Segger
Wed AM Practical
Segger is a tool for segmentind density maps, and for quick rigid-body docking of structures into density maps [1].
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
GroEL at 4.2Å resolution: emd_5001.map.gz
Mm-cpn at 4.3Å resolution: emd_5137.map.gz
Mm-cpn at 8.0Å resolution: emd_5140.map.gz
Rigid-body Docking
Data:
GroEL Crystal Structure: PDB:1XCK
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