On Sep 29, 2006, at 11:11 AM, Chris Larsen wrote: > > Is there a way to select amino acids in a protein, using jmol? > > I've been pawing at it for a while, not seeing the control, and the > jave > is very large and complex to me, a poor miserable biologist. > Perhaps there > is a way to select and shade whole stretches of protein? > > E.g. > > Load Hemagluttinin from InfluenzaA/Greece/A/1.99 pdb file > Select residues all > spacefill > shade cyan > select residues 2-15 (an immune epitope) > shade magenta >
hi Chris, I'm not exactly sure what you mean, but maybe this will help. if you want to select amino acids by number, use: select 2-15 color atoms magenta color bonds white if there is a specific chain involved, just append it: select 2-15A # or select :A and (2-15) if you want to select amino acids by name, you can: select (leu, ala, val, ile, met) # or select :A and (leu, ala, val, ile, met) hope that helps! tim -- Timothy Driscoll em: [EMAIL PROTECTED] molvisions - see. grasp. learn. ph: 919-368-2667 <http://www.molvisions.com/> im: molvisions usa:virginia:blacksburg tx: [EMAIL PROTECTED] "Ultimately, knowledge is paralyzing." ------------------------------------------------------------------------- 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 [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
