title: [Verification of the PREFAB alignment database].
abstract: The verification of the PREFAB database containing golden standard protein alignments was performed. It has revealed a significant number of differences between the sequences from PREFAB and PDB databases. It was shown that compared to the sequences given in the PDB database 575 alignments refered to a sequence with a gap; such alignments were excluded. Furthermore, compared to the PDB-sequences a single substitute or the insertions were found for 440 aminoacid sequences from PREFAB database; these sequences were edited. SCOP domain analysis has shown that only 502 alignments in the resulting set contain the sequences from the same family. Finally, eliminating duplicates, we have created a new golden standard alignment database PREFAB-P based on PREFAB; the PREFAB-P database contains 581 alignments.
authors.forename: T V
authors.initials: TV
authors.lastname: Astakhova
authors.forename: M N
authors.initials: MN
authors.lastname: Lobanov
authors.forename: I V
authors.initials: IV
authors.lastname: Poverennaia
authors.forename: M A
authors.initials: MA
authors.lastname: Roĭtberg
authors.forename: V V
authors.initials: VV
authors.lastname: Iakovlev
mesh_terms: D030562:Databases, Protein / Q000592:standards*; D016415:Sequence Alignment / Q000379:methods* / Q000592:standards; D020539:Sequence Analysis, Protein / Q000379:methods* / Q000592:standards