---
name: "ncoils"
section: "1"
platform: "linux"
package: "ncoils"
version: "2002-9"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/ncoils"
---

# ncoils(1)

prediction of coiled-coil secondary structure elements

## NAME

ncoils - prediction of coiled-coil secondary structure elements

## SYNOPSIS

ncoils \[OPTION\] \< \[FASTA FILE\]

ncoils -f \< /usr/share/doc/ncoils/1srya.fa

## DESCRIPTION

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.

## OPTIONS

- \-f, -fasta

  fasta output - coils as 'x', like '-x' in seg

- \-c

  concise mode - which sequences have any coils (and how many)

- \-min\_seg \<int\>

  for concise mode - only report sequence if \>= min coil segments

- \-min\_P \<float\>

  minimum P to define coil segment; DEFAULT = 0.5

- \-win \<int\>

  window size; DEFAULT = 21

- \-w

  weight heptad positions a&d the same as b,c,e,f,g

- \-v

  verbose/debug mode - print extra junk

## EXAMPLES

`"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"`

## ENVIRONMENT

COILSDIR - specifies the directory containing the file new.mat overriding the default */usr/share/ncoils*

## FILES

- */usr/share/ncoils/\*.mat*

  matrix data files

## AUTHOR

R.B. Russell, A.N. Lupas

## COPYRIGHT AND LICENSE

GPL

Based on Lupas, Van Dyck & Stock (1991) Science 252,1162-1164

## SEE ALSO

[**coils-wrap**(1)](/coils-wrap/1.md), "usr/share/doc/coils/README", \<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