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Name

PEPCOIL

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Status The current release has 0 entries and was indexed 14-Sep-2004.
Creation date Written (1999) - Alan Bleasby
Description PEPCOIL application details page

Predicts coiled coil regions

Coiled coils are formed by two or three alpha helices in parallel and inregister that cross at an angle of approximately 20 degrees, arestrongly amphipathic and display a pattern of hydrophilic andhydrophobic residues that is repeated every seven residues. The sevenpositions of the heptad repeat are designated a through g, a and d beinggenerally hydrophobic, while the others are hydrophilic.

The parallel two-stranded alpha-helical coiled coil is the mostfrequently encountered subunit-oligomerization motif in proteins.

pepcoil calculates the probability of a coiled-coil structure forwindows of 28 residues through a protein sequence using the method ofLupas A, van Dyke M & Stock J (1991); Science 252:1162-4
Literature
  1. Lupas A, van Dyke M & Stock J; Predicting Coiled Coils from Protein Sequences.Science 252:1162-4 (1991)
WWW www.hgmp.mrc.ac.uk/Software/EMBOSS/Apps/pepcoil.html
Ftp The latest version of the EMBOSS package is available on ftp://ftp.uk.embnet.org/pub/EMBOSS/
Contact This application was written by Alan Bleasby (ableasby@hgmp.mrc.ac.uk)

Original program "PEPCOIL" by Peter Rice (EGCG 1991)

See also
ANTIGENIC Finds antigenic sites in proteins
DIGEST Protein proteolytic enzyme or reagent cleavage digest
FUZZPRO Protein pattern search
FUZZTRAN Protein pattern search after translation
GARNIER Predicts protein secondary structure
HELIXTURNHELIX Report nucleic acid binding motifs
HMOMENT Hydrophobic moment calculation
PATMATDB Search a protein sequence with a motif
PATMATMOTIFS Search a PROSITE motif database with a protein sequence
PEPNET Displays proteins as a helical net
PEPWHEEL Shows protein sequences as helices
PREG Regular expression search of a protein sequence
PSCAN Scans proteins using PRINTS
SIGCLEAVE Reports protein signal cleavage sites
TMAP Displays membrane spanning regions
Data-fields in SRS
Field Name
Short Name
Type
No. of Keys
No. of Entry References
Indexing Date
Status
ID id id 0 0   not indexed
JobName jnm index 0 0   not indexed
Loaders
EMBOSSDNASIMPLESEQ
EMBOSSPROTSIMPLESEQ
SRS Description Structure ( srsgen.i , srsdb.i , href.i )
Syntax
Information
SRS Release 7.1.3    Copyright © 1997-2003 LION bioscience AG. All Rights Reserved. Terms of Use Feedback