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Genome Biol. 2008 Jan 18;9(1):R11. doi: 10.1186/gb-2008-9-1-r11.

CPSARST: an efficient circular permutation search tool applied to the detection of novel protein structural relationships.

Author information

1
Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu 30013, Taiwan.

Abstract

Circular permutation of a protein can be visualized as if the original amino- and carboxyl termini were linked and new ones created elsewhere. It has been well-documented that circular permutants usually retain native structures and biological functions. Here we report CPSARST (Circular Permutation Search Aided by Ramachandran Sequential Transformation) to be an efficient database search tool. In this post-genomics era, when the amount of protein structural data is increasing exponentially, it provides a new way to rapidly detect novel relationships among proteins.

PMID:
18201387
PMCID:
PMC2395249
DOI:
10.1186/gb-2008-9-1-r11
[Indexed for MEDLINE]
Free PMC Article

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