Polynucleotides encoding biocatalysts and methods for hydroxylation of chemical compounds

Patent metadata

Field	Value
Publication number	US-10844358-B2
Application number	US-201816196205-A
Country	US
Kind code	B2
Filing date	Nov 20, 2018
Priority date	Jun 9, 2016
Publication date	Nov 24, 2020
Grant date	Nov 24, 2020

Abstract

The present invention provides engineered proline hydroxylase polypeptides for the production of hydroxylated compounds, polynucleotides encoding the engineered proline hydroxylases, host cells capable of expressing the engineered proline hydroxylases, and methods of using the engineered proline hydroxylases to prepare compounds useful in the production of active pharmaceutical agents.

First claim

What is claimed is:

1. An engineered polynucleotide encoding an engineered polypeptide having proline hydroxylase activity comprises an amino acid sequence having at least 95% or more sequence identity to reference sequence SEQ ID NO:810 and one or more residue differences as compared to SEQ ID NO: 810 at residue positions selected from: 2, 4, 8, 10, 15, 26, 30, 33, 36, 37, 39, 42, 43, 44, 45, 48, 50, 52, 55, 56, 57, 58, 61, 62, 63, 71, 76, 77, 81, 82, 87, 88, 92, 94, 95, 97, 98, 101, 107, 109, 114, 115, 119, 121, 124, 128, 130, 131, 132, 134, 136, 145, 151, 153, 156, 158, 160, 161, 165, 166, 168, 173, 176, 178, 180, 184, 194, 213, 230, 237, 240, 256, 263, 266, 269, 270, 271, 273, 274, 275, and 280.

2. The engineered polynucleotide encoding an engineered polypeptide having proline hydroxylase activity of claim 1 , wherein said one or more residue differences as compared to SEQ ID NO:810 is at residue positions selected from: 33, 40, 95, 156, and 166.

3. The engineered polynucleotide encoding an engineered polypeptide of claim 1 , wherein said engineered polypeptide is capable of converting (S)-pipecolic acid to (2S,5S)-5-hydroxypipecolic acid.

4. The engineered polynucleotide encoding an engineered polypeptide of claim 3 , wherein said engineered polypeptide is capable of converting (S)-pipecolic acid to (2S,5S)-5-hydroxypipecolic acid with at least 1.2 fold, 1.5 fold, 2 fold, 3 fold, 4 fold, 5 fold, 10 fold, 20 fold, 30 fold, 40 fold, 50 fold, 60 fold, 70 fold, 80 fold, 90 fold, 100 fold or more enzymatic activity of the naturally occurring enzyme.

5. The engineered polynucleotide encoding an engineered polypeptide of claim 3 , wherein said engineered polypeptide is capable of converting (S)-pipecolic acid to (2S,5S)-5-hydroxypipecolic acid with greater than 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% or more diastereomeric excess of (2S,5R)-5-hydroxypipecolic acid.

6. The engineered polynucleotide of claim 1 , wherein said polynucleotide comprises a nucleic acid sequence optimized for expression in E. coli.

7. The engineered polynucleotide of claim 1 , wherein said polynucleotide comprises SEQ ID NO: 809.

8. The engineered polynucleotide of claim 3 , wherein said polynucleotide comprises a nucleic acid sequence optimized for expression in E. coli.

9. The polynucleotide of claim 2 , wherein said polynucleotide comprises a nucleic acid sequence optimized for expression in E. coli.

10. An expression vector comprising the polynucleotide of claim 1 , optionally further comprising at least one control sequence.

11. The expression vector of claim 10 , wherein said vector comprises SEQ ID NO:1007, 1008, or 1009.

12. A host cell comprising the polynucleotide of claim 1 .

13. A host cell comprising the expression vector of claim 10 .

14. The host cell of claim 13 , wherein the host cell is E. coli.

15. A method of preparing an engineered polypeptide, comprising culturing the host cell of claim 12 , under conditions suitable for expression of the polypeptide.

16. The method of claim 15 , further comprising a step of isolating the engineered polypeptide.

Assignees

• Codexis Inc

Inventors

• Nazor Jovana
• Osborne Robert
• Liang Jack
• Vroom Jonathan
• Zhang Xiyun
• Entwistle David
• Voladri Rama
• Garcia Ravi David
• Moore Jeffrey C
• Grosser Shane
• Kosjek Birgit
• Truppo Matthew

Classifications

• C12Y114/11002

  Procollagen-proline dioxygenase (1.14.11.2), i.e. proline-hydroxylase · CPC title

• C12P17/12

  containing a six-membered hetero ring · CPC title

• C12Y114/11

  with 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors (1.14.11) · CPC title

• C12N9/0071 Primary

  acting on paired donors with incorporation of molecular oxygen (1.14) · CPC title