Comparative Analysis Results

Profile Alignment Covariance Similarity
Your inputs:
2vl0_A.pdb , 3eam_A.pdb , 3rhw_A.pdb , 3tlu_A.pdb

ca_coordinates.zip :
PDB-formatted coordinates of C-alpha atoms used for construction of the elastic network models, for all the submitted structures.

MUSTANG alignment

If you did not upload your own alignment file, the default alignment was performed by MUSTANG:



Visualization

Note: this section (Alignment Results) will not appear if the user uploaded her/his own FASTA alignment file.

Below are the normalized deformation energies per C-alpha averaged over all the normal modes. This quantifies the energy contribution for each C-alpha atom to the intrinsic motion of the proteins.
C-alphas with high energy have many strong interactions and could be important for the dynamical response of the models, even if they do not move much themselves.

Chart usage: brush to zoom; double-click to reset; click the legend box to show/hide the line

Note: gaps in the line denote the missing values in the alignment.

Download raw data: Deformation energies

Reference

Deformation energies are calculated according to: Hinsen K. Analysis of Domain Motions by Approximate Normal Mode Calculations, Proteins. 1998 33; 417-429 (Eq. 10) and averaged over all normal modes.

The squared atomic fluctuations are shown for each C-alpha in the sequences, normalized so that the sum of all C-alphas in a sequence is 100.

Chart usage: brush to zoom; double-click to reset; click the legend box to show/hide the line

Note: gaps in the line denote the missing values in the alignment.

Download raw data: Fluctuations