[gmx-users] problem in editing .eps file of hbond

[Shahid Nayeem]

Is it really possible in g_hbond to get hbmap.xpm for plotting only those
hydrogen bonds between chain A and chain B of protein which has %age
existence greater than say 80%.

shahid

On Sat, Mar 12, 2016 at 10:25 PM, Justin Lemkul <jalemkul at vt.edu> wrote:

>
>
> On 3/12/16 5:44 AM, tasneem kausar wrote:
>
>> Dear all
>>
>> I have plotted the hydrogen bonds present at the interface of protein in
>> its binary complex. I have already written the index file for the
>> interface
>> residues then used it for hydrogen bond calculation. There are a number of
>> bonds at the interface. I am trying to put a cut off of 50 % for existence
>> of hydrogen bonds in the whole trajectroy. So I want to remove the rest of
>> hydrogen bonds of interface residues whose existence is less than 50% .
>> For
>> this purpose how should I edit the .eps file. Because there are a lot of
>> data written and I am not able to understand the data that are given for x
>> and y axis.
>> Please solve the Issue
>>
>
> An .eps file is an image; I wouldn't advise trying to mess with its
> contents to get the information you want.  Everything you need should
> already be in the normal text output from hbond, most directly the
> hbmap.xpm file itself.  Parse that information to get what you want.
>
> -Justin
>
> --
> ==================================================
>
> Justin A. Lemkul, Ph.D.
> Ruth L. Kirschstein NRSA Postdoctoral Fellow
>
> Department of Pharmaceutical Sciences
> School of Pharmacy
> Health Sciences Facility II, Room 629
> University of Maryland, Baltimore
> 20 Penn St.
> Baltimore, MD 21201
>
> jalemkul at outerbanks.umaryland.edu | (410) 706-7441
> http://mackerell.umaryland.edu/~jalemkul
>
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