Explanations of external program features
and A crystallographer's
guide to interpreting WHATIF output.
AQUA and PROCHECK-NMR - Operating manual.
Ramachandran and Janin plots
- The background shading is for the probability derived from What If’s
internal database of high-resolution structures on a 10 by 10 degree grid.
The color coding refers to one of three states the secondary structure (by
DSSP) was assigned to be in. Blue, yellow, and green are respectively for
helix, sheet, and other. The coloring changes linearly from white to e.g.
yellow for densities 2 to 20%. They are consequently put on top of each
other (blue on top) with some alpha blending. More details in code at
- The CHI 1 and 2 combination plot is named after Janin
- For angles PHI, PSI, CHI 1 and 2, if a dihedral restraint
involves one or more of these angles, a transluced orange rectangle or square
will be drawn evidencing the limits of this particular dihedral
- o (blue)
circular averaged value
(blue) a line indicates the circular averaged value for a given angle