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| * GroEL structure: [[http://www.pdb.org/pdb/download/downloadFile.do?fileFormat=pdb&compression=NO&structureId=1XCK|1xck.pdb]] [[attachment:1XCK_chain.pdb]] * Mm-cpn structure: [[http://www.pdb.org/pdb/download/downloadFile.do?fileFormat=pdb&compression=NO&structureId=3LOS|3los.pdb]] [[attachment:3LOS_chain.pdb]] |
* GroEL structure: [[attachment:1XCK_chain.pdb]] * Mm-cpn structure: [[attachment:3LOS_chain.pdb]] |
Segger
Wed AM Practical
Segger is a tool for segmenting density maps and for quick rigid-body docking of structures into density maps [1].
The software is distributed as part of Chimera which will already be installed for the workshop.
Segmentation
Data:
GroEL at 11.5Å resolution: emd_1080.map.gz
GroEL at 4.2Å resolution: emd_5001.map.gz
Mm-cpn at 4.3Å resolution: emd_5137.map.gz
Rigid-body Docking
Data:
GroEL structure: 1XCK_chain.pdb
Mm-cpn structure: 3LOS_chain.pdb
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