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P46962 (CTK2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 119. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended 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
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length323 AA.
Sequence statusComplete.
Protein existenceEvidence 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

Nucleusnucleolus 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 processDNA damage
mRNA processing
Transcription
   Cellular componentNucleus
   Molecular functionCyclin
   PTMPhosphoprotein
Ubl conjugation
   Technical termComplete proteome
Direct protein sequencing
Reference proteome
Gene Ontology (GO)
   Biological_processcellular response to DNA damage stimulus

Inferred from electronic annotation. Source: UniProtKB-KW

mRNA 3'-end processing

Inferred by curator Ref.6. Source: SGD

positive regulation of DNA-templated 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

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentcytosol

Inferred from direct assay PubMed 22932476. Source: SGD

nucleolus

Inferred from direct assay Ref.12. Source: SGD

nucleoplasm

Inferred from direct assay Ref.12. Source: SGD

nucleus

Inferred from direct assay PubMed 22932476. Source: SGD

trimeric positive transcription elongation factor complex b

Inferred from direct assay Ref.1. Source: SGD

   Molecular_functionprotein binding

Inferred from physical interaction Ref.6PubMed 11805826PubMed 16429126PubMed 18467557PubMed 18719252PubMed 20489023. Source: IntAct

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

CTK1Q0395710EBI-5236,EBI-5230
CTK3P4696310EBI-5236,EBI-5241

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 323323CTD kinase subunit beta
PRO_0000080507

Sequences

Sequence LengthMass (Da)Tools
P46962 [UniParc].

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

FASTA32337,905
        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' 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. expand/collapse author list , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[3]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
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.
PIRS56777.
RefSeqNP_012528.1. NM_001181440.1.

3D structure databases

ProteinModelPortalP46962.
SMRP46962. Positions 44-215.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid33750. 179 interactions.
DIPDIP-2105N.
IntActP46962. 6 interactions.
MINTMINT-563465.
STRING4932.YJL006C.

Proteomic databases

MaxQBP46962.
PaxDbP46962.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYJL006C; YJL006C; YJL006C.
GeneID853450.
KEGGsce:YJL006C.

Organism-specific databases

CYGDYJL006c.
SGDS000003543. CTK2.

Phylogenomic databases

eggNOGCOG5333.
HOGENOMHOG000112044.
KOK15564.
OMAIRERRYV.
OrthoDBEOG7Z95X4.

Enzyme and pathway databases

BioCycYEAST:G3O-31484-MONOMER.

Gene expression databases

GenevestigatorP46962.

Family and domain databases

Gene3D1.10.472.10. 1 hit.
InterProIPR013763. Cyclin-like.
IPR015429. Cyclin_C/H/T/L.
IPR006671. Cyclin_N.
[Graphical view]
PANTHERPTHR10026. PTHR10026. 1 hit.
PfamPF00134. Cyclin_N. 1 hit.
[Graphical view]
SMARTSM00385. CYCLIN. 1 hit.
[Graphical view]
SUPFAMSSF47954. SSF47954. 2 hits.
ProtoNetSearch...

Other

NextBio974009.
PROP46962.

Entry information

Entry nameCTK2_YEAST
AccessionPrimary (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: June 11, 2014
This is version 119 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome X

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

Yeast

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

SIMILARITY comments

Index of protein domains and families