Structure superposition tools: Difference between revisions
Eric Martz (talk | contribs) |
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* Database Search: I got no results after clicking "Align" for either jCE or jFATCAT - rigid. These options did not appear to be working. [[User:Eric Martz|Eric Martz]] 16:28, 4 October 2010 (IST) | * Database Search: I got no results after clicking "Align" for either jCE or jFATCAT - rigid. These options did not appear to be working. [[User:Eric Martz|Eric Martz]] 16:28, 4 October 2010 (IST) | ||
* Help is minimal and results are not clearly labeled. | * Help is minimal and results are not clearly labeled. | ||
===DeepView = Swiss-PDBViewer=== | |||
*Download site: [http://spdbv.vital-it.ch/ DeepView Swiss-PdbViewer]. | |||
*'''Caution''': This program often reports the wrong number of alpha carbons aligned, typically reporting twice or four-times the actual number. In order to get the correct count, use the Fit menu, Calculate RMS, or observe the number of residues selected in each layer. | |||
*Help: YES. | |||
* Fit, Magic Fit does a '''sequence-based''' structural alignment. | |||
* Fit, Explore Domain Alternate Fits: does a '''sequence-independent''' structural alignment. | |||
* Color, RMS: colors the target structure by deviation. | |||
* Fit, Set Layer Std Dev. into B-factors: works only when the sequences of the aligned models are identical. | |||
==Examples== | ==Examples== | ||