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

Last Reviewed on: 2011-12-15    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
contributes_to core RNA polymerase binding transcription factor activity	IC: Inferred By Curator from holo TFIIH complex Assigned on 2011-12-15	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
cyclin-dependent protein serine/threonine kinase regulator activity	IGI: Inferred from Genetic Interaction with SGD:KIN28 Assigned on 2011-12-15 IPI: Inferred from Physical Interaction with SGD:KIN28 Assigned on 2011-12-15	Valay JG, et al.  (1993) The kin28 protein kinase is associated with a cyclin in Saccharomyces cerevisiae. J Mol Biol 234(2):307-10	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
phosphorylation of RNA polymerase II C-terminal domain	IDA: Inferred from Direct Assay Assigned on 2010-05-19	Kim M, et al.  (2009) Phosphorylation of the yeast Rpb1 C-terminal domain at serines 2, 5, and 7. J Biol Chem 284(39):26421-6	SGD
	IDA: Inferred from Direct Assay Assigned on 2010-06-01	Keogh MC, et al.  (2002) Kin28 is found within TFIIH and a Kin28-Ccl1-Tfb3 trimer complex with differential sensitivities to T-loop phosphorylation. Mol Cell Biol 22(5):1288-97	SGD
	IDA: Inferred from Direct Assay Assigned on 2010-05-19	Akhtar MS, et al.  (2009) TFIIH kinase places bivalent marks on the carboxy-terminal domain of RNA polymerase II. Mol Cell 34(3):387-93	SGD
transcription from RNA polymerase II promoter	IDA: Inferred from Direct Assay Assigned on 2010-05-19	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
holo TFIIH complex	IDA: Inferred from Direct Assay Assigned on 2009-10-22	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
TFIIK complex	IDA: Inferred from Direct Assay Assigned on 2010-06-01	Keogh MC, et al.  (2002) Kin28 is found within TFIIH and a Kin28-Ccl1-Tfb3 trimer complex with differential sensitivities to T-loop phosphorylation. Mol Cell Biol 22(5):1288-97	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-11-03	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	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
cyclin-dependent protein serine/threonine kinase regulator activity	IEA: Inferred from Electronic Annotation with EBI:IPR027081 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
protein kinase binding	IEA: Inferred from Electronic Annotation with EBI:IPR015429 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
regulation of cyclin-dependent protein serine/threonine kinase activity	IEA: Inferred from Electronic Annotation with EBI:IPR015429 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
regulation of transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:IPR015429 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-0805 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:IPR027081 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-0804 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
TFIIK complex	IEA: Inferred from Electronic Annotation with EBI:IPR027081 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

*** 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)).