[gmx-users] Nucleic acid simulation
schlesi at uni-mainz.de
Wed Jul 4 17:14:59 CEST 2012
Heard that RNA/DNA system could be a little trickier than proteins due
to the many negative charges.
I found somewhen a nice article about RNA simulations in general.
Probably some questions you have / will have are answered there:
A short guide for molecular dynamics simulations of RNA systems
Yaser Hashem, Pascal Auffinger
Methods 47 (2009) 187–197
Am 04.07.2012 16:52, schrieb gmx-users-request at gromacs.org:
> On 7/4/12 6:45 AM, Ravi Raja Merugu wrote:
>> > Hello every one,
>> > Im interesting in performing a MD for Protein - RNA complex , Can any
>> > one suggest a good tutorial.
> Such systems do not differ significantly from simulations of simple proteins in
> water, since pdb2gmx can produce topologies for both proteins and nucleic acids.
> The remaining workflow is basically the same.
More information about the gromacs.org_gmx-users