Dear Bob, In Jmol 11.8, ssbonds inherited the color of cys.sg atoms, even when "set ssbonds backbone". Thus, in FirstGlance in Jmol, I could color the backbone-connecting ssbonds by coloring the cys.sg:
select all ssbonds 1.0 select cys.sg color ssbonds none color [xffff30] # or "color chain" set ssbonds backbone However in Jmol 12, the ssbonds inherit the cys.sg color only when "set ssbonds sidechain", not when "set ssbonds backbone". In Jmol 12, backbone-ssbonds inherit the color of cys.ca. Was this change intentional? I can change the code in FirstGlance but before doing that I wanted find out if the change was unintentional and hence will be changed back to the old behavior. Personally I prefer the old behavior: since ssbonds represent bonds between cys.sg, I think it makes sense for them to inherit the color of cys.sg even when they are represented as connecting backbones. Thanks, -Eric ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
