IP Library › Granted Patent US 12,398,383
Granted Patent B2
US 12,398,383 · App. 18/662,446 · Granted Aug 26, 2025

Enzyme variants with improved ester synthase properties

Inventors: Andrew M. Shumaker (South San Francisco, CA); Bernardo M. T. Da Costa (South San Francisco, CA); Kevin Holden (South San Francisco, CA); Louis G. Hom (South San Francisco, CA); Tarah S. Baron (South San Francisco, CA); Noah Helman (South San Francisco, CA)
Assignee: Genomatica, Inc.
C12N9/18C12N9/1007C12P7/6436C12Y201/01015
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Quick Facts
Patent No.
US 12,398,383
App. No.
18/662,446
Granted
Aug 26, 2025
Kind
B2
Abstract

The disclosure relates to enzyme variants with improved ester synthase properties for the production of fatty acid esters. Further contemplated are recombinant host cells that express such variants, cell cultures comprising the recombinant host cells and fatty acid ester compositions produced by such recombinant host cells.

Claims (19)

1. A variant ester synthase polypeptide comprising an amino acid sequence having at least 90% sequence identity to SEQ ID NO: 67, wherein said variant ester synthase polypeptide is genetically engineered to have at least one mutation selected from the group consisting of to K1N, K1T, R2S, G4R, T5P, T5S, L6Q, D7N, S15G, T24M, T24N, T24W, Q26P, Q26T, L30H, G33D, G33N, G33S, L39A, L39M, L39S, R40S, D41A, D41G, D41H, D41Y, V43K, V43S, T44A, T44F, T44K, E48A, E48Q, A49D, A49T, G50S, Y58C, Y58L, V69L, V69W, I70L, I70V, A73G, A73Q, A73S, A73T, V76L, D77A, K78F, K78W, D79H, D79K, I80V, R87W, R93T, R98D, E99Q, G101L, I102L, I102R, S105G, N110R, P111D, P111G, P111S, D113A, D113V, S115R, C121S, H122Q, H122S, V123I, V123M, G126D, L127G, R131M, L134T, T136G, I146K, I146L, I146R, S147A, S147T, V149L, R150P, V155G, T157S, T158E, T158K, T158R, E161D, E161G, R162E, R162K, C163I, C163R, N164D, N164R, M165K, P166L, P166S, T170M, T170R, T170S, V171E, V171F, V171H, V171L, V171R, V171W, R172S, R172W, P173R, P173S, P173W, H174E, Q175E, Q175R, Q175S, R176T, R177V, A179K, A179S, A179V, D182G, K183S, E184F, E184G, E184L, E184R, E184S, A185L, A185M, S186T, V187G, V187R, P188R, A189G, A190P, A190R, A190W, V191I, V191L, S192A, S192L, S192V, Q193R, Q193S, M195G, D196E, A197T, A197V, L200R, Q201A, Q201R, Q201V, Q201W, A202L, D203E, D203R, P206F, R207A, G212A, G212L, G212M, G212S, V216I, V219L, A228G, T231S, V234C, V236A, V236K, L237I, H239G, T242K, T242R, A243G, A243R, Q244G, R246A, R246G, R246L, R246Q, R246P, R246V, R246W, Q250W, Q253G, L254R, L254T, D255E, L257I, L257M, K258R, N259A, N259E, N259Q, L260M, L260V, H262Q, H262R, A263V, S264D, S264V, S264W, G265D, G265N, G266A, G266S, S267G, L268F, L268M, V272A, Y274G, A279G, A279V, A285L, A285R, A285V, E286H, Q287S, N288D, N289E, N289G, D292F, T293A, T293I, P294G, V301A, N302G, I303G, I303R, I303W, R304W, A306G, A306S, D307F, D307G, D307L, D307N, D307R, D307V, E309A, E309G, E309S, G310H, G310R, G310V, T311S, T313S, Q314G, Q314R, I315F, S316G, F317W, I319G, A320C, A323G, A327I, D328F, N331G, N331K, N331T, Q334K, Q334S, Q335C, Q335N, Q335S, T338A, T338E, T338H, Q348A, Q348R, K349A, K349C, K349H, K349Q, P351G, K352I, K352N, S353K, S353T, T356G, T356W, Q357V, M360Q, M360R, M360S, M360W, M363W, P365G, Y366G, Y366W, 1367M, M371R, G373R, G375A, G375S, G375V, M378A, V381F, T385G, E393G, E393Q, E393R, E393T, E393W, G394E, G394R, T395E, T395V, R402K, E404K, E404R, V409L, S410G, L411A, L411P, L411V, A413T, 1420V, C422G, S424G, S424Q, A426V, N430G, S442E, S442G, M443G, A447C, A447I, A447L, L454V, D455E, L457Y, E458G, E458W, I461G, I461L, I461V, K466N, R467L, R467T, A468G, A468S, A468T, R469L, T470A, T470P, T470S, K472T, K472*, *474Y, and a combination thereof, and wherein said variant ester synthase polypeptide has improved ester synthase activity compared to a corresponding wild type polypeptide.

2. The variant ester synthase polypeptide of claim 1 , wherein expression of the variant ester synthase polypeptide in a recombinant host cell results in a higher titer of fatty ester compositions compared to a recombinant host cell expressing the corresponding wild type polypeptide.

3. The variant ester synthase of claim 2 , wherein said fatty ester compositions comprise fatty acid methyl esters, fatty acid ethyl esters, fatty acid propyl esters, fatty acid isopropyl esters, fatty acid butyl esters, monoglycerides, fatty acid isobutyl esters, fatty acid 2-butyl esters, fatty acid tert-butyl esters, or a combination thereof.

4. The variant ester synthase of claim 1 , wherein said improved ester synthase activity results in an increased percentage of beta-hydroxy esters, a decreased percentage of beta-hydroxy esters, an increased chain lengths of fatty acid esters, a decreased chain lengths of fatty acid esters, or a combination thereof.

5. A recombinant host cell, genetically engineered to express the variant ester synthase polypeptide of claim 1 .

6. The recombinant host cell of claim 5 , wherein:

the recombinant host cell produces a fatty acid ester composition with higher titer, higher yield and/or higher productivity of fatty acid esters than a host cell expressing the corresponding wild type polypeptide, when cultured in medium containing a carbon source under conditions effective to express the variant ester synthase polypeptide; or

the recombinant host cell produces a fatty ester composition with an altered percentage of beta-hydroxy esters as compared to a host cell that expresses the corresponding wild type ester synthase polypeptide.

7. The recombinant host cell of claim 6 , wherein the altered percentage of beta-hydroxy esters is an increased percentage of beta-hydroxy esters.

8. The recombinant host cell of claim 6 , wherein the altered percentage of beta-hydroxy esters is a decreased percentage of beta-hydroxy esters.

9. A cell culture, comprising the recombinant host cell of claim 5 and a fatty ester composition.

10. The cell culture of claim 9 , wherein the fatty ester composition comprises one or more of a saturated or unsaturated C6, C8, C10, C12, C13, C14, C15, C16, C17, or C18 fatty ester.

11. The cell culture of claim 9 , wherein the fatty ester composition comprises a fatty ester having a double bond at position 7 in the carbon chain between C7 and C8 from the reduced end of the fatty ester.

12. The cell culture of claim 9 , wherein the fatty ester composition comprises branched chain fatty esters.

13. A method of producing a fatty ester composition, the method comprising culturing the recombinant host cell of claim 5 in a medium comprising a carbon source.

14. The method of claim 13 , further comprising isolating the fatty ester composition.

15. The method of claim 14 , wherein the fatty ester composition comprises:

an increased or decreased percentage of beta-hydroxy esters; and/or

one or more of a saturated or unsaturated C6, C8, C10, C12, C13, C14, C15, C16, C17, or C18 fatty ester.

Assignments (5)
SECURITY INTEREST Recorded Feb 10, 2026
From: GENOMATICA, INC.
To: AGAIN BIO APS
Reel/Frame 074708/0001 →
SECURITY INTEREST Recorded Dec 9, 2025
From: GENOMATICA, INC.
To: NOVO HOLDINGS A/S, AS COLLATERAL AGENT
Reel/Frame 073915/0027 →
SECURITY INTEREST Recorded Jun 2, 2025
From: GENOMATICA, INC.
To: OXFORD FINANCE LLC
Reel/Frame 071471/0770 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Apr 15, 2025
From: REG LIFE SCIENCES, LLC
To: GENOMATICA, INC.
Reel/Frame 070850/0185 →
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Apr 15, 2025
From: SHUMAKER, ANDREW; HOM, LOUIS G.; BARON, TARAH S.; HELMAN, NOAH; HOLDEN, KEVIN; DA COSTA, BERNARDO M.
To: REG LIFE SCIENCES, LLC
Reel/Frame 070850/0273 →
Continuity (6)
Continuation 17116817 · Dec 9, 2020
Continuation 15873977 · Jan 18, 2018
Continuation 14424387
Provisional Application 61708424 · Oct 1, 2012
Provisional Application 61701191 · Sep 14, 2012
Related Publication 20250101392A1 · Mar 27, 2025
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