To download all of the plant metabolic pathway databases hosted by the PMN, including AraCyc, please fill out and submit the license agreement form.

The complete download, together with the Pathway Tools software, will allow a user to install and have a local copy of AraCyc/PlantCyc, just like the one visible from the PMN web site. In addition, all of the BioCyc format flat files and a complete biopax.owl file are available as part of this download. You can get more details about the format of all the file types from BioCyc.

Additional custom flat files containing data extracted from the latest PMN release can be freely downloaded without a license:

• PlantCyc pathways (plantcyc_dump)
• PlantCyc compounds (Note:This file ONLY contains compounds used in PlantCyc pathways)
• AraCyc pathways (aracyc_dump)
• AraCyc compounds (Note:This file ONLY contains compounds used in AraCyc pathways)
• PoplarCyc pathways (poplarcyc_dump)
• PoplarCyc compounds (Note:This file ONLY contains compounds used in PoplarCyc pathways)

The two BLAST sets provided by the PMN can also be downloaded without registration:

• PlantCyc Enzymes (from PlantCyc release 2.0)
• Reference Enzymes (from October 2009)
• AraCyc Enzymes (from AraCyc release 7.0)
• PoplarCyc Enzymes (from PoplarCyc release 2.0)

The PMN has also generated two lists of pathways that are used to help expedite the validation process when generating new single-species databases.

• The Non-plant Pathway (NPP) list contains pathways that are present in the multi-kingdom MetaCyc pathway database but that are not expected to exist in any plant species.
  (The NPP list can be used to quickly and accurately prune false positive predictions from new single-species databases)


• The Universal Plant Pathway (UPP) list contains pathways that are expected to occur in all land plants. This list is not yet comprehensive and will grow over time.
  (The UPP list can be used to quickly and accurately add missing pathways that should have been predicted for new plant pathway databases)


• The NPP and UPP lists have been reviewed by members of the PMN Editorial Board. Additional feedback from users is welcome.