Dear Erik and Justin Thank you so much for ypur help.
yes I mean water mediated hydrogen bonds (protein-H2O-dna). since I'm beginner in perl script, please clarify your answer and explain more. what is your mean of existence functions exactly? do using of -ins option in g_hbond tool help me? -- Leila Karami Ph.D. student of Physical Chemistry K.N. Toosi University of Technology Theoretical Physical Chemistry Group
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