NAME Bio::Tools::Solubility::Wilkinson - Calculate the probability of a protein to be soluble using the Wilkinson-Harrison model VERSION version 0.100890 SYNOPSIS use Bio::Tools::Solubility::Wilkinson; my $seq = 'MMAEELLVIKP...'; my $s = solubility($seq); DESCRIPTION This module implements a simple method for the prediction of protein solubility, as described by Wilkinson, D.L. and Harrison [1] and modified by Davis [2]. It only takes the primary sequence of the protein as a parameter, and returns the calculated probability that the protein will be expressed in soluble form in *E. Coli*. It uses aminoacid composition to compute the two main parameters found to have strong correlation with solubility: charge average and turn forming residue fraction. For a detailed description of the formula used, check the article by Harrison [3] in the References section. METHODS solubility Returns the probability of the sequence $seq being soluble. $seq should be a correct and validated protein sequence written in one-letter aminoacid code. Any whitespace (spaces, newlines, tabs, etc) will be ignored. my $probability = solubility($seq); This function is exported by default. Customize your imports If you'd like to rename the only imported subroutine for some reason, you can do: use Bio::Tools::Solubility::Wilkinson solubility => { -as => 'solubility_wilkinson' }; use Some::Other::Solubility::Module 'solubility_foo'; my $p1 = solubility_wilkinson($seq); my $p2 = solubility_foo($seq); This (and other goodies) are possible thanks to Sub::Exporter, which is worth checking out. References * [1] Wilkinson, D.L. and Harrison, R.G. (1991). *Predicting the solubility of recombinant proteins in Escherichia coli.* BioTechnology 9, 443-448. * [2] Gregory D. Davis, Claude Elisee, Denton M. Newham, Roger G. Harrison (1999). *New fusion protein systems designed to give soluble expression in Escherichia coli*. Biotechnology and Bioengineering Volume 65 Issue 4, Pages 382 - 388 * [3] R.G. Harrison. 2000. *Expression of soluble heterologous proteins via fusion with NusA protein*. inNovations. 11:4-7. <http://www.biotech.ou.edu/innovations.pdf> AUTHOR Bruno Vecchi <vecchi.b gmail.com> COPYRIGHT AND LICENSE This software is copyright (c) 2010 by Bruno Vecchi. This is free software; you can redistribute it and/or modify it under the same terms as the Perl 5 programming language system itself.