[gmx-users] help regarding building topology of Lanitibiotics (small natural peptides)

[bipin singh]

You may follow the following article for some help:

http://pubs.acs.org/doi/abs/10.1021/sb400168u


On Fri, Mar 28, 2014 at 7:16 PM, chetan kumar meena <
chetan.shadowkillermeena at gmail.com> wrote:

> try prodrug for small molecule for topology generation.
>
>
> On Fri, Mar 28, 2014 at 3:03 PM, Gaurav Saraf IDD M Tech Biochem. Engg, IIT
> (BHU) <gaurav.saraf.bce09 at itbhu.ac.in> wrote:
>
> > Respected Sir/Ma'am
> >
> > I am new to the field of simulations and want to perform
> > protein-peptide simulations. I am facing troubles with building the
> > topology for my peptides as they contain various modified amino acids
> > which the rtp does not recognise.
> >
> > Attachments: one of the pdb file of a lantibiotic (2KTO is the RCSB code)
> >
> > Thanking you,
> >
> >
> > Yours sincerely,
> > Gaurav
> > School of Biochemical Engineering.
> > Indian Insitute of Technology (BHU), Varanasi.
> > India.
> >
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>
>
> --
> Regards
> Chetan Kumar Meena
> Ph.D. Bioinformatics
> Pondicherry University
> R28448
> PUDUCHERRY
> Pin:605014
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-- 



*--------------------Thanks and Regards,Bipin Singh*