PlantCyc 12.0

Parent

Overview

PlantCyc is a metabolic pathway reference database containing more than 1000 pathways and their catalytic enzymes and genes, as well as compounds from over 350 plant species (See Database Statistics).

  • The majority of the pathways have been curated from experimental literature by curators at the PMN and collaborators' sites. In addition, PlantCyc includes hypothetical pathways that are published in peer-reviewed journals based on the educated conjectures of experts, and computationally predicted pathways that have been manually validated by PMN curators.
  • Similarly, enzymes in PlantCyc may have experimental support or may be based solely on computational predictions.
  • For both pathways and enzymes, evidence codes are assigned to clearly indicate the type of support associated with these database items.
Protein Sequence Source: 

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Functional Annotation Method: 

Varies according to source: All enzymes have been imported from PMN databases or MetaCyc.

Enzyme Evidence: 
  • Substantial manual curation of enzymes
  • In addition, large-scale computational predictions of enzyme function not subject to curator review
Pathway Prediction Program: 
All pathways have been manually imported from PMN databases or MetaCyc
SAVI pathway validation lists: 
Pathway Evidence: 
  • Substantial manual curation of pathways
  • Some computational prediction of pathways followed by SAVI refinement and curator review
  • Additional pathways imported from MetaCyc based on curator inference