Article |
DILIMOT: discovery of linear motifs in proteins
EMBL, Meyerhofstrasse 1 69117 Heidelberg, Germany
*To whom correspondence should be addressed. Tel: +49 6221 387 8473; Fax: +49 6221 387 8517; Email: russell{at}embl.de
Received February 14, 2006. Revised March 9, 2006. Accepted March 20, 2006.
Discovery of protein functional motifs is critical in modern biology. Small segments of 3–10 residues play critical roles in protein interactions, post-translational modifications and trafficking. DILIMOT (DIscovery of LInear MOTifs) is a server for the prediction of these short linear motifs within a set of proteins. Given a set of sequences sharing a common functional feature (e.g. interaction partner or localization) the method finds statistically over-represented motifs likely to be responsible for it. The input sequences are first passed through a set of filters to remove regions unlikely to contain instances of linear motifs. Motifs are then found in the remaining sequence and ranked according to a statistic that measure over-representation and conservation across homologues in related species. The results are displayed via a visual interface for easy perusal. The server is available at http://dilimot.embl.de
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  C. M. Gould, F. Diella, A. Via, P. Puntervoll, C. Gemund, S. Chabanis-Davidson, S. Michael, A. Sayadi, J. C. Bryne, C. Chica, et al. ELM: the status of the 2010 eukaryotic linear motif resource Nucleic Acids Res., November 17, 2009; (2009) gkp1016v1. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. Milbradt, S. Auerochs, H. Sticht, and M. Marschall Cytomegaloviral proteins that associate with the nuclear lamina: components of a postulated nuclear egress complex J. Gen. Virol., March 1, 2009; 90(3): 579 - 590. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. E. Davey, D. C. Shields, and R. J. Edwards Masking residues using context-specific evolutionary conservation significantly improves short linear motif discovery Bioinformatics, February 15, 2009; 25(4): 443 - 450. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. J. Edwards, N. E. Davey, and D. C. Shields CompariMotif: quick and easy comparisons of sequence motifs Bioinformatics, May 15, 2008; 24(10): 1307 - 1309. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Dinkel and H. Sticht A computational strategy for the prediction of functional linear peptide motifs in proteins Bioinformatics, December 15, 2007; 23(24): 3297 - 3303. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
N. E. Davey, R. J. Edwards, and D. C. Shields The SLiMDisc server: short, linear motif discovery in proteins Nucleic Acids Res., July 13, 2007; 35(suppl_2): W455 - W459. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 V. Neduva and R. B. Russell Proline-Rich Regions in Transcriptional Complexes: Heading in Many Directions Sci. Signal., January 16, 2007; 2007(369): pe1 - pe1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. von Mering, L. J. Jensen, M. Kuhn, S. Chaffron, T. Doerks, B. Kruger, B. Snel, and P. Bork STRING 7--recent developments in the integration and prediction of protein interactions Nucleic Acids Res., January 12, 2007; 35(suppl_1): D358 - D362. [Abstract] [Full Text] [PDF]
|
|