This page displays GO annotations in different sections according to the annotation method used to add that annotation to SGD.

Last Reviewed on: 2010-05-27    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
GTPase activity	IDA: Inferred from Direct Assay Assigned on 2010-05-27	Wagner P, et al.  (1987) Biochemical properties of the ras-related YPT protein in yeast: a mutational analysis. EMBO J 6(8):2373-9	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-09-15	Richardson CJ, et al.  (1998) GTP hydrolysis is not important for Ypt1 GTPase function in vesicular transport. Mol Cell Biol 18(2):827-38	SGD
SNARE binding	IDA: Inferred from Direct Assay Assigned on 2010-05-27 IPI: Inferred from Physical Interaction with SGD:UFE1 Assigned on 2010-05-27	Kamena F, et al.  (2008) Ypt1p is essential for retrograde Golgi-ER transport and for Golgi maintenance in S. cerevisiae. J Cell Sci 121(Pt 8):1293-302	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
COPII-coated vesicle budding	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Ballew N, et al.  (2005) A Rab requirement is not bypassed in SLY1-20 suppression. Mol Biol Cell 16(4):1839-49	SGD
CVT pathway	IMP: Inferred from Mutant Phenotype Assigned on 2010-06-21	Lynch-Day MA, et al.  (2010) Trs85 directs a Ypt1 GEF, TRAPPIII, to the phagophore to promote autophagy. Proc Natl Acad Sci U S A 107(17):7811-6	SGD
early endosome to Golgi transport	IMP: Inferred from Mutant Phenotype Assigned on 2010-02-01	Sclafani A, et al.  (2010) Establishing a role for the GTPase Ypt1p at the late Golgi. Traffic 11(4):520-32	SGD
endocytic recycling	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Sclafani A, et al.  (2010) Establishing a role for the GTPase Ypt1p at the late Golgi. Traffic 11(4):520-32	SGD
ER to Golgi vesicle-mediated transport	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Ballew N, et al.  (2005) A Rab requirement is not bypassed in SLY1-20 suppression. Mol Biol Cell 16(4):1839-49	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-09-15	Jedd G, et al.  (1995) The Ypt1 GTPase is essential for the first two steps of the yeast secretory pathway. J Cell Biol 131(3):583-90	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Bacon RA, et al.  (1989) The GTP-binding protein Ypt1 is required for transport in vitro: the Golgi apparatus is defective in ypt1 mutants. J Cell Biol 109(3):1015-22	SGD
Golgi vesicle budding	IGI: Inferred from Genetic Interaction with SGD:SLY1 Assigned on 2008-09-11	Kamena F, et al.  (2008) Ypt1p is essential for retrograde Golgi-ER transport and for Golgi maintenance in S. cerevisiae. J Cell Sci 121(Pt 8):1293-302	SGD
Golgi vesicle docking	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Cao X, et al.  (1998) Initial docking of ER-derived vesicles requires Uso1p and Ypt1p but is independent of SNARE proteins. EMBO J 17(8):2156-65	SGD
macroautophagy	IMP: Inferred from Mutant Phenotype Assigned on 2010-06-21	Lynch-Day MA, et al.  (2010) Trs85 directs a Ypt1 GEF, TRAPPIII, to the phagophore to promote autophagy. Proc Natl Acad Sci U S A 107(17):7811-6	SGD
protein complex assembly	IDA: Inferred from Direct Assay Assigned on 2002-07-31	Sapperstein SK, et al.  (1996) Assembly of the ER to Golgi SNARE complex requires Uso1p. J Cell Biol 132(5):755-67	SGD
retrograde vesicle-mediated transport, Golgi to ER	IGI: Inferred from Genetic Interaction with SGD:SLY1 Assigned on 2008-09-11 IMP: Inferred from Mutant Phenotype Assigned on 2008-09-11	Kamena F, et al.  (2008) Ypt1p is essential for retrograde Golgi-ER transport and for Golgi maintenance in S. cerevisiae. J Cell Sci 121(Pt 8):1293-302	SGD
SNARE complex disassembly	IMP: Inferred from Mutant Phenotype Assigned on 2010-05-27	Lupashin VV and Waters MG  (1997) t-SNARE activation through transient interaction with a rab-like guanosine triphosphatase. Science 276(5316):1255-8	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
endoplasmic reticulum membrane	IDA: Inferred from Direct Assay Assigned on 2001-01-18	Cao X and Barlowe C  (2000) Asymmetric requirements for a Rab GTPase and SNARE proteins in fusion of COPII vesicles with acceptor membranes. J Cell Biol 149(1):55-66	SGD
Golgi membrane	IDA: Inferred from Direct Assay Assigned on 2001-01-18	Cao X and Barlowe C  (2000) Asymmetric requirements for a Rab GTPase and SNARE proteins in fusion of COPII vesicles with acceptor membranes. J Cell Biol 149(1):55-66	SGD
Golgi stack	IDA: Inferred from Direct Assay Assigned on 2010-05-27	Calero M, et al.  (2003) Dual prenylation is required for Rab protein localization and function. Mol Biol Cell 14(5):1852-67	SGD
pre-autophagosomal structure	IDA: Inferred from Direct Assay Assigned on 2010-06-21	Lynch-Day MA, et al.  (2010) Trs85 directs a Ypt1 GEF, TRAPPIII, to the phagophore to promote autophagy. Proc Natl Acad Sci U S A 107(17):7811-6	SGD
trans-Golgi network	IDA: Inferred from Direct Assay Assigned on 2010-02-01	Sclafani A, et al.  (2010) Establishing a role for the GTPase Ypt1p at the late Golgi. Traffic 11(4):520-32	SGD

* Manually curated GO annotations reflect our best understanding of the basic molecular function, biological process, and cellular component for this gene product. Manually curated annotations are assigned by SGD curators based on published papers when available, or by curatorial statements if necessary. Curators periodically review all Manually curated GO annotations for accuracy and completeness. The "Last Reviewed on:" date at the top of this section indicates when these annotations were last reviewed.

Cellular Component

High-throughput Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
mitochondrion	IDA: Inferred from Direct Assay Assigned on 2006-12-12	Reinders J, et al.  (2006) Toward the complete yeast mitochondrial proteome: multidimensional separation techniques for mitochondrial proteomics. J Proteome Res 5(7):1543-54	SGD
	IDA: Inferred from Direct Assay Assigned on 2004-09-28	Sickmann A, et al.  (2003) The proteome of Saccharomyces cerevisiae mitochondria. Proc Natl Acad Sci U S A 100(23):13207-12	SGD

** GO annotations from High-throughput experiments are made based on a variety of large scale high-throughput experiments, including genome-wide experiments. Many of these annotations are made based on GO annotations (or mappings to GO annotations) assigned by the authors, rather than SGD curators. While SGD curators read these publications and often work closely with authors to incorporate the information, each individual annotation may not necessarily be reviewed by a curator. GO Annotations from high-throughput experiments will be assigned only when this type of data is available, and thus may not be assigned in all three aspects of the Gene Ontologies.

Molecular Function | Biological Process | Cellular Component

Computational Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
GTP binding	IEA: Inferred from Electronic Annotation with EBI:IPR001806, EBI:IPR005225, EBI:IPR003579 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
	IEA: Inferred from Electronic Annotation with EBI:KW-0342 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
nucleotide binding	IEA: Inferred from Electronic Annotation with EBI:KW-0547 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
protein transport	IEA: Inferred from Electronic Annotation with EBI:IPR003579 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
	IEA: Inferred from Electronic Annotation with EBI:KW-0653 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
small GTPase mediated signal transduction	IEA: Inferred from Electronic Annotation with EBI:IPR001806, EBI:IPR003579 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
transport	IEA: Inferred from Electronic Annotation with EBI:KW-0813 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
vesicle-mediated transport	IEA: Inferred from Electronic Annotation with EBI:KW-0931 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

Computational Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
cytoplasm	IEA: Inferred from Electronic Annotation with EBI:SL-0086 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
	IEA: Inferred from Electronic Annotation with EBI:KW-0963 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
endoplasmic reticulum	IEA: Inferred from Electronic Annotation with EBI:KW-0256 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
endoplasmic reticulum membrane	IEA: Inferred from Electronic Annotation with EBI:SL-0097 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
Golgi apparatus	IEA: Inferred from Electronic Annotation with EBI:KW-0333 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
Golgi membrane	IEA: Inferred from Electronic Annotation with EBI:SL-0134 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
membrane	IEA: Inferred from Electronic Annotation with EBI:KW-0472 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

*** Computational GO Annotations are predictions. These annotations are NOT reviewed by a curator. Currently, all computational GO annotations for S. cerevisiae are assigned by an external source (for example, the Gene Ontology Annotation (GOA) project of the European Bioinformatics Institute (EBI)).