gorule-0000003.md

layout	id	title	contact	status	fail_mode	implementations
rule	GORULE:0000003	Annotations to 'binding ; GO:0005488' and 'protein binding ; GO:0005515' should be made with IPI and an interactor in the 'with' field	[email protected]	Implemented	soft	language source perl http://www.geneontology.org/software/utilities/filter-gene-association.pl code language source SELECT gene_product.symbol, CONCAT(gpx.xref_dbname, ':', gpx.xref_key) AS gpxref, IF(association.is_not=1,"NOT","") AS 'not', term.acc, term.name, evidence.code, db.name AS assigned_by FROM association INNER JOIN gene_product ON association.gene_product_id = gene_product.id INNER JOIN dbxref AS gpx ON gene_product.dbxref_id = gpx.id INNER JOIN term ON association.term_id = term.id INNER JOIN evidence ON association.id = evidence.association_id INNER JOIN db ON association.source_db_id=db.id WHERE evidence.code IN ('NAS','TAS','IDA','IMP','IGC','IEP','ND','IC','RCA','EXP', 'IGI') AND (term.acc = 'GO:0005515' OR term.acc = 'GO:0005488') SQL

Annotations to binding : GO:0005488 or protein binding ; GO:0005515 with the TAS, NAS, IC, IMP, IGI and IDA evidence codes are not informative as they do not allow the interacting partner to be specified. If the nature of the binding partner is known (protein or DNA for example), an appropriate child term of binding ; GO:0005488 should be chosen for the annotation. In the case of chemicals, ChEBI IDs can go in the 'with' column. Children of protein binding ; GO:0005515 where the type of protein is identified in the GO term name do not need further specification.

For more information, see the binding guidelines on the GO wiki.