The Debian-Med software list mentions textopo as a LaTeX extension to display the topology of transmembrane proteins.
An ITP is still pending, otherwise the package is ready for an upload to the main distribution from my point of view. Is anybody of you familiar with Debian standards for TeX and would sponsor me? The package is at http://bioinformatics.pzr.uni-rostock.de/~moeller/debian/textopo/ Cheers, Steffen >From http://homepages.uni-tuebingen.de/beitz/tte.html: PHD topology predictions are a mighty tool to localize transmembrane domains and the protruding loops. SwissProt database files provide sequence feature informations, such as mutation sites, important domains, or secondary modifications. Making these data visible in a sophisticated topology plot is an enormous effort when using a standard drawing software. TeXtopo is a LaTeX2e macro package that provides two new environments: (a) the 'textopo' environment is used for plotting topology data of membrane proteins derived from PHD predictions, from SwissProt database files or from manually entered data containing sequence and transmembrane domain information, and (b) the 'helical wheel' environment draws transmembrane domains as seen from above or beneath the cell membrane. Both kinds of plots can be richly decorated with special shading for domains of interest, plus labels and legends. TeXtopo is fully compatible with TeXshade (v1.3 and up) -- the comprehensive alignment shading package for the TeX community. This allows one to apply calculated shading based on sequence conservation and functional aspects of the residue sidechains. -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of "unsubscribe". Trouble? Contact [EMAIL PROTECTED]
