Two ways:
1 - turn them off with the visualisation software you are using, only display the protein and lipid 2 - use editconf and the appropriate index groups Catch ya, Dr. Dallas Warren Department of Pharmaceutical Biology and Pharmacology Pharmacy and Pharmaceutical Sciences, Monash University 381 Royal Parade, Parkville VIC 3010 [email protected] +61 3 9903 9167 --------------------------------- When the only tool you own is a hammer, every problem begins to resemble a nail. From: [email protected] [mailto:[email protected]] On Behalf Of nitu sharma Sent: Thursday, 11 June 2009 3:19 PM To: [email protected] Subject: [gmx-users] problem regarding removal of water from final simulation system. Dear all I have done successfully simulation of membrane protein , but after that to visualise my final model clearly I have to remove water molecules from my system (protein+lipid+water). But I have no Idea about the which command I should use to do this even it doesn't mentioned in justin,s tutorial also to make final pdb after simulation. So can anyone suggest me how to remove water form my final simulation system to make final pdb of only protein and lipid molecule? If anyone can help me I willbe really thankful for him/her. Nitu Sharma. Jawaherlal Nehru University New Delhi , India.
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