Predicting Coiled Coils from Protein Sequences

Alex Knight aek4 at york.ac.uk
Tue Jan 20 13:00:35 EST 1998


MacStripe is a program for the prediction and analysis of potential
coiled-coil regions in protein sequences. A new and much improved
version (2.0a1) is available to download now from:
http://www.york.ac.uk/depts/biol/units/coils/coilcoil.html
(This site also has links to software for other platforms).

MacStripe is the ideal tool for anyone who wants to explore potential
alpha-helical coiled coils in the sequence of their protein. With a full
Macintosh interface, the results of analyses (raw data or publication
quality plots) can easily be exported to other software. The "Inspector"
window acts like a magnifying glass so you can study your protein on a
residue-by-residue basis. MacStripe uses the algorithm of Andrei Lupas's
COILS2 for detailed and reliable coiled-coil predictions.

System Requirements: Macintosh with 68030, '040 or PowerPC processor;
Colour Quickdraw; System 7.0 or better.

Features:
* Full Macintosh Interface
* Uses established Lupas algorithm for coiled coil prediction 
* Full control of prediction parameters (matrix, window length,
  weighting) 
* Interactive exploration of coiled coil with "Inspector" window 
* Imports sequences from DNA Strider or DNASTAR formats 
* Reads sequences from text files in plain, FASTA or Staden formats 
* Uses FPU (where present) for maximum calculation speed 
* Plots optionally show 'skips' or 'stutters' in coiled coil which may
  be structurally important 
* Plots can be copied and pasted into other applications, saved as PICT
  files, or printed 
* Detailed statistics can be imported into spreadsheet or graphing
  programs 
* It's FREE! 

Please don't hesitate to contact me with suggestions, bug reports or
complaints. Don't forget to check out the coiled-coil prediction web
page for more information about MacStripe or other coiled-coil
prediction resources.

Alex
-- 
Alex Knight (aek4 at york.ac.uk)

Biology Department
University of York
Heslington, York Y01 5DD

+44 1904 434381
+44 1904 432860 (FAX)

Molecular Motors Web Page:
http://www.york.ac.uk/depts/biol/units/motors/home.html

Coiled coil prediction web page:
http://www.york.ac.uk/depts/biol/units/coils/coilcoil.html



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