||AGI accession number; gene name
||AGI protein accession number. This protein is the representative of a protein group that share a same set or a subset of peptides.
||Description (Standard Annotation) retrieved from TAIR
||number of amino acids
||Subplastidial localization based on % of spectral count in Envelope, Stroma or Thylakoid subfractions (Ferro et al., 2010).
||Subcellular or subplastidial localization compiled from Ferro et al., 2010, previous proteomic studies, targeting prediction and bibliography.
||Calculated PI (PPDB)
||Calculated isoelectric point. Information retrieved from PPDB.
|Calculated MW (PPDB)
||Molecular mass of the protein in kiloDalton. Information retrieved from PPDB.
||Envelope Spectral Count: % of spectra recovered in the purified envelope fraction (Ferro et al., 2010).
||Stroma Spectral Count: % of spectra recovered in the purified stroma fraction (Ferro et al., 2010).
||Thylakoid Spectral Count: % of spectra recovered in the purified thylakoid fraction (Ferro et al., 2010).
||Total spectral count retrieved from the chloroplast proteins in Ferro et al., 2010.
||Manual annotation of the functional classification
||Literature references, crude data extracted from various protein databases, % of similarity with orthologues or paralogues, domains etc.
||MapManBin functional classification. Information retrieved from PPDB.
||Subcellular or subplastidial localization as described in TAIR.
||Prediction of plastid localization using ChloroP (http://www.cbs.dtu.dk/services/ChloroP/)
||Prediction of subcellular localization using TargetP (http://www.cbs.dtu.dk/services/TargetP/)
||Curated localization (PPDB)
||Curated subcellular or subplastidial localization as stated in PPDB.
||Number of transmembrane helices as found in the Aramemnon database (http://aramemnon.botanik.uni-koeln.de/)
||List of most subcellular targeted proteomics studies (MedLine numbers) in which the protein was identified. Information retrieved from PPDB.
|Reference of the experiment
||The reference name of this experiment such as "at_chloro_v1" (Ferro et al. 2010), "thylakoïd_sub_compartments" (Tomizioli et al., 2014) and "cam_bp" (Dell'Aglio et al., 2013).
||Reference date for a given experiment (release of the data).
|Log Fold Change
||As described in Tomizioli et al., 2014 to discriminate proteins that are diffenretially distributed between BBY/grana and stroma-lamellae fractions.
||As described in Tomizioli et al., 2014, a p-value <0.05 indicates that the proteins is diffenrentially distributed in the BBY/grana or the stroma-lamellae fractions.
|Differentially distributed proteins high or medium
||Subthylakoid location (BBY = BBY/Grana fraction; LAM = stroma-lamellae fraction; see Tomizioli et al., 2014).