PRotein Ontology (PRO) Release 45.0, version 0
07-April-2015

The Protein Ontology Consortium--Protein Information Resource, The Jackson Laboratory, Reactome, and the Department of Philosophy at the State University of New York at Buffalo--is pleased to announce PRO Release 45.0 (07 April 2015). PRO describes the relationships of proteins and protein evolutionary classes, delineates the multiple protein forms of a gene locus (ontology for protein forms), protein complexes, and interconnects existing ontologies. Further information is available at http://pir.georgetown.edu/pro/.

In PRO Release 45.0, version 0:

There are 223338 PRO terms in the pro_full.obo file. Those representing individual proteins are mapped to 152500 UniProtKB sequences.
      54 terms are in the 'external' category.
     368 terms are in the 'family' category.
   23581 terms are in the 'gene' category.
    8306 terms are in the 'sequence' category.
    6668 terms are in the 'modification' category.
     214 terms are in the 'complex' category.
      16 terms are in the 'organism-family' category.
  114946 terms are in the 'organism-gene' category.
   66948 terms are in the 'organism-sequence' category.
    1608 terms are in the 'organism-modification' category.
     374 terms are in the 'organism-complex' category.
      38 terms are in the 'union' category.
2376 terms have some kind of annotation, codifying the information from 1583 papers.
    4198 connections to GO (1572 PRO terms).
     292 connections to MOD (255 PRO terms).
     620 connections to Pfam (373 PRO terms).
     338 connections to SO (317 PRO terms).
     349 annotations of a phenotype (342 PRO terms).

The ontology includes a subset of terms from GO, MOD, CHEBI, and SO ontologies that are used for logical definitions. If using OBO Edit to view PRO, please turn on the reasoner in order to display the hierarchy.

_Current changes_

Starting from release 45.0 the distribution file promapping.obo will not longer be provided as it is now included in the main onlogy file (pro.obo).

_Forthcoming changes_

1) Starting on Release 47 the format for the PAF file will change. Columns number 15 (Protein_region) and 16 (Modified_residue(s), MOD_ID) will be removed, as all the information about the region and modification are now contained in the ontology file. 

2) Continue to add shorthand labels to terms.

3) Resolve names and synonym duplicates.




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