CommonbeanCyc 3.0

Parent

Overview
Released: 

PMN 14.0 (January 2020)

Taxonomic Range: 
Phaseolus vulgaris
Protein Sequence Source: 

Phytozome v12: Pvulgaris_442_v2.1.protein_primaryTranscriptOnly.fa

Enzyme Functional Annotation Method: 

E2P2v4.0

Enzyme Evidence: 
  • Almost exclusively large-scale computational predictions of enzyme function not subject to curator review
  • Small number of manually curated enzymes
Pathway Prediction Program: 
Pathway Tools 23.0
SAVI pathway validation lists: 

MCP 2.0
AIPP 6.0
CAPP 6.0
CVP 6.0
NPP 9.0
UPP 9.0

Pathway Evidence: 
  • Substantial manual curation of pathways
  • Some computational prediction of pathways followed by curator review
  • Additional pathways imported from MetaCyc based on curator inference
Link to PGDB: 
CommonbeanCyc

  

The PMN is funded by the National Science Foundation (Grant #: 1546838, 1026003 and 0640769) and the Department of Energy (BER Grant #:  ER65472), governed by an Editorial Board composed of internationally renowned scientists, and executed at the Carnegie Institution for Science, Department of Plant Biology.