Thanks a lot! I did find some map statistics (average, standard
deviation...). Tt also provide a map dimension, where I think we can
covert the contour level to X-ray sigma level.
Thanks again for the information.
Hailiang
> Try here:
> http://www.ebi.ac.uk/pdbe/emdb/
> You can (if you get the E
Try here:
http://www.ebi.ac.uk/pdbe/emdb/
You can (if you get the EM map) play around with various programs and
manipulate the level until the mask matches the molecular weight of your object
of interest.
Or contact the authors of the EM map. Ask for either CCP4 format map or MRC,
you can use pr
Dear Hailiang,
most maps (if not all) have the suggested contour level associated with them
in the visualization tab of their EMDB entry. It is my understanding that
this is the contour level that will account for the Van Der Waals volume of
the protein. The Download tab allows you to download a
Hi,
I am trying to compare a published EM map with X-ray map in hand, and have
several questions:
1. EM map seldom indicates the sigma level, and it was said because of the
box size uncertainty during EM model construction. Now, I wonder is there
any way we can sort of its equivalent sigma level
I am curious why you are so exercised about the oligomerization state.
Is the tetramer elongated or close-to-spherical in the crystal, i.e.,
maybe its shape is perturbing its SEC mobility. Right now, it seems
that you have LS and SEC saying that the thing is at least oligomeric
in solution--why not
Hi Chad,
Re SV: the way I understand it, there’s a pitfall to mass determination in the
case of interacting systems (including oligomers) – the accurate determination
of the S value for a complex is going to be affected by its on and off rate and
the concentration at which it is analyzed (an
Dear
Kushol, Chad and other folks;
Thanks a lot for the comments. I am
sorry for keeping silent because we are still repeating the SE experiment.
However,
here are some preliminary data.
Did
Jerry run SV or SE?
2. If the former, then did he see a nice, single bou
Dear Kushol & Jerry,
I have to take exception to Kushol's contention about SV. As long as the
buffer
and protein parameters are correct and the sample is well behaved (i.e. not
undergoing dynamic rearrangement on the time scale of the SV experiment, not
aggregated, homogeneous), one can deriv
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The incumbent will: 1) investigate the structure and function of mitochondrial
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Hi Pavel,
Higher resolution structure will have more accurate phases than the one
determined at 10A resolution and therefore the 10A maps generated from
that structure will not be quite the same as maps from the data that
extended to only 10A. Am I missing something?
Cheers,
N.
Ruslan San
Dear Madhu,
While I cannot be certain without knowing
what detector was used to collect your diffraction image, ".osc" is
the usual suffix for Rigaku detectors and these will normally be read
automatically by mosflm (just use the "image" keyword with Mosflm, or
use
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