[gmx-users] SPC - hydrogen bonding..

[Giorgos Karvounis]

Dear all,

I am simulating a pentapeptide as a switterion in explicit SPC water. I
want to investigate the role of water during some folding events
(beta-turns) , especially when it comes down to water--> peptide
hydrogen bonding. We have implemented an algorithm for that, with
geometrical criteria, similar to GROMACS one.
The question is , i really see a "trend" of the water molecules  to be
hbonded to the peptide-NH's  (water oxygens) but there is no significant
OH2---O=C-peptide (except of the terminal COO-)...
I was really wondering if this could really be a normal situation , or
maybe an artifact due to SPC parameters...

Kind regards

George