TMalign performs a structural alignment of proteins. The alignment is scored by the TM-score algorithm.
OPTIONSWhen started with no options, a summary of commands is given. With two protein structures presented as arguments, the TM-score uses the length of the second protein to be normalised. The final structural alignment is invariant to any of the options below.
- number normalises TM-score by an assigned length (in aa)
- normalises TM-score by the average length of the two structures
- normalises TM-score by the length of the shorter of the two structures
normalises TM-score by the length of the longer of the two structures
Run TM-align and output the superposition to 'filename.sup' and 'filename.sup_all'.
The output files serve as scripts to the program
To view the superimposed structures of the aligned regions call
'rasmol -script TM.sup' To view the superimposed structures of all regions
'rasmol -script TM.sup_all'.
AUTHORtm-align was written by Zhang and Skolnick.
This manual page was written by Steffen Moeller <[email protected]>, for the Debian project (but may be used by others).