Difference between revisions of "Task 10 (MSUD)"
From Bioinformatikpedia
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File:MSUD_mode7.png| Normal mode 7 of 2BFF, alpha and beta chain move against each other. |
File:MSUD_mode7.png| Normal mode 7 of 2BFF, alpha and beta chain move against each other. |
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File:MSUD_mode9.png| Normal mode 9 of 2BFF, end of alpha chain moves strongly. |
File:MSUD_mode9.png| Normal mode 9 of 2BFF, end of alpha chain moves strongly. |
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===ElNémo=== |
===ElNémo=== |
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Revision as of 16:17, 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.
Vector representations of modes 7 and 9:
Normal mode 7 of 2BFF, alpha and beta chain move against each other.
Normal mode 9 of 2BFF, end of alpha chain moves strongly.
