Document Detail


Optimizing nucleotide mixtures to encode specific subsets of amino acids for semi-random mutagenesis.
MedLine Citation:
PMID:  1368102     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
In random mutagenesis, synthesis of an NNN triplet (i.e. equiprobable A, C, G, and T at each of the three positions in the codon) could be considered an optimal nucleotide mixture because all 20 amino acids are encoded. NN(G,C) might be considered a slightly more intelligent "dope" because the entire set of amino acids is still encoded using only half as many codons. Using a general algorithm described herein, it is possible to formulate more complex doping schemes which encode specific subsets of the twenty amino acids, excluding others from the mix. Maximizing the equiprobability of amino acid residues contributing to such a subset is suggested as an optimal basis for performing semi-random mutagenesis. This is important for reducing the nucleotide complexity of combinatorial cassettes so that "sequence space" can be searched more efficiently. Computer programs have been developed to provide tables of optimized dopes compatible with automated DNA synthesizers.
Authors:
A P Arkin; D C Youvan
Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Bio/technology (Nature Publishing Company)     Volume:  10     ISSN:  0733-222X     ISO Abbreviation:  Biotechnology (N.Y.)     Publication Date:  1992 Mar 
Date Detail:
Created Date:  1992-06-10     Completed Date:  1992-06-10     Revised Date:  2007-11-14    
Medline Journal Info:
Nlm Unique ID:  8309273     Medline TA:  Biotechnology (N Y)     Country:  UNITED STATES    
Other Details:
Languages:  eng     Pagination:  297-300     Citation Subset:  B    
Affiliation:
Department of Chemistry, Massachusetts Institute of Technology, Cambridge 02139.
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Sequence
Amino Acids / genetics*
Genetic Code / physiology*
Molecular Sequence Data
Mutagenesis, Site-Directed / genetics*
Nucleotides / genetics*
Probability
Random Allocation
Grant Support
ID/Acronym/Agency:
GM42645/GM/NIGMS NIH HHS
Chemical
Reg. No./Substance:
0/Amino Acids; 0/Nucleotides

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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