Schematic representation of a circular permutation in two proteins. The first protein (outer circle) has the sequence a-b-c. After the permutation the second protein (inner circle) has the sequence c-a-b. The letters N and C indicate the location of the amino- and carboxy-termini of the protein sequences and how their positions change relative to each other.
A circular permutation is a relationship between proteins whereby the proteins have a changed order of amino acids in their peptide sequence. The result is a protein structure with different connectivity, but overall similar three-dimensional (3D) shape. In 1979, the first pair of circularly permuted proteins – concanavalin A and lectin – were discovered; over 2000 such proteins are now known.
Circular permutation can occur as the result of evolutionary events, posttranslational modifications, or artificially engineered mutations. The two main models proposed to explain the evolution of circularly permuted proteins are permutation by duplication and fission and fusion. Permutation by duplication occurs when a gene undergoes duplication to form a tandem repeat, before redundant sections of the protein are removed; this relationship is found between saposin and swaposin. Fission and fusion occurs when partial proteins fuse to form a single polypeptide, such as in nicotinamide nucleotide transhydrogenases.
Circular permutations are routinely engineered in the laboratory to improve their catalytic activity or thermostability, or to investigate properties of the original protein.
Traditional algorithms for sequence alignment and structure alignment are not able to detect circular permutations between proteins. New non-linear approaches have been developed that overcome this and are able to detect topology-independent similarities.
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A circularpermutation is a relationship between proteins whereby the proteins have a changed order of amino acids in their peptide sequence. The result...
sorted result Cycles and fixed points Cyclic permutation of integer Cycle notation Circularpermutationinproteins Fisher–Yates shuffle Note that the cycle...
related to management of the public estate in the United Kingdom CE-CP, a circularpermutationinproteins Country Extended Code Page, EBCDIC encodings...
evolutionally-conserved protein domains found in saposin and related proteins (SAPLIP). Saposins are small lysosomal proteins that serve as activators...
Protein engineering is the process of developing useful or valuable proteins through the design and production of unnatural polypeptides, often by altering...
valuable tool for the comparison of proteins with low sequence similarity, where evolutionary relationships between proteins cannot be easily detected by standard...
local optimization. A circular layout may also be used to maximize the number of crossings. In particular, choosing a random permutation for the vertices causes...
the coat proteins are produced, the capsid experiences self-assembly. Circularpermutation exposes the exterior termini on the coat proteins, which cluster...
relationship between proteins. Proteins with the same shapes but having little sequence or functional similarity are placed in different superfamilies...
jRCaMP1b use a circularpermutation of the red fluorescent protein mRuby instead of GFP, while jRGECO1a is based on the red fluorescent protein mApple. Since...
represent circularpermutations of the original. The T4 genome bears eukaryote-like intron sequences. The Shine-Dalgarno sequence GAGG dominates in virus...
prevent an immune response. At least 12 Opa proteins are known and the many permutations of surface proteins make recognizing N. gonorrhoeae and mounting...
a minor loss in precision if a permutation is drawn twice—or more frequently—for the efficiency of not having to track which permutations have already...
and Rep classes are evolutionarily related to one another through circularpermutation. This means that they share a general fold, but the amino-terminal...
Zacharias DA, Tsien RY (September 1999). "Circularpermutation and receptor insertion within green fluorescent proteins". Proceedings of the National Academy...
"ARTEM: a method for RNA tertiary motif identification with backbone permutations, and its example application to kink-turn-like motifs". bioRxiv. doi:10...
Magnus, Holst, Anders and Pentti Kanerva (2008) Permutations as a Means to Encode Order in Word Space, In Proceedings of the 30th Annual Conference of the...
location on the circular genome. This is called a cyclic permutation. The genome is especially rich in Chi sequences recognized by the bacterial recombinase...
10 consecutive cassettes were ligated and cloned in E. coli on a plasmid and the correct permutation checked by sequencing. Multiplex PCR → 100kbp: 11...
242603899. PMC 139241. PMID 12477932. Ferreira GC, Cheltsov AV (2002). "Circularpermutation of 5-aminolevulinate synthase as a tool to evaluate folding, structure...
Intramolecular Processing and Substrate Hydrolysis in the N-Terminal Nucleophile Hydrolase hASRGL1 by CircularPermutation". ACS Chemical Biology. 7 (11): 1840–1847...
Posters, IEEE Nicholson, T. A. J. (1968), "Permutation procedure for minimising the number of crossings in a network", Proceedings of the Institution...
respectively) with a new fold resulting from gene duplication and circularpermutation. The ZP module (residues P338-G581), whose ZP-N and ZP-C moieties...
Periodogram Peirce's criterion Pensim2 – an econometric model Percentage point Permutation test – redirects to Resampling (statistics) Pharmaceutical statistics...
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