Provided by: tm-align_20170708+dfsg-2_amd64 bug


       TM-score - an algorithm to calculate the similarity of topologies of two protein


       This documentation refers to TM-score version released on 2011/01/30


       1. Run TM-score to compare 'model' and 'native':

           TMscore model native

       2. Run TM-score with an assigned d0, e.g. 5 Angstroms:

           TMscore model native -d 5

       3. Run TM-score with superposition output, e.g. 'TM.sup', and view in Rasmol:

           TMscore model native -o TM.sup
           rasmol -script TM.sup


       This program is to compare two protein structures and identify the best superposition that
       has the highest TM-score. Input structures must be in the PDB format. By default, TM-score
       is normalized by the second protein. Users can obtain a brief instruction by simply
       running the program without arguments.


           -o filename.sup Outputs the superposition to the specified file,
              suitable for use in rasmol.

           -d value Sets d0 to the specified number of angstroms.


       TMalign, rasmol

       When  using  this proram and for more detailed information, please refer to the
       publication in NucleicAcidsRes.  (2005) Volume 33 page 2303ff. by Zhang and Skolnick.


       For comments/suggestions,please contact email:

       This manpage was compiled by Tim Booth (

.                                           2011-02-03                                 TMSCORE(1)