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Bioinformatics Vol. 19 no. 18 2003
pages 2489-2491
© 2003 Oxford University Press

Applications Note

KISS for STRAP: user extensions for a protein alignment editor

Christoph Gille *, Stephan Lorenzen , Elke Michalsky and Cornelius Frömmel

Institut für Biochemie, Charité, Monbijoustr. 2, Berlin 10117, Germany

Received on February 28, 2003 ; revised on May 17, 2003 ; accepted on June 24, 2003

Summary: The Structural Alignment Program STRAP is a comfortable comprehensive editor and analyzing tool for protein alignments. A wide range of functions related to protein sequences and protein structures are accessible with an intuitive graphical interface. Recent features include mapping of mutations and polymorphisms onto structures and production of high quality figures for publication. Here we address the general problem of multi-purpose program packages to keep up with the rapid development of bioinformatical methods and the demand for specific program functions. STRAP was remade implementing a novel design which aims at Keeping Interfaces in STRAP Simple (KISS). KISS renders STRAP extendable to bio-scientists as well as to bio-informaticians. Scientists with basic computer skills are capable of implementing statistical methods or embedding existing bioinformatical tools in STRAP themselves. For bio-informaticians STRAP may serve as an environment for rapid prototyping and testing of complex algorithms such as automatic alignment algorithms or phylogenetic methods. Further, STRAP can be applied as an interactive web applet to present data related to a particular protein family and as a teaching tool.

Requirements: JAVA-1.4 or higher.

Availability: http://www.charite.de/bioinf/strap/

Contact: christoph.gille{at}charite.de

* To whom correspondence should be addressed.


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