Chain(s) and Parameter Area |
Density E. ITC Energy Density of ITC - The sum of Energies (calculated according to the table of energy values for each contact type) for the contacts established within a given sphere, among residues belonging to the same protein chain , is calculated and then divided by the volume of the sphere. Placing the cursor above
this element: pop-up area will show the summary of "Density E.
ITC" data for this particular amino acid.
A) A user may select either
Ca or Last Heavy Atom (LHA) in the side chain as a center of the sphere
for calculating "Density E. IFC" B) A user may select among
5 possible radius values for the sphere:
C) A user may select among
4 possible values for the sliding window size (for the size of 5: a value
for this parameter is collected over the central residue and other 2 from
the each side of the central one, summed and divided by 5): D) STING it "Density E. ITC.": This option generates structural presentation with color coding of the amino acids corresponding to the JPD row "Density E. ITC." color coding. The area of gaps is where the colors are going to be different from the rest of the protein. Amino acids are presented in CPK rendering.
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