EP3924482A4 - ENZYMES WITH RUVC DOMAINS - Google Patents

ENZYMES WITH RUVC DOMAINS Download PDF

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Publication number
EP3924482A4
EP3924482A4 EP20756259.6A EP20756259A EP3924482A4 EP 3924482 A4 EP3924482 A4 EP 3924482A4 EP 20756259 A EP20756259 A EP 20756259A EP 3924482 A4 EP3924482 A4 EP 3924482A4
Authority
EP
European Patent Office
Prior art keywords
enzymes
ruvc domains
ruvc
domains
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Pending
Application number
EP20756259.6A
Other languages
German (de)
English (en)
French (fr)
Other versions
EP3924482A1 (en
Inventor
Brian Thomas
Christopher Brown
Rose KANTOR
Audra DEVOTO
Cristina Butterfield
Lisa ALEXANDER
Daniela S. A. GOLTSMAN
Jason Liu
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Metagenomi Therapeutics Inc
Original Assignee
Metagenomi Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Metagenomi Inc filed Critical Metagenomi Inc
Publication of EP3924482A1 publication Critical patent/EP3924482A1/en
Publication of EP3924482A4 publication Critical patent/EP3924482A4/en
Pending legal-status Critical Current

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N9/00—Enzymes; Proenzymes; Compositions thereof; Processes for preparing, activating, inhibiting, separating or purifying enzymes
    • C12N9/14—Hydrolases (3)
    • C12N9/16—Hydrolases (3) acting on ester bonds (3.1)
    • C12N9/22—Ribonucleases [RNase]; Deoxyribonucleases [DNase]
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/102—Mutagenizing nucleic acids
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/113—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/87—Introduction of foreign genetic material using processes not otherwise provided for, e.g. co-transformation
    • C12N15/90—Stable introduction of foreign DNA into chromosome
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/87—Introduction of foreign genetic material using processes not otherwise provided for, e.g. co-transformation
    • C12N15/90—Stable introduction of foreign DNA into chromosome
    • C12N15/902—Stable introduction of foreign DNA into chromosome using homologous recombination
    • C12N15/907—Stable introduction of foreign DNA into chromosome using homologous recombination in mammalian cells
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Y—ENZYMES
    • C12Y301/00—Hydrolases acting on ester bonds (3.1)
    • C12Y301/21—Endodeoxyribonucleases producing 5'-phosphomonoesters (3.1.21)
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/10—Type of nucleic acid
    • C12N2310/20—Type of nucleic acid involving clustered regularly interspaced short palindromic repeats [CRISPR]
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/50—Physical structure
    • C12N2310/53—Physical structure partially self-complementary or closed
    • C12N2310/531—Stem-loop; Hairpin

Landscapes

  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biomedical Technology (AREA)
  • Molecular Biology (AREA)
  • General Engineering & Computer Science (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Biophysics (AREA)
  • Plant Pathology (AREA)
  • Physics & Mathematics (AREA)
  • Medicinal Chemistry (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Mycology (AREA)
  • Cell Biology (AREA)
  • Enzymes And Modification Thereof (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Immobilizing And Processing Of Enzymes And Microorganisms (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Peptides Or Proteins (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
EP20756259.6A 2019-02-14 2020-02-14 ENZYMES WITH RUVC DOMAINS Pending EP3924482A4 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201962805899P 2019-02-14 2019-02-14
US201962805868P 2019-02-14 2019-02-14
US201962805878P 2019-02-14 2019-02-14
US201962874414P 2019-07-15 2019-07-15
PCT/US2020/018432 WO2020168291A1 (en) 2019-02-14 2020-02-14 Enzymes with ruvc domains

Publications (2)

Publication Number Publication Date
EP3924482A1 EP3924482A1 (en) 2021-12-22
EP3924482A4 true EP3924482A4 (en) 2023-04-05

Family

ID=72045639

Family Applications (1)

Application Number Title Priority Date Filing Date
EP20756259.6A Pending EP3924482A4 (en) 2019-02-14 2020-02-14 ENZYMES WITH RUVC DOMAINS

Country Status (9)

Country Link
US (1) US20240117330A1 (enExample)
EP (1) EP3924482A4 (enExample)
JP (3) JP2022520428A (enExample)
KR (2) KR20240007322A (enExample)
CN (2) CN116515797A (enExample)
AU (3) AU2020223370B2 (enExample)
CA (2) CA3241703C (enExample)
MX (2) MX2021009886A (enExample)
WO (1) WO2020168291A1 (enExample)

Families Citing this family (26)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2021178933A2 (en) 2020-03-06 2021-09-10 Metagenomi Ip Technologies, Llc Class ii, type v crispr systems
AU2015330699B2 (en) 2014-10-10 2021-12-02 Editas Medicine, Inc. Compositions and methods for promoting homology directed repair
EP3823633A4 (en) 2018-06-29 2023-05-03 Editas Medicine, Inc. SYNTHETIC LEAD MOLECULES, COMPOSITIONS AND METHODS RELATED THERETO
WO2021226363A1 (en) * 2020-05-08 2021-11-11 Metagenomi Ip Technologies, Llc Enzymes with ruvc domains
CA3241703C (en) * 2019-02-14 2026-02-24 Metagenomi Therapeutics, Inc. Enzymes with ruvc domains
US10913941B2 (en) 2019-02-14 2021-02-09 Metagenomi Ip Technologies, Llc Enzymes with RuvC domains
GB2594339B (en) * 2020-02-14 2023-02-08 Metagenomi Inc Enzymes with RUVC domains
WO2021202568A1 (en) 2020-03-31 2021-10-07 Metagenomi Ip Technologies, Llc Class ii, type ii crispr systems
EP4165177A4 (en) * 2020-05-08 2024-08-28 Metagenomi, Inc. ENZYMES WITH RUVC DOMAINS
JP2023540797A (ja) 2020-09-11 2023-09-26 メタゲノミ，インコーポレイテッド 塩基編集酵素
GB2700205B (en) * 2020-09-11 2026-04-15 Metagenomi Therapeutics Inc Base editing enzymes
WO2022087135A1 (en) * 2020-10-21 2022-04-28 Emendobio Inc. Novel omni 56, 58, 65, 68, 71, 75, 78, and 84 crispr nucleases
WO2022098681A2 (en) * 2020-11-03 2022-05-12 Caspr Biotech Corporation Novel class 2 crispr-cas rna-guided endonucleases
CA3205865A1 (en) * 2021-01-22 2022-07-28 Brian C. Thomas Novel engineered and chimeric nucleases
WO2022159742A1 (en) * 2021-01-22 2022-07-28 Metagenomi, Inc Novel engineered and chimeric nucleases
JP2024515936A (ja) * 2021-03-19 2024-04-11 メタゲノミ，インク． Ｃａｓ酵素を用いたマルチプレックス編集
KR20240004618A (ko) * 2021-04-30 2024-01-11 메타지노미, 인크. Ruvc 도메인을 갖는 효소
AU2022335499A1 (en) 2021-08-27 2024-02-22 Metagenomi Therapeutics, Inc. Enzymes with ruvc domains
WO2023081855A1 (en) 2021-11-05 2023-05-11 Metagenomi, Inc. Base editing enzymes
AU2022396533A1 (en) 2021-11-24 2024-05-02 Metagenomi Therapeutics, Inc. Endonuclease systems
WO2023122663A2 (en) * 2021-12-23 2023-06-29 Mammoth Biosciences, Inc. Effector proteins and methods of use
WO2023194359A1 (en) * 2022-04-04 2023-10-12 Alia Therapeutics Srl Compositions and methods for treatment of usher syndrome type 2a
KR20250037788A (ko) * 2022-06-15 2025-03-18 빔 테라퓨틱스, 인크. 보체 활성화를 감소시키기 위한 조성물 및 방법
CA3267752A1 (en) * 2022-09-16 2024-03-21 Alia Therapeutics Srl ENQP TYPE II CAS PROTEINS AND THEIR APPLICATIONS
AU2024230342A1 (en) * 2023-03-01 2025-10-16 Metagenomi Therapeutics, Inc. Enzymes with ruvc domains
WO2025106934A1 (en) * 2023-11-16 2025-05-22 Metagenomi, Inc. Enzymes with ruvc domains

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2018035250A1 (en) * 2016-08-17 2018-02-22 The Broad Institute, Inc. Methods for identifying class 2 crispr-cas systems
US20190264232A1 (en) * 2018-02-23 2019-08-29 Pioneer Hi-Bred International, Inc. Novel cas9 orthologs

Family Cites Families (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN113355357B (zh) * 2012-12-12 2024-12-03 布罗德研究所有限公司 对用于序列操纵的改进的系统、方法和酶组合物进行的工程化和优化
WO2016196655A1 (en) * 2015-06-03 2016-12-08 The Regents Of The University Of California Cas9 variants and methods of use thereof
WO2016205759A1 (en) * 2015-06-18 2016-12-22 The Broad Institute Inc. Engineering and optimization of systems, methods, enzymes and guide scaffolds of cas9 orthologs and variants for sequence manipulation
CA3241703C (en) * 2019-02-14 2026-02-24 Metagenomi Therapeutics, Inc. Enzymes with ruvc domains

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2018035250A1 (en) * 2016-08-17 2018-02-22 The Broad Institute, Inc. Methods for identifying class 2 crispr-cas systems
US20190264232A1 (en) * 2018-02-23 2019-08-29 Pioneer Hi-Bred International, Inc. Novel cas9 orthologs

Non-Patent Citations (9)

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Title
ANONYMOUS: "GSP:BGS65773", 17 October 2019 (2019-10-17), XP055968889, Retrieved from the Internet <URL:http://ibis.internal.epo.org/exam/dbfetch.jsp?id=GSP:BGS65773> [retrieved on 20221007] *
ANONYMOUS: "GSP:BGS65777", 29 August 2019 (2019-08-29), XP055968896, Retrieved from the Internet <URL:http://ibis.internal.epo.org/exam/dbfetch.jsp?id=GSP:BGS65777> [retrieved on 20221007] *
KOONIN EUGENE V ET AL: "Diversity, classification and evolution of CRISPR-Cas systems", CURRENT OPINION IN MICROBIOLOGY, vol. 37, 9 June 2017 (2017-06-09), pages 67 - 78, XP085276922, ISSN: 1369-5274, DOI: 10.1016/J.MIB.2017.05.008 *
See also references of WO2020168291A1 *
SERGEY SHMAKOV ET AL: "Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems", MOLECULAR CELL, vol. 60, no. 3, 1 November 2015 (2015-11-01), AMSTERDAM, NL, pages 385 - 397, XP055267512, ISSN: 1097-2765, DOI: 10.1016/j.molcel.2015.10.008 *
SHMAKOV SERGEY ET AL: "Diversity and evolution of class 2 CRISPR-Cas systems", NATURE REVIEWS. MICROBIOLOGY, NATURE PUBLISHING GROUP, ENGLAND, vol. 15, no. 3, 1 March 2017 (2017-03-01), pages 169 - 182, XP002767857, ISSN: 1740-1534, DOI: 10.1038/NRMICRO.2016.184 *
UNIPROTKB/TREMBL: "A0A1F0KNW4 . A0A1F0KNW4_9MICC HNHc domain-containing protein . Rothia sp. HMSC066H02", 15 February 2017 (2017-02-15), XP055968869, Retrieved from the Internet <URL:https://rest.uniprot.org/uniprotkb/A0A1F0KNW4.txt> [retrieved on 20221007] *
UNIPROTKB/TREMBL: "A0A1F0PN46 . A0A1F0PN46_9MICC HNH Cas9-type domain-containing protein . Rothia sp. HMSC076D04", 15 February 2017 (2017-02-15), XP055968835, Retrieved from the Internet <URL:https://rest.uniprot.org/uniprotkb/A0A1F0PN46.txt> [retrieved on 20221007] *
UNIPROTKB/TREMBL: "A0A1S1DAD0 . A0A1S1DAD0_9MICC HNH Cas9-type domain-containing protein . Rothia sp. HMSC065C03", 12 April 2017 (2017-04-12), XP055968878, Retrieved from the Internet <URL:https://rest.uniprot.org/uniprotkb/A0A1S1DAD0.txt> [retrieved on 20221007] *

Also Published As

Publication number Publication date
EP3924482A1 (en) 2021-12-22
US20240117330A1 (en) 2024-04-11
CA3130135C (en) 2024-11-19
KR102623312B1 (ko) 2024-01-09
CA3130135A1 (en) 2020-08-20
MX2021009886A (es) 2021-10-13
CA3241703C (en) 2026-02-24
MX2023006575A (es) 2023-06-16
KR20240007322A (ko) 2024-01-16
CA3241703A1 (en) 2020-08-20
AU2020223370A1 (en) 2021-10-07
AU2025279720A1 (en) 2026-01-15
JP7502537B2 (ja) 2024-06-18
JP2022520428A (ja) 2022-03-30
JP2024133476A (ja) 2024-10-02
JP2023179468A (ja) 2023-12-19
CN116515797A (zh) 2023-08-01
AU2020223370B2 (en) 2023-04-20
CN113728098A (zh) 2021-11-30
WO2020168291A1 (en) 2020-08-20
KR20210139254A (ko) 2021-11-22
AU2023206079A1 (en) 2023-08-10

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