[3dem] A Request for Micrograph with multiple 3d particle or particle conformations

[Dmitry Lyumkis]

If you’re looking for a particularly challenging case, you may want to look at this dataset of assembling ribosomal subunits:

https://urldefense.com/v3/__https://www.ebi.ac.uk/pdbe/emdb/empiar/entry/10076/__;!!Mih3wA!V6DsOkbPkp5bM6XomxT1ySP3Ya2Vlzhi-14V_OVrfdNsjDvLhfscR78RG1nlJz4ECQ$ 

There are at least 14 distinct structures there, but I’m sure you can find more.

Best,

Dmitry

Dmitry Lyumkis
Assistant Professor
The Salk Institute for Biological Studies
10010 North Torrey Pines Road, La Jolla, CA 92037
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E: dlyumkis at salk.edu<mailto:dlyumkis at salk.edu>
https://urldefense.com/v3/__https://lyumkis.salk.edu__;!!Mih3wA!V6DsOkbPkp5bM6XomxT1ySP3Ya2Vlzhi-14V_OVrfdNsjDvLhfscR78RG1kfPVa5rQ$ 






On Apr 20, 2020, at 11:10 AM, Takanori Nakane <tnakane at mrc-lmb.cam.ac.uk<mailto:tnakane at mrc-lmb.cam.ac.uk>> wrote:

Hi,

How different should it be?

Different species:
EMPIAR-10251: mixture of 20S proteasome and TMV
EMPIAR 10289-10291: innexin hemichannel but contains dimeric full channels as well

Conformational difference:
EMPIAR-10180: spliceosome with flexibility
EMPIAR-10160: spliceosome, even more flexibility

And there are several ribosome datasets as well.

Best regards,

Takanori Nakane

On 2020/04/20 19:03, rupesh wrote:
Dear all,
I have been working on 3D reconstructions from 2d projections obtained by Cryo Electron Microscopy, specially dealing with the case when there are multiple conformations of the particle in the projections obtained and hence multiple 3D structures to be generated.
I have obtained good classifications results in case of projections obtained for different particles from different micrographs, but to test the classifier in its full capacity, I need a micrograph which has 2 or more types of picked particles, and hence 2 or more 3D structure lying in the set of projections that can be obtained.
Any help or pointers to correct resources will be highly appreciated.
Regards
Rupesh
4th Year UnderGrad
Computer Science
IIT Bombay
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