nitu sharma wrote:
Dear all,
I am using DMPC lipid bilayer from teleman sir
website to insert my protein in this lipid bilayer .I have done this by
using command genbox. After that when I have run the command -
pdb2gmx -f tap-in-dmpc.pdb -o tap-in-dmpc.gro -p tap-in-dmpc.top -i
tap-in-dmpc-itp -ff oplsaa
Error like this-
There are 0 hydrogen bonds
Warning: 'DMP' not found in residue topology database, trying to use 'DMSO'
-------------------------------------------------------
Program pdb2gmx, VERSION 4.0.3
Source code file: pdb2gmx.c, line: 429
Fatal error:
Atom C1 in residue DMSO 1 not found in rtp entry with 10 atoms
while sorting atoms
-------------------------------------------------------
so please tell me how can I add DMP in residue topology database if
anyone has knowledge about this. And please if also u know about any
site of lipid bilayer from where i can download lipid bilayer then let
me know.
You may find some helpful information
http://wiki.gromacs.org/index.php/Membrane_Simulations and
http://wiki.gromacs.org/index.php/Errors#Residue_.27XXX.27_not_found_in_residue_topology_database
Mark
_______________________________________________
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
