[AMBER] Calculating Salt bridge interactions- Protein and RNA

From: Muthukumaran R <kumaran.bicpu.edu.in>
Date: Sat, 30 Jul 2016 12:57:51 +0530

Dear users,

 I am working protein RNA complexes and I like to calculate the number of
salt bridges formed between RNA and protein.

I went through Hydrogen bond analysis by Daniel R. Roe

I calculated the water mediated interactions using

hbond hb1 :1-236 out list.out avgout avg.out solventdonor :WAT.O
solventacceptor :WAT.O solvout sol_list.out bridgeout orf_bridge.out

similarly I like to calculate salt bridges between protein RNA.

It will be greatly helpful with suggestions in this regards.
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Received on Sat Jul 30 2016 - 00:30:04 PDT
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