Protein Resources

Web Tools

BLAST:

• NCBI

• ExPASy
• Secondary Structure EMBL

Pairwise and Multiple Alignments - Aligns multiple sequences of the same type, both protein, and nucleic acids:

• TCoffee
• EMBL

Database Searching - Resources that allow users to find sequences based on text or accession number queries:

• NCBI Entrez
• ENSEMBL
• Celera*
• PDB

Phylogeny/Parsimony - Resources to allow the generation trees that provide evolutionary relationship between groups of similar sequences and determine the most probable path of evolution:

• ProtFam

Gene Finding & Pattern Recognition - Resources to allow users to find open reading frames within unknown sequences, patterns in sequences, and get statistics on sequences:

• ORF
• MEME
• MOTIF

Mapping: - Resources to generate a translated peptide from DNA sequences:

• ExPASy
• Transseq

Software Tools

Vector NTI:*

• Pairwise and Multiple Alignments
• Database Searching
• Editing and Publishing
• Pattern Recognition
• Translation
• Physiochemical Analysis

GCG:

• Protein Analysis
• Alignments
• Database Searching
• Phylogeny/Parsimony
• Gene Finding & Pattern Recognition
• Importing/Exporting
• Mapping
• Translation
• Utilities

*Annotates that there are some costs associated with this application.