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PRotein Ontology (PRO) Release 29.0, version 0
30-August-2012

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 29.0 (30-August-2012). 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 29.0, version 0:

There are 29726 PRO terms
     321 terms are in the 'family' category.
   18980 terms are in the 'gene' category.
    1560 terms are in the 'sequence' category.
    6285 terms are in the 'modification' category.
     127 terms are in the 'complex' category.
       4 terms are in the 'organism-family' category.
     876 terms are in the 'organism-gene' category.
     599 terms are in the 'organism-sequence' category.
     533 terms are in the 'organism-modification' category.
     236 terms are in the 'organism-complex' category.
      16 terms are in the 'union' category.
1687 terms have some kind of annotation, codifying the information from 1177 papers.
    2466 connections to GO (878 PRO terms).
     374 connections to MOD (327 PRO terms).
     607 connections to Pfam (363 PRO terms).
     338 connections to SO (317 PRO terms).
     344 annotations of a phenotype (337 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.

_New in this release_

1) Definitions for gene category terms now have a prototype organism indicated (e.g. "human SMAD2"). This is to prevent description duplication when different organisms use the same gene name for different proteins.

_Forthcoming changes_

1) GO molecular function terms to be added to promapping.obo file.
2) Function-based classes (e.g. "kinase") will be created, for automatic classification of annotated proteins
3) General modification classes (e.g. "phosphoprotein") will be created.

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