Dear Myunggi,
I'm still confused. The manual just say too simple, is there any tutorial which more detail?(I've just read the manual amber8.pdf part 5.19)
I've some questions: should we include cipn file when run minimization by -cpin flag ? In that case, should we set value for icnstph and solvph parameters in min.in file?
And which value is suitable for nstlim? My protein have 175aa.
Thanks a lot.
Myunggi Yi <myunggi.gmail.com> wrote:
As you have read, you'll use GB implicit solvent model.
Don't solvate (neutralize) your protein, and follow the example in the manual.
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Received on Sun Apr 29 2007 - 06:07:29 PDT
