tm-align - structual alignment of proteins

Property Value
Distribution Debian 7 (Wheezy)
Repository Debian Main i386
Package name tm-align
Package version 20120507
Package release 1
Package architecture i386
Package type deb
Installed size 503 B
Download size 48.74 KB
Official Mirror
TM-align is a computer algorithm for protein structure alignment using
dynamic programming. The scoring is performed by the TM-score rotation
matrix. This is similar to the RMSD in that unaligned portions of the
structure influence the scoring less than the more structurally conserved


Package Version Architecture Repository
tm-align_20120507-1_amd64.deb 20120507 amd64 Debian Main
tm-align - - -


Name Value
libc6 >= 2.0
libgcc1 >= 1:4.1.1
libgfortran3 >= 4.6
libquadmath0 >= 4.6


Type URL
Binary Package tm-align_20120507-1_i386.deb
Source Package tm-align

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install tm-align deb package:
    # sudo apt-get install tm-align




2012-06-29 - Andreas Tille <>
tm-align (20120507-1) unstable; urgency=low
* New upstream version
* debian/rules: Add hardening options
2012-03-08 - Andreas Tille <>
tm-align (20120124-1) unstable; urgency=low
[ Charles Plessy ]
* debian/upstream: renamed from upstream-metadata.yaml
[ Andreas Tille ]
* New upstream version
* debian/upstream:
- Fixed typo (s/TITILE/TITLE/)
- Moved DOI+PMID to references
* debian/control: Standards-Version: 3.9.3 (no changes needed)
* debhelper 9 (control+compat)
* debian/changelog: DEP5 verified using
cme fix dpkg-copyright
2011-10-21 - Andreas Tille <>
tm-align (20111012-1) unstable; urgency=low
* New upstream release
* Enhances t-coffee
* Standards-Version: 3.9.2 (no changes needed)
* Debhelper 8 (control + compat)
* Fixed Vcs fields
2011-02-05 - Steffen Moeller <>
tm-align (20110130-2) unstable; urgency=low
* New upstream version (Closes: #447505)
- 2011/01/30: An open source license is attached to the program
* Reverting changelog to keep the history.
2011-01-30 - Andreas Tille <>
tm-align (20110130-1) UNRELEASED; urgency=low
* Initial release.
2011-01-30 - Tim Booth <>
tm-align (20110124-1) UNRELEASED; urgency=low
* New upstream version
- 2005/06/01: A small bug of two-point superposition was fixed.
- 2005/10/19: the program was reformed so that the alignment results
are not dependent on the specific compilers.
- 2006/06/20: select 'A' if there is altLoc when reading PDB file.
- 2007/02/27: rotation matrix from Chain-1 to Chain-2 was added.
- 2007/04/18: added options with TM-score normalized by average
length, shorter length, or longer length of two
- 2007/05/23: added additional output file 'TM.sup_all' for showing
all atoms while 'TM.sup' is only for aligned atoms
- 2007/09/19: added a new feature alignment to deal with the problem
of aligning fractional structures (e.g. protein
- 2007/10/16: A bug for irregular bond-length models was fixed.
- 2009/03/14: A new initial alignment was added and previous initial
alignments are further enhanced. This change increased
accuracy by 4% but increases CPU cost by 40%.
- 2009/08/20: A bug for asymmetry alignment result was fixed.
- 2010/08/02: A new RMSD matrix was used to remove obsolete
statements. Staled subroutines were deleted.
- 2011/01/03: The length of pdb file names were extended to 500
- 2011/01/24: Fixed a bug on output file name created on 2011/01/03 
* Tweaked get-orig-source in rules to spot version in upstream file
* New standards version 3.9.4
2008-02-06 - David Paleino <>
tm-align (20050601-2) UNRELEASED; urgency=low
* Updated to Standards-Version 3.7.3 (no changes needed)
2007-10-21 - Steffen Moeller <>
tm-align (20050601-1) UNRELEASED; urgency=low
* Initial packaging.

See Also

Package Description
tmake_1.8-1.1_i386.deb a cross-platform makefile tool
tmexpand_0.1.2.0-3_all.deb text-macro processing script to create HTML and SGML documents
tmispell-voikko_0.7.1-3_i386.deb Ispell wrapper which uses Voikko for spell-checking
tmpreaper_1.6.13+nmu1_i386.deb cleans up files in directories based on their age
tmux_1.6-2_i386.deb terminal multiplexer
tmw-music_0.3-3_all.deb The Mana World is a 2D MMORPG (music files)
tmw_20110911-3_all.deb The Mana World is a 2D MMORPG
tnat64_0.05-1_i386.deb IPv4 to NAT64 redirector
tnef_1.4.9-1_i386.deb Tool to unpack MIME application/ms-tnef attachments
tnftp_20100108-3_i386.deb enhanced ftp client
tntdb-mysql3_1.2-2+b1_i386.deb MySQL backend for tntdb database access library
tntdb-postgresql3_1.2-2+b1_i386.deb PostgreSQL backend for tntdb database access library
tntdb-sqlite3_1.2-2+b1_i386.deb SQLite backend for tntdb database access library
tntnet-demos_2.1-2+deb7u1_i386.deb demo web applications for Tntnet
tntnet-doc_2.1-2+deb7u1_all.deb documentation for Tntnet