Frieda Reichsman wrote: > None of Jmol's smooth-style backbone representations (cartoon, trace, > ribbon, etc.) is a trace of the alpha carbons of a protein. Would it > be possible to add to Jmol a smooth representation that follows that > alpha carbons quite faithfully?
It would be somewhat involved. For the reason that....? > > In the Jmol scripting documentation, the descriptions of how the > smoothed representations relate to the backbone are different and > should probably be standardized. 'Ribbons' is clearly incorrect in saying: > "Ribbons offer a representation the protein backbone or nucleic acid > helix using a flat band that smoothly traces the midpoints of adjacent > alpha carbon atoms..." > > In contrast, 'trace' reads: > "A "trace" is a smooth curve through the center of the carbonyl > carbon-alpha carbon bonds of a peptide or the ribose 1-O-P bond. " > > Is that the correct description? > no -- the first should read "through the center of the nitrogen - carbonyl carbon bonds of a peptide" I don't know exactly what the second should read. > Frieda > > > /////////////////////////////////////////// > > > Frieda Reichsman, PhD > > Molecules in Motion > > Interactive Molecular Structures > > http://www.moleculesinmotion.com > > > /////////////////////////////////////////// > > > >------------------------------------------------------------------------ > >------------------------------------------------------------------------- >Take Surveys. Earn Cash. Influence the Future of IT >Join SourceForge.net's Techsay panel and you'll get the chance to share your >opinions on IT & business topics through brief surveys -- and earn cash >http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV > >------------------------------------------------------------------------ > >_______________________________________________ >Jmol-users mailing list >Jmol-users@lists.sourceforge.net >https://lists.sourceforge.net/lists/listinfo/jmol-users > > ------------------------------------------------------------------------- Take Surveys. Earn Cash. Influence the Future of IT Join SourceForge.net's Techsay panel and you'll get the chance to share your opinions on IT & business topics through brief surveys -- and earn cash http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV _______________________________________________ Jmol-users mailing list Jmol-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/jmol-users
