1 <?xml version="1.0" encoding="UTF-8"?>
2 <!DOCTYPE pkgmetadata SYSTEM "https://www.gentoo.org/dtd/metadata.dtd">
4 <herd>sci-chemistry</herd>
6 <email>jlec@gentoo.org</email>
9 TM-align is a computer algorithm for protein structure alignment using dynamic
10 programming and TM-score rotation matrix. An optimal alignment between two
11 proteins, as well as the TM-score, will be reported for each comparison. The
12 value of TM-score lies in (0,1]. In general, a comparison of TM-score smaller
13 0.2 indicates that there is no similarity between two structures; a TM-score
14 greater 0.5 means the structures share the same fold.
16 What is the difference between TM-score and TM-align? The TM-score program
17 is to compare two models based on their given and known residue equivalency.
18 It is usually NOT applied to compare two proteins of different sequences. The
19 TM-align is a structural alignment program for comparing two proteins whose
20 sequences can be different. The TM-align will first find the best equivalent
21 residues of two proteins based on the structure similarity and then output a
22 TM-score. The TM-score values in both programs have the same definition.