[gmx-users] membrane simulations

2013-07-24 Thread Sathish Kumar
I am doing simulation of metal clusters with membranes by position restrain (with f=1000) the membrane. In this simulation the structure of metal cluster is collapsed after entering into membrane. I want to preserves its structure with out doing position restrain the metal cluster because it has

Re: [gmx-users] membrane simulations

2013-07-24 Thread Justin Lemkul
On 7/24/13 2:55 AM, Sathish Kumar wrote: I am doing simulation of metal clusters with membranes by position restrain (with f=1000) the membrane. In this simulation the structure of metal cluster is collapsed after entering into membrane. I want to preserves its structure with out doing

[gmx-users] Membrane simulations

2013-04-21 Thread Sun Moon
Dear all, I want to simulate DOPC membrane.I used the following site to find force field and topology files. http://moose.bio.ucalgary.ca/index.php?page=Structures_and_Topologies I have two questions: 1.This site design to simulate protein membrane not membrane. Should i use dopc.itp with

Re: [gmx-users] Membrane simulations

2013-04-21 Thread Justin Lemkul
On 4/21/13 10:40 AM, Sun Moon wrote: Dear all, I want to simulate DOPC membrane.I used the following site to find force field and topology files. http://moose.bio.ucalgary.ca/index.php?page=Structures_and_Topologies I have two questions: 1.This site design to simulate protein membrane not