CTD kinase subunit beta - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P46962 (CTK2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 110. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
CTD kinase subunit beta
Short name=CTDK-I subunit beta

Alternative name(s):
CTD kinase 38 kDa subunit
CTD kinase subunit 2

Gene names

Name:	CTK2
Ordered Locus Names:	YJL006C
ORF Names:	J1390

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	323 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. CTDK-I phosphorylates 'Ser-5' if the CTD substrate is not phosphorylated at 'Ser-5', but will phosphorylate 'Ser-2' of a CTD substrate if 'Ser-5' is already phosphorylated. CTDK-I is also more reactive toward substrates that are prephosphorylated at 'Ser-2' or 'Ser-5' compared with an unphosphorylated CTD substrate, therefore efficiently creating doubly phosphorylated CTD repeats. Involved in RNA polymerase II transcriptional elongation, and as part of the CTDK-I complex, pre-mRNA 3'-end processing and SET2 mediated H3K36 methylation. Together with CTK3, required for CTK1 CTD kinase activation. Required for DNA damage induced transcription. Involved in the adaptation to alternative carbon sources, including galactose, glycerol and ethanol, but not raffinose. Required for the integrity of the rDNA locus. Ref.4 Ref.7 Ref.8 Ref.11 Ref.13 Ref.14
Subunit structure	CTDK-I consists of three subunits, CTK1, CTK2 and CTK3 (also called alpha, beta and gamma). Interacts with CTK1. Heterodimerization with CTK3 is required to protect this subunit from degradation. Ref.1 Ref.6
Subcellular location	Nucleus › nucleolus Ref.9 Ref.12.
Post-translational modification	Phosphorylated. Ubiquitinated. Phosphorylation and ubiquitination lead to degradation in growth-related way by the ubiquitin-proteasome pathway. Neither phosphorylation nor degradation requires association with CTK1. Ref.5
Disruption phenotype	Null mutants are viable, but grow more slowly than wild-type cells at 30 degrees Celsius. They are cold-sensitive, failing to grow at 12 degrees Celsius. They display flocculent growth in liquid media and they show abnormal cell morphologies, for example, a significant fraction of the cells are greatly enlarged. Deletion mutant is sensitive to the DNA synthesis inhibitor hydroxyurea (HU) and UV irradiation. Ref.1 Ref.7
Miscellaneous	Present with 1590 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the cyclin family.

Ontologies

Keywords
Biological process	DNA damage Transcription mRNA processing
Cellular component	Nucleus
Molecular function	Cyclin
PTM	Phosphoprotein Ubl conjugation
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	cell cycle Inferred from physical interaction Ref.1. Source: GOC mRNA 3'-end processing Inferred by curator Ref.6. Source: SGD positive regulation of DNA-dependent transcription, elongation Inferred from direct assay Ref.4. Source: SGD positive regulation of transcription from RNA polymerase I promoter Inferred from mutant phenotype Ref.12. Source: SGD positive regulation of translational fidelity Inferred from physical interaction PubMed 17545469. Source: SGD protein phosphorylation Inferred from physical interaction Ref.1. Source: SGD regulation of cyclin-dependent protein serine/threonine kinase activity Inferred from electronic annotation. Source: InterPro response to DNA damage stimulus Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	carboxy-terminal domain protein kinase complex Inferred from physical interaction Ref.1. Source: SGD nucleolus Inferred from direct assay Ref.12. Source: SGD nucleoplasm Inferred from direct assay Ref.12. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
CTK1	Q03957	10	EBI-5236,EBI-5230
CTK3	P46963	10	EBI-5236,EBI-5241

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 323

323

CTD kinase subunit beta

PRO_0000080507

Sequences

Sequence

Length

Mass (Da)

Tools

P46962 [UniParc].

Last modified November 1, 1995. Version 1.
Checksum: 7C18FA672778D8FD
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FASTA

323

37,905

        10         20         30         40         50         60 
MPSTFESQLF FSRPFLSKRQ IQRAQKNTIS DYRNYNQKKL AVFKFLSDLC VQLKFPRKTL 

        70         80         90        100        110        120 
ETAVYFYQRY HLFNRFETEV CYTVATSCLT LGCKEVETIK KTNDICTLSL RLRNVVKINT 

       130        140        150        160        170        180 
DILENFKKRV FQIELRILES CSFDYRVNNY VHIDEYVIKI GRELSFDYKL CNLAWVIAYD 

       190        200        210        220        230        240 
ALKLETILVI PQHSIALAIL KIAYELLDNK NWSSKRYSLF ETDEKSVNEA YFDIVNFYIN 

       250        260        270        280        290        300 
SFDMCDLQRH LPADLLPIGV ERFMELKKNA GPESGLPQIP DHLLNADPYI TITRDNNVQE 

       310        320 
RRYVLSLELI NGESSINSST RHA

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The yeast carboxyl-terminal repeat domain kinase CTDK-I is a divergent cyclin-cyclin-dependent kinase complex." Sterner D.E., Lee J.M., Hardin S.E., Greenleaf A.L. Mol. Cell. Biol. 15:5716-5724(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 217-225, CTD KINASE ACTIVITY, SUBUNIT, DISRUPTION PHENOTYPE.
[2]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Modulation of RNA polymerase II elongation efficiency by C-terminal heptapeptide repeat domain kinase I." Lee J.M., Greenleaf A.L. J. Biol. Chem. 272:10990-10993(1997) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN RNA POLYMERASE II TRANSCRIPTION.
[5]	"The yeast C-type cyclin Ctk2p is phosphorylated and rapidly degraded by the ubiquitin-proteasome pathway." Hautbergue G., Goguel V. Mol. Cell. Biol. 19:2527-2534(1999) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION, UBIQUITINATION.
[6]	"Activation of the cyclin-dependent kinase CTDK-I requires the heterodimerization of two unstable subunits." Hautbergue G., Goguel V. J. Biol. Chem. 276:8005-8013(2001) [PubMed] [Europe PMC] [Abstract] Cited for: CTK1 ACTIVATION, INTERACTION WITH CTK1 AND CTK3.
[7]	"Budding yeast CTDK-I is required for DNA damage-induced transcription." Ostapenko D., Solomon M.J. Eukaryot. Cell 2:274-283(2003) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, DISRUPTION PHENOTYPE.
[8]	"Phosphorylation of RNA polymerase II CTD regulates H3 methylation in yeast." Xiao T., Hall H., Kizer K.O., Shibata Y., Hall M.C., Borchers C.H., Strahl B.D. Genes Dev. 17:654-663(2003) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN H3 METHYLATION.
[9]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[10]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[11]	"C-terminal repeat domain kinase I phosphorylates Ser2 and Ser5 of RNA polymerase II C-terminal domain repeats." Jones J.C., Phatnani H.P., Haystead T.A., MacDonald J.A., Alam S.M., Greenleaf A.L. J. Biol. Chem. 279:24957-24964(2004) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION OF THE CTDK-I COMPLEX.
[12]	"CTD kinase I is involved in RNA polymerase I transcription." Bouchoux C., Hautbergue G., Grenetier S., Carles C., Riva M., Goguel V. Nucleic Acids Res. 32:5851-5860(2004) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION.
[13]	"Glucose deprivation mediates interaction between CTDK-I and Snf1 in Saccharomyces cerevisiae." Van Driessche B., Coddens S., Van Mullem V., Vandenhaute J. FEBS Lett. 579:5318-5324(2005) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN ADAPTATION TO ALTERNATIVE CARBON SOURCES.
[14]	"CTD kinase I is required for the integrity of the rDNA tandem array." Grenetier S., Bouchoux C., Goguel V. Nucleic Acids Res. 34:4996-5006(2006) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION IN THE INTEGRITY OF RDNA.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U30295 Genomic DNA. Translation: AAC49077.1. Z49281 Genomic DNA. Translation: CAA89296.1. BK006943 Genomic DNA. Translation: DAA08785.1.
PIR	S56777.
RefSeq	NP_012528.1. NM_001181440.1.
3D structure databases
ProteinModelPortal	P46962.
SMR	P46962. Positions 44-215.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-2105N.
IntAct	P46962. 6 interactions.
MINT	MINT-563465.
STRING	4932.YJL006C.
Proteomic databases
PaxDb	P46962.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YJL006C; YJL006C; YJL006C.
GeneID	853450.
KEGG	sce:YJL006C.
Organism-specific databases
CYGD	YJL006c.
SGD	S000003543. CTK2.
Phylogenomic databases
eggNOG	COG5333.
HOGENOM	HOG000112044.
KO	K15564.
OMA	IRERRYV.
OrthoDB	EOG4CZFQV.
Gene expression databases
Genevestigator	P46962.
GermOnline	YJL006C. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	1.10.472.10. 1 hit.
InterPro	IPR013763. Cyclin-like. IPR015429. Cyclin_C/H/T/L. IPR006671. Cyclin_N. [Graphical view]
PANTHER	PTHR10026. PTHR10026. 1 hit.
Pfam	PF00134. Cyclin_N. 1 hit. [Graphical view]
SMART	SM00385. CYCLIN. 1 hit. [Graphical view]
SUPFAM	SSF47954. Cyclin_like. 2 hits.
PROSITE	PS00292. CYCLINS. False negative. [Graphical view]
ProtoNet	Search...
Other
NextBio	974009.

Entry information

Entry name

CTK2_YEAST

Accession

Primary (citable) accession number: P46962
Secondary accession number(s): D6VWG9

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	November 1, 1995
Last modified:	May 1, 2013
This is version 110 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome X

Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents