No, it does NOT!
HAve you red the paper?!
This implementation is an adoc representation to mimic specific
sequences of short peptides! They do never for any secondary structure!
On Oct 10, 2012, at 3:05 PM, francesco oteri wrote:
Hi rama,
actually MARTINI has been further improved to allow secondary
structure
change.
The title is:
*"Improving Internal Peptide Dynamics in the Coarse-Grained MARTINI
Model:
Toward Large-Scale Simulations of Amyloid- and Elastin-like Peptides"*
and here there is a link to the paper:
http://dx.doi.org/10.1021/ct200876v
Francesco
2012/10/10 XAvier Periole <[email protected]>
Nope, but on other softwares.
On Oct 10, 2012, at 2:50 PM, rama david wrote:
Thank you for your reply,
Are these Cg can be used in Gromacs.
Thank you in advance.
With best wishes and regards,
Rama david
On Wed, Oct 10, 2012 at 6:13 PM, XAvier Periole <[email protected]>
wrote:
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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Cordiali saluti, Dr.Oteri Francesco
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