Codexis, Inc.

Gregory Allan Cope

Nicholas John Agard

Gjalt W Huisman

Steven James Collier

Oscar Alvizo

Derek J Smith

Jeffrey C Moore

Jovana Nazor

Jacob M Janey

Wan Lin Yeo

Scott J Novick

Joly Sukumaran

Haibin Chen

Gregory Hughes

Stefanie Ng Minor

Jonathan Vroom

Nikki Dellas

Jack S Liang

Alberto Ortega Guerra

Christopher Keltie Prier

The present disclosure provides engineered polypeptides having imine reductase activity, polynucleotides encoding the engineered imine reductases, host cells capable of expressing the engineered imine reductases, and methods of using these engineered polypeptides with a range of ketone and amine substrate compounds to prepare secondary and tertiary amine product compounds.

Polynucleotides encoding engineered imine reductases

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.

Biocatalysts and methods for hydroxylation of chemical compounds

Engineered imine reductases and methods for the reductive amination of ketone and amine compounds

Nucleic acids encoding engineered imine reductases

The present invention provides methods for identifying bio-molecules with desired properties, or which are most suitable for acquiring such properties, from complex bio-molecule libraries or sets of such libraries. More specifically, some embodiments of the present invention provide methods for building sequence-activity models comprising multiplicative terms and using the models to guide directed evolution. In some embodiments, the sequence-activity models include one or more interaction terms, each of which including an interaction coefficient representing the contribution to activity of two or more defined residues. In some embodiments, the models describe relation between protein or nucleic acid sequences and protein activities. In some embodiments, the present invention also provides methods for preparing sequence-activity models, including but not limited to stepwise addition or subtraction techniques, Bayesian regression, ensemble regression and other methods. The present invention further provides digital systems and software for performing the methods provided herein.

Methods, systems, and software for identifying bio-molecules using models of multiplicative form

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Menlo Park, CA, United States of America

Gregory Allan Cope