Conservation, Evolutionary: Difference between revisions
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==Locating Conserved Patches== | ==Locating Conserved Patches== | ||
Patches of highly conserved amino acid residues on the surface of a protein molecular structure are good candidates for [[Site | functional sites]]. Nearly every article in Proteopedia that is '''titled with a [[PDB code]]''' has an ''Evolutionary Conservation'' section below the molecular scene. (Results could not be obtained for a small | Patches of highly conserved amino acid residues on the surface of a protein molecular structure are good candidates for [[Site | functional sites]]. Nearly every article in Proteopedia that is '''titled with a [[PDB code]]''' has an ''Evolutionary Conservation'' section below the molecular scene. (Results could not be obtained for a small | ||
percentage -- see [[#ConSurf- | percentage -- see [[ConSurfDB_vs._ConSurf#ConSurf-DB_Process]].) Clicking '''show''' in the blue ''Evolutionary Conservation'' bar automatically colors all chains in the molecule by evolutionary conservation as calculated by ConSurf-DB. | ||
Briefly, ConSurf-DB gathers sequences similar to that of the protein in question, then constructs a multiple sequence alignment, and analyses it for sequence positions that are conserved (have lower than average differences between sequences) and that are variable (have higher than average differences between sequences). Each amino acid is assigned a conservation score and corresponding color in Proteopedia's interactive 3D molecular scene. | Briefly, ConSurf-DB gathers sequences similar to that of the protein in question, then constructs a multiple sequence alignment, and analyses it for sequence positions that are conserved (have lower than average differences between sequences) and that are variable (have higher than average differences between sequences). Each amino acid is assigned a conservation score and corresponding color in Proteopedia's interactive 3D molecular scene. | ||