAPPANNINI ANDREA, MUKHERJEE SUNANDAN, PURTA ELŻBIETA, KURKOWSKA MAŁGORZATA, SHIRV: "MODOMICS: a database of RNA modification pathways. 2021 update", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, GB, vol. 50, no. D1, 7 January 2022 (2022-01-07), GB , pages D231 - D235, XP093097780, ISSN: 0305-1048, DOI: 10.1093/nar/gkab1083
MOTORIN YURI, HELM MARK: "tRNA Stabilization by Modified Nucleotides", BIOCHEMISTRY, vol. 49, no. 24, 22 June 2010 (2010-06-22), pages 4934 - 4944, XP093040736, ISSN: 0006-2960, DOI: 10.1021/bi100408z
YOSHIHISA TOHRU: "Handling tRNA introns, archaeal way and eukaryotic way", FRONTIERS IN GENETICS, vol. 5, XP093097781, DOI: 10.3389/fgene.2014.00213
JOHANNES POPOW; ALEXANDER SCHLEIFFER; JAVIER MARTINEZ: "Diversity and roles of (t)RNA ligases", CELLULAR AND MOLECULAR LIFE SCIENCES, BIRKHäUSER-VERLAG, BA, vol. 69, no. 16, 17 March 2012 (2012-03-17), Ba , pages 2657 - 2670, XP035087271, ISSN: 1420-9071, DOI: 10.1007/s00018-012-0944-2
BIONDI ELISA, NICKENS DAVID G., WARREN SAMANTHA, SARAN DAYAL, BURKE DONALD H.: "Convergent donor and acceptor substrate utilization among kinase ribozymes", NUCLEIC ACIDS RESEARCH, OXFORD UNIVERSITY PRESS, GB, vol. 38, no. 19, 1 October 2010 (2010-10-01), GB , pages 6785 - 6795, XP093097782, ISSN: 0305-1048, DOI: 10.1093/nar/gkq433
COPPINS REBECCA L., SILVERMAN SCOTT K.: "Mimicking the First Step of RNA Splicing: An Artificial DNA Enzyme Can Synthesize Branched RNA Using an Oligonucleotide Leaving Group as a 5‘-Exon Analogue", BIOCHEMISTRY, vol. 44, no. 41, 1 October 2005 (2005-10-01), pages 13439 - 13446, XP093097783, ISSN: 0006-2960, DOI: 10.1021/bi0507229
STEFAN WEITZER, JAVIER MARTINEZ: "The human RNA kinase hClp1 is active on 3′ transfer RNA exons and short interfering RNAs", NATURE, ¬MACMILLAN JOURNALS LTD., ETC.|, vol. 447, no. 7141, 10 May 2007 (2007-05-10), pages 222 - 226, XP055098128, ISSN: 00280836, DOI: 10.1038/nature05777
HEINDL KATRIN, MARTINEZ JAVIER: "Nol9 is a novel polynucleotide 5′-kinase involved in ribosomal RNA processing", THE EMBO JOURNAL / EUROPEAN MOLECULAR BIOLOGY ORGANIZATION, IRL PRESS, OXFORD, vol. 29, no. 24, 15 December 2010 (2010-12-15), Oxford , pages 4161 - 4171, XP093097785, ISSN: 0261-4189, DOI: 10.1038/emboj.2010.275
NAVICKAS ALBERTAS, CHAMOIS SÉBASTIEN, SAINT-FORT RÉNETTE, HENRI JULIEN, TORCHET CLAIRE, BENARD LIONEL: "No-Go Decay mRNA cleavage in the ribosome exit tunnel produces 5′-OH ends phosphorylated by Trl1", NATURE COMMUNICATIONS, vol. 11, no. 1, XP093097786, DOI: 10.1038/s41467-019-13991-9
ZHU HUI, YIN SHENMIN, SHUMAN STEWART: "Characterization of Polynucleotide Kinase/Phosphatase Enzymes from Mycobacteriophages Omega and Cjw1 and Vibriophage KVP40", JOURNAL OF BIOLOGICAL CHEMISTRY, AMERICAN SOCIETY FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, US, vol. 279, no. 25, 1 June 2004 (2004-06-01), US , pages 26358 - 26369, XP093097787, ISSN: 0021-9258, DOI: 10.1074/jbc.M403200200
VAN AKEN DIRK, PAULISSEN LUUD M. C., BUCK HENK M.: "Model studies concerning the first step in the hydrolysis of ribonucleic acids by RNase A", THE JOURNAL OF ORGANIC CHEMISTRY, AMERICAN CHEMICAL SOCIETY, vol. 46, no. 16, 1 July 1981 (1981-07-01), pages 3189 - 3193, XP093097789, ISSN: 0022-3263, DOI: 10.1021/jo00329a008
FAKRUDDIN MD, WEI FAN-YAN, SUZUKI TAKEO, ASANO KANA, KAIEDA TAKASHI, OMORI AKIKO, IZUMI RYOMA, FUJIMURA ATSUSHI, KAITSUKA TAKU, MI: "Defective Mitochondrial tRNA Taurine Modification Activates Global Proteostress and Leads to Mitochondrial Disease", CELL REPORTS, ELSEVIER INC, US, vol. 22, no. 2, 1 January 2018 (2018-01-01), US , pages 482 - 496, XP093022585, ISSN: 2211-1247, DOI: 10.1016/j.celrep.2017.12.051
WOLFF PHILIPPE, LECHNER ANTONY, DROOGMANS LOUIS, GROSJEAN HENRI, WESTHOF ERIC: "Identification of Up47 in three thermophilic archaea, one mesophilic archaeon, and one hyperthermophilic bacterium", RNA, vol. 29, no. 5, 1 May 2023 (2023-05-01), pages 551 - 556, XP093097791, DOI: 10.1261/rna.079546.122
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INABA, Yoshiyuki et al. (JP)
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