This is the command TMscore that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
TM-score - an algorithm to calculate the similarity of topologies of two protein
structures
VERSION
This documentation refers to TM-score version released on 2011/01/30
SYNOPSIS
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
DESCRIPTION
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.
OPTIONS
-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.
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