VMD-L Mailing List

From: Jernej Zidar (jernej.zidar_at_gmail.com)
Date: Fri Oct 14 2011 - 08:19:22 CDT

Hi.
  In the menu Extensions->Analysis->Hydrogen Bonds you will find a graphical interface that you can use tp make the analysis you want. From there on it's just a matter of making the proper selection.

Regards,
Jernej

On 14. okt. 2011, at 17:11, subrata paul wrote:

> Dear Sir
> I am a student of phd and new in VMD.When I went through the VMD mailing list.
> I am using amber10. I loaded my trejectory and try to calculate but I could not.I think my command line is wrong.
>
> I want to calculate water-water hbond.
> measure hbonds 3.5 30 -sel1 [atomselect top "water"] -sel2 [atomselect top "water']
> Is this correct?
> How to finde hbond/molecule
> Can you help me, giving me a example of hbond command line?
>
> Can you suggest me How can we do hbond vs time?
>
> Any help would be greatly appreciated!
> very very Thanking you
> Subrata Paul
> IITGuwahati
> India Assam
>