Literature DB >> 2766008

Software tools for motif and pattern scanning: program descriptions including a universal sequence reading algorithm.

K Y Cockwell1, I G Giles.   

Abstract

Two programs, MOTIF and PATTERN, that scan sequences for matches to user-defined motifs and patterns of motifs based on identity and set membership are described. The programs use a simple and logical notation to define motifs, and may be used either interactively or by using command line parameters (suitable for batch processing). The two programs described also incorporate a simple, yet reliable, algorithm that automatically detects in which of six possible formats the sequence entry is written.

Mesh：

Year:  1989        PMID： 2766008     DOI： 10.1093/bioinformatics/5.3.227

Source DB:  PubMed          Journal:  Comput Appl Biosci        ISSN： 0266-7061


  7 in total

1.  Prediction of a common beta-propeller catalytic domain for fructosyltransferases of different origin and substrate specificity.

Authors:  T Pons; L Hernández; F R Batista; G Chinea
Journal:  Protein Sci       Date:  2000-11       Impact factor: 6.725

2.  Long (dA)n.(dT)n tracts can form intramolecular triplexes under superhelical stress.

Authors:  K R Fox
Journal:  Nucleic Acids Res       Date:  1990-09-25       Impact factor: 16.971

3.  Twenty proteins containing a C-terminal SOCS box form five structural classes.

Authors:  D J Hilton; R T Richardson; W S Alexander; E M Viney; T A Willson; N S Sprigg; R Starr; S E Nicholson; D Metcalf; N A Nicola
Journal:  Proc Natl Acad Sci U S A       Date:  1998-01-06       Impact factor: 11.205

4.  Reverse gyrase gene from Sulfolobus shibatae B12: gene structure, transcription unit and comparative sequence analysis of the two domains.

Authors:  C Jaxel; C Bouthier de la Tour; M Duguet; M Nadal
Journal:  Nucleic Acids Res       Date:  1996-12-01       Impact factor: 16.971

5.  The toxofilin-actin-PP2C complex of Toxoplasma: identification of interacting domains.

Authors:  Gaelle Jan; Violaine Delorme; Violaine David; Celine Revenu; Angelita Rebollo; Xavier Cayla; Isabelle Tardieux
Journal:  Biochem J       Date:  2007-02-01       Impact factor: 3.857

6.  Characterization of the corrinoid iron-sulfur protein tetrachloroethene reductive dehalogenase of Dehalobacter restrictus.

Authors:  Julien Maillard; Wolfram Schumacher; Francisco Vazquez; Christophe Regeard; Wilfred R Hagen; Christof Holliger
Journal:  Appl Environ Microbiol       Date:  2003-08       Impact factor: 4.792

7.  Aminopeptidase B, a glucagon-processing enzyme: site directed mutagenesis of the Zn2+-binding motif and molecular modelling.

Authors:  Viet-Laï Pham; Marie-Sandrine Cadel; Cécile Gouzy-Darmon; Chantal Hanquez; Margery C Beinfeld; Pierre Nicolas; Catherine Etchebest; Thierry Foulon
Journal:  BMC Biochem       Date:  2007-10-31       Impact factor: 4.059
  7 in total

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