On 5/01/2011 12:35 AM, ahmet yıldırım wrote:
I get the residue versus time ( secondary structure graph) using
do_dssp tool. I want to get the percentage value(alpha helix, beta
sheet, coil ...) of secondary structure.
Please say this in the *first* email. Giving a full description of what
you have done and what you got as output and why it isn't yet suitable
runs a much lower risk of wasting the time of everyone who reads your
email and has to guess what help you want. See
http://www.gromacs.org/Support - had you followed these steps you'd have
probably had an answer from Justin in one email.
Mark
For example:
Secondary structure percentage (%):
Helix:51.6
B-sheet:0
Random coil:24.0
Turn:24.4
04 Ocak 2011 14:59 tarihinde Mark Abraham <[email protected]
<mailto:[email protected]>> yazdı:
On 4/01/2011 11:38 PM, ahmet yıldırım wrote:
Dear Mark,
I will do by using the g_analyze tool but I do not know how to
use it.
There's a section in Appendix D of the manual for each tool, or
you can use the -h argument to the tool to get the same information.
Either way, you haven't got the right tool. Hint: it's a "protein
specific analysis"
Mark
Thanks
2011/1/4 Mark Abraham <[email protected]
<mailto:[email protected]>>
On 4/01/2011 8:33 PM, ahmet yıldırım wrote:
Hi,
How can I calculate the percentages (alpha helix, beta
sheet, coil ...) of secondary structure?
Look in manual section 7.4 for a suitable tool.
Mark
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Ahmet YILDIRIM
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