Conservation, Evolutionary: Difference between revisions
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===ConSurf-DB Often Obscures Some Functional Sites=== | ===ConSurf-DB Often Obscures Some Functional Sites=== | ||
Proteopedia's ''Evolutionary Conservation'' scenes use pre-calculated results from [[ | Proteopedia's ''Evolutionary Conservation'' scenes use pre-calculated results from [[ConSurfDB vs. ConSurf|ConSurf-DB]]. ConSurf-DB is designed to include a wide range of sequences in its multiple-sequence alignments (MSA) and analyses. Often, the MSA will a include substantial number of sequences for proteins with '''different functions''' than the query protein. (See [[ConSurfDB_vs._ConSurf#Examining_Functions_of_Proteins_in_ConSurf-DB.27s_MSA|these instructions]] for how to find out the functions of the proteins used in ConSurf-DB's MSA.) Consequently, amino acids that are colored as highly conserved by ConSurf-DB are truly highly conserved across a wide range of sequence-similar proteins. However, amino acids that are '''highly conserved in proteins with the same function''' as the query protein '''may not appear conserved''' in ConSurf-DB results. A good way to find these obscured functional sites is to do a conservation analysis that is limited to proteins of a single function. | ||
[[#Limiting | See [[ConSurfDB_vs._ConSurf#Limiting_ConSurf_Analysis_to_Proteins_of_a_Single_Function|Limiting ConSurf Analysis to Proteins of a Single Function]]. | ||
===Use Caution When Comparing Conservation of Sequence-Different Chains=== | ===Use Caution When Comparing Conservation of Sequence-Different Chains=== | ||
