[gmx-users] RMSD calculation in protein

[zhang xudong]

Dearl all
 I finish a protein MD simulation  and want to analysis data using gromacs 
analysis tools.  my reasch work aim to a part or a domain of the 
protein,not whole protein. It is first time using these analysis tools. 
so,there are two questions as follows i want to consult about RMSD 
calculation:
1.How can i draw a RMSD plot which represents a part of the protein(such as 
several amino acid residues)?
2.are there other analysis tool i can use to draw such a RMSD plot rather 
than  gromacs analysis tool?



thanks in advance

XuDong Zhang
Department of Biology
The University of YunNan,china
zxdcs01 at hotmail.com
zhangxd at ynu.edu.cn

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