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© Oxford University Press

SEQSEE: a comprehensive program suite for protein sequence analysis

David S. Wishart , Robert F. Boyko , Leigh Willard , Frederic M. Richards 1 and Brian D. Sykes 2

Protein Engineering Network of Centres of Excellence, Department of Biochemistry, University of Alberta Edmonton, Alberta, Canada T6G 2S2
1Department of Molecular Biophysics and Biochemistry, Yale University New Haven, CT 06511. USA

2To whom reprint requests should be sent

SEQSEE (SEQuence SEEker) is a multi-purpose, menu-driven suite of programs designed to provide a fully integrated, state-of-the-art package for the analysis and display of protein sequences and protein databases. It is currently configured to run on most UNIX-based machines including Sun, SGI and NeXT workstations with conversion to other architectures (e.g. Vox or Cray) being a relatively simple task. SEQSEE is capable of performing nearly all of the analytical and comparative tasks found in most comprehensive commercially available software packages. These include sequence/database searching, sequence retrieval, sequence entry and editing, statistical sequence analysis, multiple sequence alignment, flexible pattern matching, and secondary structure prediction. SEQSEE also integrates a number of unique databases which allow it to perform many additional functions such as structure-based sequence alignments and homology-based secondary structure prediction. Additional enhancements to many previously published algorithms have substantially improved the performance of SEQSEE over that found for most other commercial products. The source code, the documentation and all of the required databases for SEQSEE are freely available and may be obtained by anonymous ftp.


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