SEGMER is a segmental threading algorithm designed to recoginzing substructure motifs from the Protein Data Bank (PDB) library. It first splits target sequences into segments which consists of 2-4 consecutive or non-consecutive secondary structure elements (alpha-helix, beta-strand). The sequence segments are then threaded through the PDB to identify conserved substructures. It often identifies better conserved structure motifs than the whole-chain threading methods, especially when there is no similar global fold existing in the PDB.

Cut and paste your sequence here (in FASTA format):

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  • The SEGMER program is downloadable at the download page.

    Reference:
    S. Wu, Y. Zhang. SEGMER:identifying protein sub-structural similarity by segmental threading. Structure, 2010 18: 858-867 (download the PDF file).
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