Thank you very much Elaine Francesco Il giorno 19/mar/2013, alle ore 19:45, Elaine Meng ha scritto:
Hi Francesco, You could either just select by residue type and chain ID, for example command
select :asp.j,glu.j
... or by amino acid category, for example command
select :.j & hydrophobic
see command-line atom specification (amino acid category is one of the built-in classifications): <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html>
These same things can be done with the Actions... Select menu, see submenus "Selection Mode... append" (allows building up a selection instead of always replacing it, or intersecting, as with a specific chain), "Chain...[chain ID]", "Residue... amino acid category" and/or "Residue... [residue name]" but the menu approach is more tedious/longer than commands.
The amino acid categories have default assignments taken from a literature reference as shown here, <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/resprop/resprop.htm...> ... but you can change the assignments as you like using the ResProp tool, in menu under Tools... Structure Analysis.
I hope this helps, Elaine ---------- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco
On Mar 19, 2013, at 11:17 AM, Francesco Malatesta wrote:
Hello I would like to ask a simple question on selection. In the GroEL-GroES complex (pdb 1aon) how do you select, for example, hydrophobic or acidic residues or both in the say J chain? thank you very much Francesco Malatesta