Matching segments

Levitt M1992. Accurate Modeling of Protein Conformation by Automatic Segment Matching. Journal of Molecular Biology 226 507-533. 

M Levitt. Accurate modeling of protein conformation by automatic segment matching. J Mol Biol 226 507-533, 1992. 

The final round scores from iterative profile methods do not reflect the real significance of the match to the query sequence. The significance says how likely the protein segment matches to the profile constructed in the previous round. For example, if a false-positive match with an E... 

Levitt [177] Segmod module in Look Segment matching to PDB ENCAD force field, including vdW + Hbonds... 

Wendoloski, Salemme [318] Borrowed from similar backbone segments of 5-9 aa in PDB Simple bump check Placed in order of highest probability first according to segment matching + steric checks 3 self-bb proteins 59, 53, 70% xi 54, 39, 59% xi... 

Automatic Segment Matching. Available http //www.bioinformatics.ucla.edu/ genemine/. 

The pvT data generated by Eq. (3) was used to determine the SS-EOS scaling parameters for PS that yield the best pvT fit. As required by the SS-EOS theory, the polymer segment sizes were adjusted so that the molar repulsion volumes of the polymer segments match those of the gas molecules [28]. The scaling parameters for each component are listed in Table 1. 

---