[gmx-users] REg MD results

[Parul Raj Srivastava]

Dear Sir,

On analysing each chain separately,though the rmsd is stable but the rmsf
is not beginning from the origin and suddenly rising from the centre of
falling off towards the end.

Regards,
Parul Raj Srivastava,
M.Tech.Computational Biology,
Anna University,Chennai-600025

On Sun, Jan 8, 2017 at 1:44 AM, Justin Lemkul <jalemkul at vt.edu> wrote:

>
>
> On 1/7/17 5:14 AM, Parul Raj Srivastava wrote:
>
>> I have given an MD run for a quaternary protein structure by taking 2
>> chains at a time for the MD run.The rmsf graph so obtained is showing
>> erratic behaviour,please find attached graph.Is this result justified or
>> incorrect??
>>
>>
> The list does not accept attachments.  If you want to share an image,
> upload it to a file-sharing service and provide a link.
>
> Often it is just easier to create index groups for each chain and analyze
> them separately.  This eliminates most confusion associated with
> residue-specific analyses like RMSF.
>
> -Justin
>
> --
> ==================================================
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> Justin A. Lemkul, Ph.D.
> Ruth L. Kirschstein NRSA Postdoctoral Fellow
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> jalemkul at outerbanks.umaryland.edu | (410) 706-7441
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