Adva Suez wrote:
Hello all!
I would like to insert a molecule to a membrane system and would like to
start from a specific position of the molecule (hydrocarbon or lipid
headgroups). I tried doing that in Pymol after converting the merged gro
into pdb (using editconf) but when I saved the file in Pymol the order
of the lipids atoms got mixed up and it does not match the dppc.itp
anymore. Then it caused problems in grompp.
Do you have another way to set the position of the molecule in the
system? maybe without converting to PDB...??
You can use editconf -translate/-rotate/-center to manipulate the position of
the molecule.
-Justin
Thanks,
Adva.
--
Adva Yeheskel
Bioinformatics Unit
Rm 001, Sherman bldg.,
G.S.W. Faculty of Life Sciences
Tel-Aviv University, ISRAEL 69978
Tel: 972-3-6406840; Fax: 972-3-6405098
E-mail: sueza...@tauex.tau.ac.il <mailto:sueza...@tauex.tau.ac.il>
Web-site:
http://www.tau.ac.il/lifesci/bioinformatics.html
<http://www.tau.ac.il/lifesci/bioinformatics.html>
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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