Provided by: ncoils_2002-3_amd64
coils-wrap - runs ncoils three times to give you a three-window output
coils-wrap runs ncoils three times to give you a three-window output. ncoils is a program that compares a sequence to a database of known parallel two-stranded coiled-coils and derives a similarity score. By comparing this score to the distribution of scores in globular and coiled-coil proteins, the program then calculates the probability that the sequence will adopt a coiled-coil conformation.
-i input file in FASTA format -o output file -r raw output file, default: `<output file>_raw' -m matrix type; set matrix (MTK or MTIDK) -w weight a&d = b,c,e,f&g (boolean)
"coils-wrap -m MTIDK -i /usr/share/doc/ncoils/1srya.fa -o /tmp/coils.out -r /tmp/coils_raw.txt && less /tmp/coils.out /tmp/coils_raw.txt" "ncoils -win 14 < /usr/share/doc/ncoils/1srya.fa"
/usr/share/coiledcoils/*.mat matrix data files
R.B. Russell, A.N. Lupas, 1999
COPYRIGHT AND LICENSE
GPL Based on Lupas, Van Dyck & Stock (1991) Science 252,1162-1164
ncoils(1), "usr/share/doc/coils/README", http://www.russelllab.org/cgi-bin/coils/coils-svr.pl <http://www.russelllab.org/cgi- bin/coils/coils-svr.pl> A Lupas: Prediction and Analysis of Coiled-Coil Structures. Methods in Enzymology, 266, 513-525, 1996 A. Lupas, M. Van Dyke, and J. Stock: Predicting coiled coils from protein sequences. Science, 252, 1162-1164, 1991