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Methods Enzymol. 2013;523:351-68. doi: 10.1016/B978-0-12-394292-0.00016-3.

Efficient sampling of SCHEMA chimera families to identify useful sequence elements.

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1
Department of Chemical, Biological & Materials Engineering, University of Oklahoma, Norman, Oklahoma, USA.

Abstract

SCHEMA structure-guided recombination is an effective method for producing families of protein chimeras having high sequence diversity, functional diversity, and thermostabilities greater than any of the parent proteins from which the chimeras are made. A key feature of SCHEMA chimera families is their amenability to a "sample, model, and predict" operation that allows one to characterize members of a small chimera sample set and use those data to construct models that accurately predict the properties of every member of the family. In this chapter, we describe applications of this "sample, model, and predict" approach and outline methods for designing chimera sample sets that enable efficient construction of models to identify useful sequence elements. With these models we can also predict the sequences and properties of the most desirable chimeras.

[Indexed for MEDLINE]

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