circular permutation in proteins圆形排列在蛋白质.pdfVIP

Topic Page Circular Permutation in Proteins 1 ´2 Spencer Bliven *, Andreas Prlic * 1 Bioinformatics Program, University of California, San Diego, La Jolla, California, United States of America, 2 San Diego Supercomputer Center, University of California San Diego, La Jolla, California, United States of America This is a ‘‘Topic Page’’ article for PLoS Computational Biology. permuted variants of cyclic wild-type proteins [10]. SISYPHUS is a database that contains a collection of hand-curated manual Circular permutation describes a type of relationship alignments of proteins with non-trivial relationships, several of between proteins, whereby the proteins have a changed order of which have circular permutations [11]. amino acids in their protein sequence, such that the sequence of the first portion of one protein (adjacent to the N-terminus) is Evolution related to that of the second portion of the other protein (near its C-terminus), and vice versa (see Figure 1). This is directly There are two main models that are currently being used to analogous to the mathematical notion of a cyclic permutation explain the evolution of circularly permuted proteins: permutation by over the set of residues in a protein. duplication and fission and fusion . The two models have compelling Circular permutation can be the result of evolutionary events, examples supporting them, but the relative contribution of each post-translational modifications, or artificially engineered muta- model in evolution is still under debat