pepcoil calculates the probability of a coiled-coil structure for windows of 28 residues through a protein sequence using the method of Lupas A, et al. (1991).

Here is a sample session with pepcoil:

% pepcoil Input sequence: sw:gcn4_yeast Window size [28]: Output file [gcn4_yeast.pepcoil]:

Mandatory qualifiers:

[-sequence] (seqall)

Sequence database USA.

-window (integer)

Window size.

[-outfile] (outfile)

Output filename.

Advanced qualifiers:

-[no]coil (boolean)

Report coiled coil regions.

-frame (boolean)

Show coil frameshifts.

-[no]other (boolean)

Report non coiled coil regions.

Sequence Analysis in a Nutshell
Sequence Analysis in a Nutshell: A Guide to Common Tools and Databases
ISBN: 059600494X
EAN: 2147483647
Year: 2005
Pages: 312

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