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Accurately assigning folds for divergent protein sequences is a major obstacle to structural studies. Herein, we outline an effective method for fold recognition using sets of PSSMs, each of which is constructed for different protein folds. Our analyses demonstrate that FSL (Fold-specific Position Specific Scoring Matrix Libraries) can predict/relate structures given only their amino acid sequences of highly divergent proteins. This ability to detect distant relationships is dependent ondoi:10.1371/journal.pone.0020557 pmid:21698189 pmcid:PMC3116844 fatcat:3jeaq7ecjffhjaxkbx6lsva5na