Optimizing nucleotide sequence ensembles for combinatorial protein libraries using a genetic algorithm.

ABSTRACT: Protein libraries are essential to the field of protein engineering. Increasingly, probabilistic protein design is being used to synthesize combinatorial protein libraries, which allow the protein engineer to explore a vast space of amino acid sequences, while at the same time placing restrictions on the amino acid distributions. To this end, if site-specific amino acid probabilities are input as the target, then the codon nucleotide distributions that match this target distribution can be used to generate a partially randomized gene library. However, it turns out to be a highly nontrivial computational task to find the codon nucleotide distributions that exactly matches a given target distribution of amino acids. We first showed that for any given target distribution an exact solution may

SUBMITTER: Craig RA 

PROVIDER: S-EPMC2811015 | biostudies-literature | 2010 Jan

REPOSITORIES: biostudies-literature