TM-score: Assessment of quality of protein structure templates and full-length model predictions
TM-score is an algorithm to calculate the similarity
of topologies of two proteins/models. It can be exploited to
quantitatively access the quality of protein structure predictions
relative to native. A single score between (0,1] is assigned to
each comparison. Based on statistics, if a template/model has a
TM-score around or below 0.17, it means the prediction is nothing
more than a random selection from PDB library.
What is the difference between TM-score and TM-align?
The TM-score program is to comparing two models based on their given and
known residue equivalency. It is usually NOT applied to compare
two proteins of different sequences.
The TM-align is a structural alignment program for comparing two proteins
whose sequences can be different. The TM-align will first find the
best equivalent residues of two proteins based on the structure similarity
and then output a TM-score.
The TM-score values in both programs have the same definition.
TM-score program will be made available online soon. Thanks for the patience!!
Click here to download the executable program for Linux system.
Simply running the program itself will give you a brief instruction of how to use it.
Click here to download the source of the entire program coded in Fortran77, which you can compile in your computer.
Click here to download the subroutine code that can quickly calculate TM-score and be conveniently included as a subroutine in any Fortran program.
References:
Y. Zhang, J. Skolnick, Scoring function for automated assessment of
protein structure template quality, Proteins, 2004 57: 702-710 (download the PDF file).