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Bioinformatics Vol. 15 no. 12 1999
Pages 1064-1065
© 1999 Oxford University Press

Sausage: protein threading with flexible force fields

Thomas Huber 1, Anthony J.Russell 2, Daniel Ayers 2 and Andrew E.Torda 2

1 ANU Supercomputing Facility
2 Research School of Chemistry, Australian National University, Canberra ACT 0200, Australia

To whom correspondence should be addressed.

Summary: Sausage is a protein sequence threading program, but with remarkable run-time flexibility. Using different scripts, it can calculate protein sequence-structure alignments, search structure libraries, swap force fields, create models from alignments, convert file formats and analyse results. There are several different force fields which might be classed as knowledge-based, although they do not rely on Boltzmann statistics. Different force fields are used for alignment calculations and subsequent ranking of calculated models.

Availability: Freely available to academics at ftp://ftp.rsc.anu.edu.au/pub/torda/sausage/README

Contact: Andrew.Torda{at}anu.edu.au

Received on March 28, 1999 ; accepted on June 30, 1999

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