PEP is a database of Predictions for Entire Proteomes, produced by the Rost Group, at Columbia University, New York. PEP sequences are ORFs (open reading frames). We have also predicted putative structural domains (self-sufficient folding units), or fragments, within the ORFs. Collectively these fragments have been analysed for the same features, i.e. protein homologs and secondary structure features. The fragments's results are available as a database we have called CHOP. The fragments have also been clustered using PSI-BLAST using an all versus all comparison. The clusters are available as a database CLUP.
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