Structure superposition tools: Difference between revisions
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Eric Martz (talk | contribs) |
Eric Martz (talk | contribs) |
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* [[#FATCAT|FATCAT]] '''flexible''' and rigid superposition. Jmol. Generates '''morph''' of alignment. | * [[#FATCAT|FATCAT]] '''flexible''' and rigid superposition. Jmol. Generates '''morph''' of alignment. | ||
* [[#TopMatch|TopMatch]] | * [[#TopMatch|TopMatch]] | ||
Note: Although the CE server appears not to be well maintained, the CE algorithms can be used at [http://www. | Note: Although the CE server appears not to be well maintained, the CE algorithms can be used at [http://www.rcsb.org rcsb.org] either directly in their website, or via their java web start application (see instructions below under [[#Calculate Structure Alignment|Calculate Structure Alignment]]). Both of the latter methods include visualization in Jmol (not available at the CE website). | ||
If you want automated selection of a small subdomain with the best possible | If you want automated selection of a small subdomain with the best possible superposition, try [[#DeepView = Swiss-PDBViewer|DeepView = Swiss-PDBViewer]]'s ''Explore Domain Alternate Fits'' or ''Iterative Magic Fit'' (see results in the [[#DeepView = Swiss-PDBViewer example|DeepView = Swiss-PDBViewer example]]). | ||
===DNA structural alignment=== | ===DNA structural alignment=== | ||
