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NAR Molecular Biology Database Collection entry number 114
Caspi, Ron1; Altman, Tomer1; Dreher, Kate2; Fulcher, Carol1; Subhraveti, Pallavi1; Keseler, Ingrid1; Kothari, Anamika1; Krummenacker, Markus1; Latendresse, Mario1; Mueller, Lukas3; Ong, Quang1; Paley, Suzanne1; Pujar, Anuradha3; Shearer, Alexander1; Travers, Michael1; Weerasinghe, Deepika1; Zhang, Peifen2; Karp, Peter1
1SRI International, 333 Ravenswood, Menlo Park, CA 94025, 2Department of Plant Biology, Carnegie Institution, 260 Panama Street, Stanford, CA 94305 and 3Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, NY 14853, USA .

Database Description

MetaCyc is a metabolic-pathway database that describes more than 1,100 pathways and 5,000 enzymes occurring in 1,500 organisms (version 12.1, June 2008). The pathways in MetaCyc were determined experimentally, and are labeled with the species in which they are known to occur based on literature references examined to date. MetaCyc contains extensive commentary and literature citations. Applications of MetaCyc include pathway analysis of genomes, metabolic engineering, and biochemistry education. MetaCyc is queried using the Pathway Tools graphical user interface, which provides a wide variety of query operations and visualization tools. MetaCyc is available through the WWW at the URL provided and is available for local installation as a binary program for the Macintosh, PC, and Linux, and as a set of flatfiles.

Recent Developments

79 new pathways have been added to MetaCyc in the past year, and a new PC version of MetaCyc coupled with the Pathway/Genome Navigator software is now available.


This work was supported by grant 1-R01-RR07861-01 from the Comparative Medicine Program at the National Center for Research Resources.

Subcategory: Metabolic pathways

Go to the abstract in the NAR 2014 Database Issue.
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