PseqIP: a nonredundant and exhaustive protein sequence data bank generated from 4 major existing collections |
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Authors: | J M Claverie L Bricault |
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Institution: | Computer Science Unit, Institut Pasteur, Paris, France. |
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Abstract: | Four major protein sequence data collections (NBRF-PIR, PSD-Kyoto, PGtrans, and NEWAT) have been merged into a single nonredundant data bank called PseqIP. The data bank entries were automatically matched by a heuristic computer program relying on the fast computation of the number of tetrapeptides shared by two sequences. PseqIP 1.0 includes 6,068 different protein sequences for a total of 1,357,067 residues, representing most of the available sequence information to date. During the course of this work, we found about 600 occurrences of a protein sequence recorded with a one-amino-acid variation in at least two different data banks. A flat file (ASCII computer-readable format) version of PseqIP 1.0, well-suited for exhaustive homology searches and statistical sequence analysis, is available from our laboratory. |
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Keywords: | computerized data bank sequence comparison heuristics databank access data bank merging |
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