Open AccessPROF_ PAT 1.3: Updated database of patterns used to detect local similarities
Author(s) -
A. G. Bachinsky,
A S Frolov,
A. N. Naumochkin,
L. F. Nizolenko,
A. A. Yarigin
Publication year - 2000
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/16.4.358
Subject(s) - representation (politics) , similarity (geometry) , set (abstract data type) , computer science , uniprot , software , protein data bank , nearest neighbor search , protein family , protein sequencing , range (aeronautics) , construct (python library) , data mining , information retrieval , protein structure , biology , artificial intelligence , peptide sequence , genetics , programming language , biochemistry , materials science , composite material , politics , political science , law , image (mathematics) , gene
When analysing novel protein sequences, it is now essential to extend search strategies to include a range of 'secondary' databases. Pattern databases have become vital tools for identifying distant relationships in sequences, and hence for predicting protein function and structure. The main drawback of such methods is the relatively small representation of proteins in trial samples at the time of their construction. Therefore, a negative result of an amino acid sequence comparison with such a databank forces a researcher to search for similarities in the original protein banks. We developed a database of patterns constructed for groups of related proteins with maximum representation of amino acid sequences of SWISS-PROT in the groups.
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