[gmx-users] ramachandran plot

zaved at tezu.ernet.in zaved at tezu.ernet.in
Fri Jan 11 08:42:57 CET 2019


> Message: 4
> Date: Wed, 9 Jan 2019 11:59:31 +0100
> From: Tamas Hegedus <tamas at hegelab.org>
> To: gromacs.org_gmx-users at maillist.sys.kth.se
> Subject: Re: [gmx-users] ramachandran plot
> Message-ID: <563a0c65-532e-a47d-fdf7-5046a062ca00 at hegelab.org>
> Content-Type: text/plain; charset=utf-8; format=flowed

Hi Tamas

Thank you so much for your suggestion. I will check that. Just to know one
more thing, is there any program to know only number of residues in the
allowed and favoured region in the output?

Thank You

> Hi,
>
> I use the python MDAnalysis packages for this.
>
> https://github.com/MDAnalysis/mdanalysis/issues/1335
>
> https://www.mdanalysis.org/mdanalysis/documentation_pages/analysis/dihedrals.html
>
> Have a nice day, Tamas
>
> On 01/09/2019 10:30 AM, zaved at tezu.ernet.in wrote:
>> Dear Users
>>
>> Can anyone suggest me any available tool to analyze ramachandran plot
>> timewise for a trajectory?
>>
>> Thank You
>>
>> Regards
>> Zaved Hazarika
>> Research Scholar
>> Dept. Of Molecular Biology and Biotechnology,
>> Tezpur University,
>> India
>>
>>
>>
>>
>>
>>
>>
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>
>
> --
> Tamas Hegedus, PhD
> Senior Research Fellow
> Department of Biophysics and Radiation Biology
> Semmelweis University     | phone: (36) 1-459 1500/60233
> Tuzolto utca 37-47        | mailto:tamas at hegelab.org
> Budapest, 1094, Hungary   | http://www.hegelab.org
>
>
> ------------------------------


Regards
Zaved Hazarika
Research Scholar
Dept. Of Molecular Biology and Biotechnology,
Tezpur University,
India



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