Research tools

• EndNote
  for Orgnizing References
• Jun's tools
  
• ExPASy Proteomics tools
  
• PROTEIN ANALYSIS TOOLS; LISTED BY FUNCTION
  
• BioMol
  

Protein Families

• AAA
• CBS Domains
• Chaperonins
• Esterases
• Glucocorticoid Receptors
• Homeobox
• Inteins - Protein Introns
• Kinesins
• Nuclear Receptor Resource

Databases

• The ExPASy Molecular Biology Server of the University of Geneva: contains searchable indexes of the SWISS-PROT and PROSITE databases.
• NCBI WWW Entrez Browser: contains searchable indexes of the MEDLINE database.
• The Prints Protein Motif Fingerprint Database.
• The Pfam Protein Family Database.
• The ProDom Protein Domain Database.
• Peer Bork's Modules.
• SCOP: Structural Classification of Proteins.
• Protein Structure

Miscellaneous

• The CLUSTALW multiple alignment package at the European Bioinformatics Institute in England.
• The PHYLIP phylogeny package.
• Tom Schneider's Sequence Logos site.