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Protein

Cyclin-dependent kinase D-1

Gene

CDKD-1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

ATP + a protein = ADP + a phosphoprotein.
ATP + [DNA-directed RNA polymerase] = ADP + [DNA-directed RNA polymerase] phosphate.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei40 – 401ATPCurated
Active sitei133 – 1331Proton acceptorPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi17 – 259ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

  • cell differentiation Source: TAIR
  • regulation of cell cycle Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Serine/threonine-protein kinase, Transferase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciARA:AT1G73690-MONOMER.
ReactomeiREACT_283822. Formation of incision complex in GG-NER.
REACT_299202. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_301789. mRNA Capping.
REACT_305979. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
REACT_310119. Dual incision reaction in TC-NER.
REACT_328596. RNA Polymerase II Pre-transcription Events.
REACT_329274. RNA Polymerase II Transcription Initiation.
REACT_331196. RNA Polymerase II Transcription Initiation And Promoter Clearance.
REACT_331484. Formation of the Early Elongation Complex.
REACT_335210. RNA Polymerase II Promoter Escape.
REACT_341827. Cyclin A:Cdk2-associated events at S phase entry.
REACT_342907. Dual incision reaction in GG-NER.
REACT_344308. RNA Pol II CTD phosphorylation and interaction with CE.
REACT_351850. Cyclin A/B1 associated events during G2/M transition.

Names & Taxonomyi

Protein namesi
Recommended name:
Cyclin-dependent kinase D-1 (EC:2.7.11.22, EC:2.7.11.23)
Short name:
CDKD;1
Alternative name(s):
CDK-activating kinase 3-At
Short name:
CAK3-At
Gene namesi
Name:CDKD-1
Ordered Locus Names:At1g73690
ORF Names:F25P22.11
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G73690.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi40 – 401K → R: Prevents autophosphorylation. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 398398Cyclin-dependent kinase D-1PRO_0000293119Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei22 – 221PhosphotyrosineBy similarity
Modified residuei160 – 1601PhosphoserineBy similarity
Modified residuei166 – 1661PhosphothreonineBy similarity

Post-translational modificationi

Autophosphorylated.

Keywords - PTMi

Phosphoprotein

Proteomic databases

PRIDEiQ9C9U2.

Expressioni

Tissue specificityi

Expressed at low levels in suspension cell culture, but not in plant organs.1 Publication

Interactioni

Protein-protein interaction databases

BioGridi28923. 18 interactions.
IntActiQ9C9U2. 2 interactions.
STRINGi3702.AT1G73690.1.

Structurei

3D structure databases

ProteinModelPortaliQ9C9U2.
SMRiQ9C9U2. Positions 7-325.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini11 – 291281Protein kinasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 protein kinase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0515.
HOGENOMiHOG000233024.
InParanoidiQ9C9U2.
KOiK02202.
OMAiHKENLHI.
PhylomeDBiQ9C9U2.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF56112. SSF56112. 1 hit.
PROSITEiPS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9C9U2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEQPKKVADR YLKREVLGQG TYGVVFKATD TKNGETVAIK KIRLGKEKEG
60 70 80 90 100
VNVTALREIK LLKELKHPHI IELIDAFPHK ENLHIVFEFM ETDLEAVIRD
110 120 130 140 150
RNLYLSPGDV KSYLQMILKG LEYCHGKWVL HRDMKPNNLL IGPNGQLKLA
160 170 180 190 200
DFGLARIFGS PGRKFTHQVF ARWYRAPELL FGAKQYDGAV DVWAAGCIFA
210 220 230 240 250
ELLLRRPFLQ GNSDIDQLSK IFAAFGTPKA DQWPDMICLP DYVEYQFVPA
260 270 280 290 300
PSLRSLLPTV SEDALDLLSK MFTYDPKSRI SIQQALKHRY FTSAPSPTDP
310 320 330 340 350
LKLPRPVSKQ DAKSSDSKLE AIKVLSPAHK FRRVMPDRGK SGNGFKDQSV
360 370 380 390
DVMRQASHDG QAPMSLDFTI LAERPPNRPT ITSADRSHLK RKLDLEFL
Length:398
Mass (Da):45,138
Last modified:June 1, 2001 - v1
Checksum:i32BA95E61E6D2C45
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB047275 mRNA. Translation: BAB62844.1.
AC012679 Genomic DNA. Translation: AAG52081.1.
CP002684 Genomic DNA. Translation: AEE35498.1.
AY063843 mRNA. Translation: AAL36199.1.
AY091227 mRNA. Translation: AAM14166.1.
PIRiA96764.
RefSeqiNP_177510.1. NM_106028.3.
UniGeneiAt.17996.

Genome annotation databases

EnsemblPlantsiAT1G73690.1; AT1G73690.1; AT1G73690.
GeneIDi843704.
KEGGiath:AT1G73690.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB047275 mRNA. Translation: BAB62844.1.
AC012679 Genomic DNA. Translation: AAG52081.1.
CP002684 Genomic DNA. Translation: AEE35498.1.
AY063843 mRNA. Translation: AAL36199.1.
AY091227 mRNA. Translation: AAM14166.1.
PIRiA96764.
RefSeqiNP_177510.1. NM_106028.3.
UniGeneiAt.17996.

3D structure databases

ProteinModelPortaliQ9C9U2.
SMRiQ9C9U2. Positions 7-325.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi28923. 18 interactions.
IntActiQ9C9U2. 2 interactions.
STRINGi3702.AT1G73690.1.

Proteomic databases

PRIDEiQ9C9U2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G73690.1; AT1G73690.1; AT1G73690.
GeneIDi843704.
KEGGiath:AT1G73690.

Organism-specific databases

GeneFarmi3285. 109.
TAIRiAT1G73690.

Phylogenomic databases

eggNOGiCOG0515.
HOGENOMiHOG000233024.
InParanoidiQ9C9U2.
KOiK02202.
OMAiHKENLHI.
PhylomeDBiQ9C9U2.

Enzyme and pathway databases

BioCyciARA:AT1G73690-MONOMER.
ReactomeiREACT_283822. Formation of incision complex in GG-NER.
REACT_299202. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_301789. mRNA Capping.
REACT_305979. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
REACT_310119. Dual incision reaction in TC-NER.
REACT_328596. RNA Polymerase II Pre-transcription Events.
REACT_329274. RNA Polymerase II Transcription Initiation.
REACT_331196. RNA Polymerase II Transcription Initiation And Promoter Clearance.
REACT_331484. Formation of the Early Elongation Complex.
REACT_335210. RNA Polymerase II Promoter Escape.
REACT_341827. Cyclin A:Cdk2-associated events at S phase entry.
REACT_342907. Dual incision reaction in GG-NER.
REACT_344308. RNA Pol II CTD phosphorylation and interaction with CE.
REACT_351850. Cyclin A/B1 associated events during G2/M transition.

Miscellaneous databases

PROiQ9C9U2.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF56112. SSF56112. 1 hit.
PROSITEiPS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Differential phosphorylation activities of CDK-activating kinases in Arabidopsis thaliana."
    Shimotohno A., Matsubayashi S., Yamaguchi M., Uchimiya H., Umeda M.
    FEBS Lett. 534:69-74(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
  2. "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana."
    Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K.
    , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W.
    Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  4. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Columbia.
  5. "Genome-wide analysis of core cell cycle genes in Arabidopsis."
    Vandepoele K., Raes J., de Veylder L., Rouze P., Rombauts S., Inze D.
    Plant Cell 14:903-916(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE FAMILY, NOMENCLATURE.
  6. "The plant-specific kinase CDKF;1 is involved in activating phosphorylation of cyclin-dependent kinase-activating kinases in Arabidopsis."
    Shimotohno A., Umeda-Hara C., Bisova K., Uchimiya H., Umeda M.
    Plant Cell 16:2954-2966(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, MUTAGENESIS OF LYS-40.
  7. "Cell cycle regulation in plant development."
    Inze D., de Veylder L.
    Annu. Rev. Genet. 40:77-105(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.

Entry informationi

Entry nameiCDKD1_ARATH
AccessioniPrimary (citable) accession number: Q9C9U2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 10, 2007
Last sequence update: June 1, 2001
Last modified: June 24, 2015
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.