Miguel sent (2004.05.19 at 9.24a [+0200gmt]) : >Bob wrote: > >>>Q: These are for proteins. Shouldn't there be another color (or >>>set of colors) for nucleotide chains? What color should nucleotide >>>hbonds be? >>> >>Chime delivers these as yellow, which is appropriate, because they >>are BETWEEN chains, thus have no significant "offset." > >It doesn't seem right to me that hbonds between chains are the same >color as hbonds within a chain (like beta-sheets). > why not?
>It also seems to me that sidechain hbonds should be different from >mainchain hbonds. > it's kind of like saying covalent bonds are different - they are, but we generally treat them as a group anyway. it would be very useful to have a way to access different sub-categories of hydrogen bonds, though: select hbonds interchain select hbonds sidechain select hbonds mainchain but I think the default should be to color all hbonds white, inheriting the CPK color for hydrogen. and there should be no code-level distinction between protein and nucleic hydrogen bonds - one can easily build selections to tweak those apart. IMO of course :-) KIS (keep it simple). 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
