[gmx-users] DNA molecule builder compatible with gromacs amber ff
willstebbeds at hotmail.com
Tue Apr 19 19:38:19 CEST 2011
this seems like a trivial problem but has driven me crazy:
I have been trying to build a simple B-form dsDNA strand for use in MD simulations using Amber99sb. I have tried several platforms and each generates a pdb file which pdb2gmx cannot convert as it cannot understand the naming system of the other platforms.
Is there any platform that can be used to create DNA molecules with a naming system compatible with GROMACS, specifically with the Amber99sb ff?
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the gromacs.org_gmx-users