http://humancyc.org/
CPDB
http://www.consensuspathdb.org/
Works for Human, Yeast and Mouse
http://www.wikipathways.org/index.php/WikiPathways
http://www.webgestalt.org/
String
http://string-db.org/
Protein interactions for many organisms
David
https://david.ncifcrf.gov/
Can help to annotate, classify your proteins
Some other super fancy links I need to have closer look at in the near future:
http://bost.ocks.org/mike/algorithms/
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