Probably because they set diffently the acceptor-donor cutoff and the acceptor-hydrogen-donor angle. Use list_hbonds.py from:

http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/

and set the cutoff and angle to the values you wish.

Thomas



On 30 January 2012 16:34, Abhinav Verma <abhinav1205@gmail.com> wrote:
Hi,

 I am trying to get the list of hbonds formed using Apply-find-polarcontacts. 

 I searched and found some scripts, but they never give me the same result as the one by default pymol. 

 Any ideas how I can get the hbonds as a list.

Thanks,

Abhinav

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--

======================================================================

Thomas Evangelidis

PhD student

Biomedical Research Foundation, Academy of Athens

4 Soranou Ephessiou , 115 27 Athens, Greece

email: tevang@bioacademy.gr

          tevang3@gmail.com


website: https://sites.google.com/site/thomasevangelidishomepage/