Transmembrane prediction

Joe Ryan jfryan at NHGRI.NIH.GOV
Wed Dec 1 16:41:18 EST 1999


> I'm looking for a transmembrane prediction program, the source code
> should be free available for academic use. I've to install the program
> on site for large scale use so I can't use a web-service. I've already
> tried MEMSAT and TOPPRED2. Both programs seem to overpredict
> transmembrane helices in some sequences.

This is from an old post to this group.

:> I am looking for software that can predict transmembrane domains in
:> proteins.
:
:Here is a list in no particular order:
:                        
:TMPRED:        http://www.ch.embnet.org/software/TMPRED_form.html
:TopPred2:      http://www.biokemi.su.se/~server/toppred2/
:DAS:            http://www.biokemi.su.se/~server/DAS/
:SOSUI:          http://www.tuat.ac.jp/~mitaku/adv_sosui/
:TMHMM:          http://www.cbs.dtu.dk/services/TMHMM-1.0/
:HMMTOP:        http://www.enzim.hu/hmmtop/
:PredictProtein: http://www.embl-heidelberg.de/predictprotein/
:PSIpred:        http://globin.bio.warwick.ac.uk/psipred/
:                        
:TMBASE: http://www.ch.embnet.org/software/tmbase/TMBASE_doc.html
:(TMBASE is A Database of Membrane Spanning Protein Segments)
:                        
:Love,
:  Joe
:--
:Joseph Ryan
:Programmer
:National Human Genome Research Institute






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