Hi all, I have a trimer membrane protein structure & an artificial Argon grid membrane (100x100x30Å).
First I wonder whether you should equilibrate the membrane first (it looks very un-natural, like a perfect grid...) and then physically remove atoms where I want to have my protein, then run: genbox -cp protein.gro -cs membrane.gro if I just run it as it is, I get: Checking Protein-Solvent overlap: tested 1512 pairs, removed 9261 atoms. I feel I'm getting there, but need some advice to come to the point where I have my trimer in a "relaxed" membrane... Thanks / Magnus -- Magnus Andersson Chalmers University of Technology Dept of Chemistry and Biological Engineering Email: [EMAIL PROTECTED] Homepage: http://www.csb.gu.se/neutze/ Phone: +46 (0)31-786 3917 Fax: +46 (0)31-786 3910 Lundberg Laboratory Medicinaregatan 9e SE-413 90 Göteborg Sweden _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
