# Difference between revisions of "Task 10 (MSUD)"

From Bioinformatikpedia

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* correlation matrix for motions between Calphas |
* correlation matrix for motions between Calphas |
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* overlap analysis for different conformations of the same protein |
* overlap analysis for different conformations of the same protein |
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+ | For the calculation of normal modes, WEBnm@ takes only Calpha atoms. The mass of the whole residue is assigned to its Calpha atom for the analysis. |
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+ | The server gives eigenvalues for modes 7-56, deformation energies for modes 7-20 and atomic displacement and visualization for modes 7-12. |
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===ElNémo=== |
===ElNémo=== |

## Revision as of 16:56, 24 July 2013

## Contents

## Results

### WEBnm@

The informations that are provided on the results page include:

- deformation energies and eigenvalues for the lowest-frequency non-trivial modes
- atomic displacement and fluctuation plots
- mode visualization with Jmol and vector field represention of modes
- correlation matrix for motions between Calphas
- overlap analysis for different conformations of the same protein

For the calculation of normal modes, WEBnm@ takes only Calpha atoms. The mass of the whole residue is assigned to its Calpha atom for the analysis.

The server gives eigenvalues for modes 7-56, deformation energies for modes 7-20 and atomic displacement and visualization for modes 7-12.