Martini FF cannot model changes in secondary structure ... other CG FF
can. You'll find them easily in the literature. Notably the ones from
Deserno or Derreumaux.
On Oct 10, 2012, at 2:03 PM, rama david wrote:
Hi friends,
I planed to use the martini force-field for my simulation study of
peptide.
The peptides are initially alpha-helix in nature. As they come
together
they formed amyloid fibre( Antiparallel Beta structure).
Is it is possible to study the secondary structure backbone study by
martini force field.????
I read in there tutorial that the Secondary structure is predefined
therefore they are statics through out the simulation.
Conformational changes that produces changes in Sec structure are
out of
scope in martini. only tertiary structure are free defined to
change..
So what to do ???
How to use Martini FF to study secondary structure ???
Is there any way to use coarse grained FF to use for study in Sec.
structure???
With Best wishes and regards,
Rama David
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