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Protein Sci. 2016 May;25(5):946-58. doi: 10.1002/pro.2907. Epub 2016 Mar 16.

Modeling repetitive, non-globular proteins.

Author information

1
Department of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, K7L 3N6, Canada.
2
Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia, V6T 1Z3, Canada.

Abstract

While ab initio modeling of protein structures is not routine, certain types of proteins are more straightforward to model than others. Proteins with short repetitive sequences typically exhibit repetitive structures. These repetitive sequences can be more amenable to modeling if some information is known about the predominant secondary structure or other key features of the protein sequence. We have successfully built models of a number of repetitive structures with novel folds using knowledge of the consensus sequence within the sequence repeat and an understanding of the likely secondary structures that these may adopt. Our methods for achieving this success are reviewed here.

KEYWORDS:

Beta-solenoid; antifreeze protein; molecular dynamics; protein modeling; repetitive protein; tandem repeat

PMID:
26914323
PMCID:
PMC4838656
DOI:
10.1002/pro.2907
[Indexed for MEDLINE]
Free PMC Article

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