HELICALWHEEL⁽⁺⁾

HelicalWheel plots a peptide sequence as a helical wheel to help you recognize amphiphilic regions.

HelicalWheel plots a helical wheel representation of a peptide sequence. Each residue is offset from the preceding one by 100 degrees, the typical angle of rotation for an alpha-helix. The angle of rotation can be changed using -ANGle and -BETa.

If you are reading the Program Manual, the plot from this session is shown in the figure below.

HelicalWheel accepts a single protein sequence as input. If HelicalWheel rejects your protein sequence, turn to Appendix VI to see how to change or set the type of a sequence.

Moment makes a contour plot of the helical hydrophobic moment of a peptide sequence. PepPlot shows the maximum hydrophobic moment over the range from 95 to 105 degrees (alpha-helix) and from 159 to 161 degrees (beta-sheet) calculated in a window of six residues.

You can set the parameters listed below from the command line. For more information, see "Using Program Parameters" in Chapter 3, Using Programs in the User's Guide.

Set angle of rotation for the detection of:

Alpha-helix structures
Beta structures

sets the angle of rotation to be 160 degrees (for beta-structure).

Angular position of first residue on wheel (0.0 is 12 o'clock)

sets the angle of the first residue on the wheel (in degrees clockwise from 12 o'clock).

Label wheel with:

single letter amino acid code
three letter amino acid codes

labels the wheel with three-letter amino acid codes.

Printed: January 13, 1999 6:27 (1162)