VMD-L Mailing List

From: Shirley Li (li19104_at_yahoo.com)
Date: Wed Oct 13 2004 - 18:05:01 CDT

Dear VMD users,
 
I have two questions regarding VMD:
 
1) With VMD, how to align a PORTION of two or more structures, say the region from residue 35 to residue 50, instead of the whole structures, and then get the corresponding RMSD value?
 
2) What's the algorithm for VMD to assign the secondary structure for each residue of a protein?
 
Any help/information will be highly appreciated.
 
Shirley

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