Diff for "Ws2011/Segger"

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Segger

Wed AM Practical

Segger is a tool for segmentind density maps, and for quick rigid-body docking of structures into density maps.

The software is provided as part of Chimera which will already be installed for the workshop.

Segmentation

Data:

GroEL at 10.0Å resolution: emd_1080.map.gz

Rigid-body Docking

Here is some sample data to download:

segger_demo_2011.tgz

References

[1] Pintilie, G., Zhang, J., Goddard, T., Chiu, W., Gossard, D. Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions, Journal of Structural Biology 170(3), pp 427-438, 2010

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Data:

 * GroEL at 10.0Å resolution: [[ftp://emdb.rutgers.edu/structures/EMD-1080/map/emd_1080.map.gz|emd_1080.map.gz]]

'''Rigid-body Docking'''
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[1] Pintilie, G., Zhang, J., Goddard, T., Chiu, W., Gossard, D. Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions, Journal of Structural Biology 170(3), pp 427-438, 2010