tm-score

TM-score is a metric for assessing the topological similarity of protein structures. It is designed to solve two major problems in traditional metrics such as root-mean-square deviation (RMSD): (1) TM-score weights smaller distance errors stronger than larger distance errors and makes the score value more sensitive to the global fold similarity than to the local structural variations. (2) TM-score introduces a length-dependent scale to normalize the distance errors and makes the magnitude of TM-score length-independent for random structure pairs. TM-score has the value in (0,1], where 1 indicates a perfect match between two structures. (Summary from the program web page.)

The official web page: https://zhanggroup.org/TM-score/

Usage:

$ module add tm-score
$ tm-score structure1.pdb structure2.pdb