• 1) Introduction
• 2) ePSORTdb
• 3) cPSORTdb
• 4) Using PSORTdb
• 5) ePSORTdb Fields
• 6) cPSORTdb Fields

ePSORTdb

ePSORTdb is a dataset of proteins whose subcellular localization (SCL) proteins has been verified by laboratory experimentation. This dataset was used to train PSORTb, our automated SCL predictor for bacterial proteins, and is currently the largest dataset of its kind available to date for bacteria. Localizations were manually assigned to each protein in the dataset by searching the literature (through the PubMed database or other literature sources, such as microbiology textbooks) for experimentally derived information. For the new version, proteins with sub-category localizations (proteins targeted to specialized organelles or to the host cell) have an additional secondary localization annotation.

The following table describes the subcellular localization sites used to annotate proteins in ePSORTdb.

	Gram Negative	Gram Positive	Archaea
Single SCL	Cytoplasmic (C)	Cytoplasmic (C)	Cytoplasmic (C)
	Cytoplasmic membrane (CM)	Cytoplasmic membrane (CM)	Cytoplasmic membrane (CM)
	Periplasmic (P)
		Cell wall (CW)	Cell wall (CW)
	Outer membrane (OM)
	Extracellular (E)	Extracellular (E)	Extracellular (E)
Multiple SCL	Cytoplasmic/Cytoplasmic membrane (C/CM)	Cytoplasmic/Cytoplasmic membrane (C/CM)	Cytoplasmic/Cytoplasmic membrane (C/CM)
	Cytoplasmic membrane/Periplasmic (CM/P)	Cytoplasmic membrane/Cell Wall (CM/CW)
	Periplasmic/Outer membrane (P/OM)
	Outer membrane/Extracellular (OM/E)
Secondary SCL	Flagellar	Flagellar
	Fimbrial	Fimbrial
	Type III secretion apparatus (T3SS)
	Host-associated	Host-associated
		Spore

As of August 2004, ePSORTdb includes 2165 bacterial proteins (1591 from Gram-negative and 574 from Gram-positive bacteria). For January 2009, the size of ePSORTdb has expanded to over 11,000 proteins (8230 from Gram-negative bacteria, 2652 from Gram-positive bacteria, and 810 archaeal proteins).

ePSORTdb can be searched using a variety of fields. The specific fields available in ePSORTdb are described here.