A large number of PROSITE patterns select false positives and/or miss known true positives. It is possible that--at least in some cases--the weak specificity and/or sensitivity of a pattern is due to the fact that one, or maybe more, functional and/or structural key residues are not represented in the pattern. Multiple sequence alignments are commonly used to build functional sequence patterns. If residues structurally conserved in proteins sharing a function cannot be aligned in a multiple sequence alignment, they are likely to be missed in a standard pattern construction procedure.
Via, A., HELMER CITTERICH, M. (2004). A structural study for the optimisation of functional motifs encoded in protein sequences. BMC BIOINFORMATICS, 5, 50 [10.1186/1471-2105-5-50].
A structural study for the optimisation of functional motifs encoded in protein sequences
HELMER CITTERICH, MANUELA
2004-04-30
Abstract
A large number of PROSITE patterns select false positives and/or miss known true positives. It is possible that--at least in some cases--the weak specificity and/or sensitivity of a pattern is due to the fact that one, or maybe more, functional and/or structural key residues are not represented in the pattern. Multiple sequence alignments are commonly used to build functional sequence patterns. If residues structurally conserved in proteins sharing a function cannot be aligned in a multiple sequence alignment, they are likely to be missed in a standard pattern construction procedure.File | Dimensione | Formato | |
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