[gmx-users] system contains proteins and DNAs with ffamber99

Dechang Li li.dc06 at gmail.com
Wed Jun 11 09:50:18 CEST 2008

Dear all, 

    Sometimes,the PDB file contains water molecules which only have the oxygen atom. Can 
Gromacs add the hydrogen atoms of the water molecules?
    Additionly, when use Gromacs with the force field ffamber99, Can it add the hydrogen 
atoms of the DNA? Can I use the force field ffamber99 to simulate the system which contains
proteins and DNAs?  

Best regards,

Dechang Li, PhD Candidate
Department of Engineering Mechanics
Tsinghua University
Beijing 100084
PR China 

Tel:   +86-10-62773779(O) 
Email: lidc02 at mails.tsinghua.edu.cn


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