What is a mapping?

These files contain concepts from external database systems, such as Enzyme Commission numbers, UniProt keywords, or ProSite domains, indexed to identical, similar or related GO terms. The mappings are typically made manually; details can be found in the file headers.

Mappings should be used as a guide only.

Although we endeavour to make mappings as accurate as possible, we cannot guarantee that the mappings provided by the GO project are either complete or exact. This may be due to the absence of definitions from GO terms or from terms in some external systems; the GO ontologies and the external database may also have changed since the mapping was made. Please report any errors or suggest alternatives to the GO helpdesk.

Using and citing a mapping

If you have used a mapping in a publication or presentation, please ensure that you cite both the GO project and the source of the mapping (detailed below). See the GO citation guide for citing the GO project.

Mapping Format

Mapping files are in the format:

More details can be found in the File Format Guide.

Mappings File Directory

Direct access to the mappings file directory is available via the following routes:

• by web browser
• via the CVS web interface
• by CVS, in the directory go/external2go/

Back to top

The Mappings

Mappings of external databases to GO

Mapping	Last update	Download
COG functional categories Clusters of Orthologous Groups (COG) Constructed by Michael Ashburner and Jane Lomax	June 2004	txt
Enzyme Commission (EC) enzyme numbers Enzyme Commission; contact: ontology-editors@genome.stanford.edu (GO ontology editors) Constructed and maintained in the GO ontology file by GO editorial staff Citation: Hill DP, Davis AP, Richardson JE, Corradi JP, Ringwald M, Eppig JT, Blake JA. Program description: Strategies for biological annotation of mammalian systems: implementing gene ontologies in mouse genome informatics. Genomics. May 2001;74(1):121–8. [ PMID:11374909 | doi:10.1006/geno.2001.6513 ]	Monthly	txt
Expressed Gene Anatomy Database Expressed Gene Anatomy Database (EGAD) Constructed by Michael Ashburner	Oct 2000	txt
E. coli Genome and Proteome functional categories E. coli Genome and Proteome (GenProtEC) Constructed by Heather Butler and Michael Ashburner	Dec 2000	txt
HAMAP families High-Quality Automated and Manual Annotation of Microbial Proteomes (HAMAP); contact: goa@ebi.ac.uk (GOA team) Mapping generated by the HAMAP and UniProtKB GOA teams Citation: Lima T, Auchincloss AH, Coudert E, Keller G, Michoud K, Rivoire C, Bulliard V, de Castro E, Lachaize C, Baratin D, Phan I, Bougueleret L, Bairoch A. HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot. Nucleic Acids Res.. Jan 2009;37(Database issue):D471–8. [ PMID:18849571 | doi:10.1093/nar/gkn661 ]	Monthly	txt
InterPro protein families, domains and functional sites InterPro; contact: interhelp@ebi.ac.uk (InterPro team) Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
MetaCyc pathways and reactions MetaCyc; contact: ontology-editors@genome.stanford.edu (GO ontology editors) Constructed and maintained in the GO ontology file by GO editorial staff	Daily	txt
MIPS FunCat MIPS Functional Catalogue (FunCat) Constructed by Michael Ashburner and Midori Harris	Jan 2006	txt
MultiFun cell function assignment schema classifications MultiFun Constructed by Michael Ashburner, Jane Lomax and Margrethe Hauge Serres.	Dec 2005	txt
Pfam domains Pfam; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
PIRSF protein superfamilies PIRSF; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
PRINTS domains PRINTS; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
ProDom domains ProDom; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
ProSite domains ProSite; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
Reactome events and catalyst activities Reactome Constructed by Reactome curators and maintained in the GO ontology file by GO editorial staff	Daily	txt
Rfam RNA families Rfam Constructed and maintained by Sam Griffiths-Jones and Jennifer Daub.	May 2006	txt
SMART domains SMART; contact: interhelp@ebi.ac.uk (InterPro team) This mapping is generated from data supplied by InterPro for the InterPro2GO mapping. Citation: Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C. InterPro: the integrative protein signature database. Nucleic Acids Res.. Jan 2009;37(Database issue):D211–5. [ PMID:18940856 | doi:10.1093/nar/gkn785 ]	Monthly	txt
JCVI (TIGRFAM) protein families JCVI (TIGRFAM) protein families Constructed by Michelle Gwinn and other TIGR staff.	Monthly	txt
JCVI roles JCVI roles Constructed by Michael Ashburner	Jan 2004	txt
UniProt Knowledgebase Mapping of GO terms to UniProt Knowledgebase keywords. This mapping is generated by the UniProtKB and UniProtKB-GOA teams. [was SwissProt keyword] UniProt; contact: goa@ebi.ac.uk (GOA team) Citation: Barrell D, Dimmer E, Huntley RP, Binns D, O'Donovan C, Apweiler R. The GOA database in 2009--an integrated Gene Ontology Annotation resource. Nucleic Acids Res.. Jan 2009;37(Database issue):D396–403. [ PMID:18957448 | doi:10.1093/nar/gkn803 ]	Monthly	txt
UM-BBD enzyme IDs University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD); contact: ontology-editors@genome.stanford.edu (GO ontology editors) Maintained in the GO ontology file by GO editorial staff	Daily	txt
UM-BBD pathway IDs University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD); contact: ontology-editors@genome.stanford.edu (GO ontology editors) Maintained in the GO ontology file by GO editorial staff	Daily	txt
UniProt subcellular location UniProt; contact goa@ebi.ac.uk (GOA team) Citation: Barrell D, Dimmer E, Huntley RP, Binns D, O'Donovan C, Apweiler R. The GOA database in 2009--an integrated Gene Ontology Annotation resource. Nucleic Acids Res.. Jan 2009;37(Database issue):D396–403. [ PMID:18957448 | doi:10.1093/nar/gkn803 ]	Monthly	txt

N.B. Files listed as being updated monthly are completely regenerated during the monthly GOA release. Minor corrections to files are not mentioned here, and only comprehensive updates are listed.

Back to top