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| Segger is a tool for segmentind density maps, and for quick rigid-body docking of structures into density maps. | Segger is a tool for segmentind density maps, and for quick rigid-body docking of structures into density maps [1]. |
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| * GroEL at 4.2Å resolution: [[ftp://emdb.rutgers.edu/structures/EMD-5001/map/emd_5001.map.gz|emd_5001.map.gz]] * Mm-cpn at 4.3Å resolution: [[ftp://emdb.rutgers.edu/structures/EMD-5137/map/emd_5137.map.gz|emd_5137.map.gz]] * Mm-cpn at 8.0Å resolution: [[ftp://emdb.rutgers.edu/structures/EMD-5140/map/emd_5140.map.gz|emd_5140.map.gz]] |
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| Here is some sample data to download: | Data: |
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| [[attachment:segger_demo_2011.tgz]] | * GroEL Crystal Structure: [[http://www.pdb.org/pdb/download/downloadFile.do?fileFormat=pdb&compression=NO&structureId=1XCK|PDB:1XCK]] |
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| References | Here is some sample data to download:[[attachment:segger_demo_2011.tgz]] '''References''' |
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