NAME¶
TMalign - protein structure alignment
SYNOPSIS¶
TMalign structure.pdb
target.pdb[
options]
DESCRIPTION¶
TMalign performs a structural alignment of proteins. The alignment is scored by
the TM-score algorithm.
OPTIONS¶
When 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.
- -L
- number normalises TM-score by an assigned length (in
aa)
- -a
- normalises TM-score by the average length of the two
structures
- -b
- normalises TM-score by the length of the shorter of the two
structures
- -c
- normalises TM-score by the length of the longer of the two
structures
- -o
- filename Run TM-align and output the superposition
to 'filename.sup' and 'filename.sup_all'. The output files serve as
scripts to the program rasmol. 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'.
SEE ALSO¶
http://zhang.bioinformatics.ku.edu/TM-align/, rasmol(1)
When using this proram and for more detailed information, please refer to the
publication in
NucleicAcids
Res. (2005) Volume 33 page 2303ff. by
Zhang and Skolnick.
AUTHOR¶
tm-align was written by Zhang and Skolnick.
This manual page was written by Steffen Moeller <moeller@debian.org>, for
the Debian project (but may be used by others).
