PMID:8014990
| Citation |
Neuwald, AF and Green, P (1994) Detecting patterns in protein sequences. J. Mol. Biol. 239:698-712 |
|---|---|
| Abstract |
The detection of conserved sequence patterns (motifs) in related proteins often yields valuable structural and functional insights. We describe a method that utilizes rigorous statistics and a depth-first search procedure to efficiently and exhaustively search a set of proteins for significant patterns up to a specified length. Additional procedures classify related patterns into groups and identify protein segments most likely to share a common motif. The utility of the method was demonstrated on several difficult test problems; detection of motifs among 56 proteins in the acyltransferase family, detection of a dinucleotide-binding fold present within a small subset of a set of 91 distantly related and unrelated proteins, detection of the helix-turn-helix motif in 15 distantly related proteins and detection of subtle internal repeats in a prenyltransferase. In a search of a large set of sequences for internal repeats, the method detected novel ankyrin-like repeats in an Escherichia coli protein. |
| Links |
PubMed Online version:10.1006/jmbi.1994.1407 |
| Keywords |
Acetyltransferases/chemistry; Algorithms; Amino Acid Sequence; Conserved Sequence; Molecular Sequence Data; Pattern Recognition, Automated; Sequence Alignment; Statistics as Topic |
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