Resource Tools

• The protein machine at the EBI (UK), for DNA to protein translation
• The Protein Colourer at EBI (UK)
• BCM Search Launcher: Gene Feature Searches
• BOXSHADE 3.21, Pretty Printing and Shading of Multiple-Alignment files
• BCM Search Launcher: Sequence Utilities

Sequence similarities (Fasta, BLAST and Blitz programs)

• BLAST at NCBI, GenomeNet
• Blizt at: EBI, EERIE
• Fasta at: EMBL , EEIRE

Alignment

• ClustalW, MAP, PIMA, MSA 2.1 and MEME, with the BCM Search Launcher
• MSA
• Other Formats: BCM Clustal Form, ClustalW MSA,
• Multialign at I.N.R.A.

Domain Search

• CRSeq
• SBase

Pattern Search

• ScanProsite
• BLOCKS
• Profiles
• Motif

Secondary structure prediction

• PSSP
• SSPred
• SOPM

Others

• Fold predict: UCLA
• pI and MW determination
• Homology Modeling
• Dali, The output is a alignement with proteins of similar structure