Miguel sent (2004.05.11 at 6.15p [+0200gmt]) : >Eric & Tim, > >I am starting to work on the graphic shapes for nucleotide chains. >Backbone and Trace are partially working. > cool.
>The color scheme 'structure' defines colors for >helix/sheet/turn/random segments of amino acid polymers. We can say: > >load samples/pdb/1crn.pdb >trace on >color trace structure > >However, if we try this on 1D66, we see that the DNA strands are >colored white ... the same as random turns. > yes, that is Chime/Rasmol compatible behavior. >It seems to me that this color scheme should be extended to provide >special colors for DNA and RNA. > a good idea, but somewhat more difficult... > >Q: Should we use the Dark Purple and Maroon colors that you defined >for DNA & RNA as part of the DRuMS color scheme? > the DRuMS schemes do not color nucleic acids by structure, only by identity. I don't know how to determine the structure of nucleic acids, analagous to the DSSP algorthims for defining protein secondary structure. maybe such an algorithm exists - can anyone else comment on this? regards, tim -- Timothy Driscoll molvisions - see, grasp, learn. <http://www.molvisions.com/> usa:north carolina:wake forest ------------------------------------------------------- This SF.Net email is sponsored by: SourceForge.net Broadband Sign-up now for SourceForge Broadband and get the fastest 6.0/768 connection for only $19.95/mo for the first 3 months! http://ads.osdn.com/?ad_id%62&alloc_ida84&op=click _______________________________________________ Jmol-developers mailing list [EMAIL PROTECTED] https://lists.sourceforge.net/lists/listinfo/jmol-developers
