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)
  • Bioinformatics & Cheminformatics (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Biomedical Technology (AREA)
  • General Engineering & Computer Science (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Physics & Mathematics (AREA)
  • Plant Pathology (AREA)
  • Biophysics (AREA)
  • Medicinal Chemistry (AREA)
  • Mycology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Cell Biology (AREA)
  • Enzymes And Modification Thereof (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Peptides Or Proteins (AREA)
  • Immobilizing And Processing Of Enzymes And Microorganisms (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
US201962805868P 2019-02-14 2019-02-14
US201962805878P 2019-02-14 2019-02-14
US201962805899P 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 (https=)
EP (1) EP3924482A4 (https=)
JP (3) JP2022520428A (https=)
KR (2) KR102623312B1 (https=)
CN (2) CN113728098A (https=)
AU (3) AU2020223370B2 (https=)
CA (2) CA3130135C (https=)
MX (2) MX2021009886A (https=)
WO (1) WO2020168291A1 (https=)

Families Citing this family (26)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP3204496A1 (en) 2014-10-10 2017-08-16 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
US10913941B2 (en) 2019-02-14 2021-02-09 Metagenomi Ip Technologies, Llc Enzymes with RuvC domains
AU2020223370B2 (en) * 2019-02-14 2023-04-20 Metagenomi Therapeutics, Inc. Enzymes with RuvC domains
GB2594339B (en) * 2020-02-14 2023-02-08 Metagenomi Inc Enzymes with RUVC domains
GB2617658B (en) 2020-03-06 2024-04-17 Metagenomi Inc Class II, type V CRISPR systems
GB2608292B (en) * 2020-03-31 2024-02-14 Metagenomi Inc Class II, type II CRISPR systems
EP4165177A4 (en) * 2020-05-08 2024-08-28 Metagenomi, Inc. ENZYMES WITH RUVC DOMAINS
KR20230021657A (ko) * 2020-05-08 2023-02-14 메타지노미, 인크. Ruvc 도메인을 포함하는 효소
CA3192224A1 (en) 2020-09-11 2022-03-17 Jyun-Liang LIN Base editing enzymes
GB2700205B (en) * 2020-09-11 2026-04-15 Metagenomi Therapeutics Inc Base editing enzymes
US20230383273A1 (en) * 2020-10-21 2023-11-30 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
WO2022159742A1 (en) * 2021-01-22 2022-07-28 Metagenomi, Inc Novel engineered and chimeric nucleases
BR112023014719A2 (pt) * 2021-01-22 2023-12-05 Metagenomi Inc Novas nucleases quiméricas e manipuladas
BR112023018948A2 (pt) * 2021-03-19 2023-10-17 Metagenomi Inc Edição multiplex com enzimas cas
WO2022232638A2 (en) * 2021-04-30 2022-11-03 Metagenomi, Inc. Enzymes with ruvc domains
CA3225082A1 (en) * 2021-08-27 2023-03-02 Brian C. Thomas Enzymes with ruvc domains
AU2022380842A1 (en) 2021-11-05 2024-05-23 Metagenomi Therapeutics, Inc. Base editing enzymes
MX2024006257A (es) 2021-11-24 2024-07-29 Metagenomi Inc Sistemas de endonucleasas.
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
CN119923466A (zh) * 2022-06-15 2025-05-02 比姆医疗股份有限公司 用于减少补体激活的组合物和方法
US20260014279A1 (en) * 2022-09-16 2026-01-15 Alia Therapeutics Srl Enqp type cas proteins and applications thereof
KR20250153814A (ko) * 2023-03-01 2025-10-27 메타지노미, 인크. Ruvc 도메인을 갖는 효소
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
CA2894684A1 (en) * 2012-12-12 2014-06-19 The Broad Institute, Inc. Engineering and optimization of improved crispr-cas systems, methods and enzyme compositions for sequence manipulation in eukaryotes
EP3303634B1 (en) * 2015-06-03 2023-08-30 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
AU2020223370B2 (en) 2019-02-14 2023-04-20 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)

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

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