[gmx-users] Comparison of hydrogen bond number

[Mark Abraham]

OZGE ENGIN wrote:
> Hi,
>  
> I could not understand a point related to the calculation of hydrogen bond numbers.  In order to be sure, I wrote a script in which the hydrogen bond numbers were calculated during the whole trajectory. Firstly, I used the 30.0 degrees and 0.35 nm criteria, and I compared the results of two: The numbers were the same. After that, I tried the 60.0 and 0.35 nm criteria, but this time, the numbers were not the same.
> What is the problem?

Somebody is wrong :-) If you can find parameters for which they 
disagree, find the bonds that they disagree about in a single structure 
and see what is going on.

Mark