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From: aneesh cna (aneeshcna_at_gmail.com)
Date: Mon Aug 13 2007 - 05:31:32 CDT
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Hello VMD users,
i would like to use STRIDE for evaluating the secondary
structural chages in particular region in my protein over a time interval.
I searched the net for getting an idea about the way how srtide will use
with vmd but i cant found out related web pages. can you help me in this
matter?
I installed STRIDE source codes with VMD and when i typing stride in the
terminal it shows
Action: secondary structure assignment
Usage: stride [Options] InputFile [ > file ]
Options:
-fFile Output file
-mFile MolScript file
-o Report secondary structure summary Only
-h Report Hydrogen bonds
-rId1Id2.. Read only chains Id1, Id2 ...
-cId1Id2.. Process only Chains Id1, Id2 ...
-q[File] Generate SeQuence file in FASTA format and die
Options are position and case insensitive
In what way i have to specify the commands? Hope you will help me in this
matter
yours faithfully
Aneesh
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