Dear SPARKY and CYANA users,
In SPARKY, for my protein the overall intensities of all
cross peaks in the 13C-edited NOESY spectra are medium or weak. Hence, when I
pool the peak lists from 15N-edited NOESY spectra and 13C-edited NOESY spectra
and run CYANA, the upl file generated after cycle7 contains larger distance
constraints (~5.5 angstrom) for specific cross peaks observed in the 13C-edited
spectra. I expect constraints for those cross peaks to be short (less that 2.5
angstrom) because they correspond to long range daa connectivity in regions of
protein corresponding to antiparallel betasheet.
Why does
SPARKY display relatively weaker peak intensities for 13C-edited NOESY spectra
when compared to 15N-edited NOESY spectra? Is this what you all generally
observe? How do you all solve this problem? I think one method by which this
problem can be solved is by calibrating peak heights separately for 15N-edited
and 13C-edited spectra in CYANA. Can anybody tell me how to do that?
Thanks,
Betty
Swanson
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