[MMTK] Nucleotide Sequences, Solvation question
jalemkul at vt.edu
Wed Mar 30 17:09:38 CEST 2005
Thanks to all for the help in getting MMTK running. It is functioning
Thanks Konrad, for a great tool. I have been working mostly with proteins,
like to examine some short nucleotide sequences of my own creation. I am
trying to mirror Amber functions within MMTK (construction of small systems of
nucleotides/peptides, etc.) I was reading up about how to construct a
but I can't seem to get the syntax right. Can someone show me how to create,
example, a very short chain of, say, CAGT?
Also, is there a capability within MMTK of adding counterions on a charged
molecule? This also goes back to trying to replicate Amber, where counterions
added to neutralize charge before solvating, etc.
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