[Xplor-nih] "good" strucutre?
Xiaohu Peng
xiaohupeng at gmail.com
Thu May 31 11:06:23 EDT 2007
I got a bunch of structures from Xplor-NIH calculation, out of NMR distance
restraints in a protein sample.
Is there any standard criterion to select "good" or "acceptable" structures?
Or put it in another word, what should be considered real high-resolution
protein structures?
This is a very general and broad question. Apparently I should start with
energy terms, e.g., VDW, bond, angle, etc. But then the question boils down
to the boundary limit for each term, say, how much violation is acceptable
in angle under consideration, 1 degree, 5 degree, or 50 degree? Or they are
interacting with each other, reflecting each other in each term, if the
energy is high in bond, most probably the angle energy is also high, things
like that.
I just want to know what I am actually doing, though I can push the button
and run the calculation.
Thanks a lot
Xiaohu
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