Conservation, Evolutionary: Difference between revisions
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===siteFiNDER|3D=== | ===siteFiNDER|3D=== | ||
In 2024, the siteFiNDER 3D Server, formerly at Yale University, appears to be unavailable. <!-- | |||
[http://sitefinder3d.mbb.yale.edu/ siteFiNDER|3D] performs ''conserved functional group'' (CFG) analysis. "CFG Analysis is a general method for predicting the location of functionally important sites within a target protein structure. Like other available structure/sequence analysis techniques, CFG Analysis exploits the evolutionary relationships present across groups of homologous proteins to identify regions that are likely to be of functional significance. However, this technique is particularly useful for situations where other methods fail, for instance when only a few or highly similar homologues can be identified." As its name implies, CFG analysis attempts to identify groups of conserved amino acids that together represent a functional site. In this respect, it goes beyond most other evolutionary conservation servers, which stop at assigning a conservation value to each amino acid. See the [http://consurfdb.tau.ac.il/comparison.php comparison of siteFiNDER|3D with ConSurf for cytochrome c]. | [http://sitefinder3d.mbb.yale.edu/ siteFiNDER|3D] performs ''conserved functional group'' (CFG) analysis. "CFG Analysis is a general method for predicting the location of functionally important sites within a target protein structure. Like other available structure/sequence analysis techniques, CFG Analysis exploits the evolutionary relationships present across groups of homologous proteins to identify regions that are likely to be of functional significance. However, this technique is particularly useful for situations where other methods fail, for instance when only a few or highly similar homologues can be identified." As its name implies, CFG analysis attempts to identify groups of conserved amino acids that together represent a functional site. In this respect, it goes beyond most other evolutionary conservation servers, which stop at assigning a conservation value to each amino acid. See the [http://consurfdb.tau.ac.il/comparison.php comparison of siteFiNDER|3D with ConSurf for cytochrome c]. | ||
This site provides links to several other software packages that predict functional sites, some of which are not further discussed in the present article. | This site provides links to several other software packages that predict functional sites, some of which are not further discussed in the present article. --> | ||
===HotPatch=== | ===HotPatch=== | ||