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P29620

- CDKD1_ORYSJ

UniProt

P29620 - CDKD1_ORYSJ

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Protein
Cyclin-dependent kinase D-1
Gene
CDKD-1, R2, Os05g0392300, LOC_Os05g32600, OJ1764_D01.12
Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

CDK-activating kinase that may control G1/S phase progression. May control the rate of cell differentiation to accomplish proper development of organs, or in response to a changing environment. Forms a complex with cyclin CYCH1-1 that phosphorylates CDKA-1 and the C-terminal domain (CTD) of the large subunit of RNA polymerase II.4 Publications

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 sitei48 – 481ATP By similarity
Active sitei141 – 1411Proton acceptor By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi25 – 339ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. RNA polymerase II carboxy-terminal domain kinase activity Source: UniProtKB-EC
  3. cyclin-dependent protein serine/threonine kinase activity Source: UniProtKB-EC

GO - Biological processi

  1. cell division Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Serine/threonine-protein kinase, Transferase

Keywords - Biological processi

Cell cycle, Cell division

Keywords - Ligandi

ATP-binding, Nucleotide-binding

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):
CDC2+/CDC28-related protein kinase R2
CDK-activating kinase R2
Short name:
CAK-R2
Gene namesi
Name:CDKD-1
Synonyms:R2
Ordered Locus Names:Os05g0392300, LOC_Os05g32600
ORF Names:OJ1764_D01.12
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
ProteomesiUP000000763: Chromosome 5

Organism-specific databases

GrameneiP29620.

Subcellular locationi

Nucleus 1 Publication

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 424424Cyclin-dependent kinase D-1
PRO_0000086074Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei29 – 291Phosphothreonine By similarity
Modified residuei30 – 301Phosphotyrosine By similarity
Modified residuei168 – 1681Phosphoserine By similarity
Modified residuei174 – 1741Phosphothreonine By similarity

Keywords - PTMi

Phosphoprotein

Expressioni

Tissue specificityi

Expressed in actively dividing cells of roots, leaves and shoots. Expressed in the intercalary meristem and the elongation zone of internodes.4 Publications

Developmental stagei

Expression reaches a peak in the G1/S phases and then decreases in the G2/M phases.2 Publications

Inductioni

By gibberellic acid (GA3) and submergence in the meristematic zone of internodes. Down-regulated by auxin.4 Publications

Interactioni

Subunit structurei

Interacts with CYCH1-1.1 Publication

Structurei

3D structure databases

ProteinModelPortaliP29620.
SMRiP29620. Positions 21-314.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 299281Protein kinase
Add
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0515.
KOiK02202.
OMAiCHRNWIL.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase_dom.
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.

P29620-1 [UniParc]FASTAAdd to Basket

« Hide

MASGDGGDDA GVKRVADRYL KREVLGEGTY GVVFKAVDTK TGNTVAIKKI    50
RLGKYKEGVN FTALREIKLL KELKDSNIIE LIDAFPYKGN LHLVFEFMET 100
DLEAVIRDRN IVLSPADTKS YIQMMLKGLA FCHKKWVLHR DMKPNNLLIG 150
ADGQLKLADF GLARIFGSPE RNFTHQVFAR WYRAPELLFG TKQYGSAVDI 200
WAAGCIFAEL LLRRPFLQGS SDIDQLGKIF AAFGTPKSSQ WPDMVYLPDY 250
VEYQFVSAPP LRSLFPMASD DALDLLSRMF TYDPKARITA QQALEHRYFL 300
SVPAPTKPSQ LPRPPPKGDS GNNKIPDLNL QDGPVVLSPP RKLRRVTAHE 350
GMEVHMHRAD RTEEHPSGAR HMDDMSSQSS RIPMSVDVGA IFGTRPAPRP 400
TLNSADKSRL KRKLDMDPEF GYTE 424
Length:424
Mass (Da):47,613
Last modified:April 1, 1993 - v1
Checksum:i28606BE7120BB048
GO

Sequence cautioni

The sequence AAV31263.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X58194 mRNA. Translation: CAA41172.1.
AC107085 Genomic DNA. Translation: AAV31263.1. Sequence problems.
AP008211 Genomic DNA. Translation: BAF17364.1.
PIRiS13934.
RefSeqiNP_001055450.1. NM_001061985.1.
UniGeneiOs.2689.

Genome annotation databases

GeneIDi4338689.
KEGGiosa:4338689.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X58194 mRNA. Translation: CAA41172.1 .
AC107085 Genomic DNA. Translation: AAV31263.1 . Sequence problems.
AP008211 Genomic DNA. Translation: BAF17364.1 .
PIRi S13934.
RefSeqi NP_001055450.1. NM_001061985.1.
UniGenei Os.2689.

3D structure databases

ProteinModelPortali P29620.
SMRi P29620. Positions 21-314.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4338689.
KEGGi osa:4338689.

Organism-specific databases

Gramenei P29620.

Phylogenomic databases

eggNOGi COG0515.
KOi K02202.
OMAi CHRNWIL.

Family and domain databases

InterProi IPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
IPR002290. Ser/Thr_dual-sp_kinase_dom.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view ]
Pfami PF00069. Pkinase. 1 hit.
[Graphical view ]
SMARTi SM00220. S_TKc. 1 hit.
[Graphical view ]
SUPFAMi SSF56112. SSF56112. 1 hit.
PROSITEi PS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "cDNA cloning of a novel cdc2+/CDC28-related protein kinase from rice."
    Hata S.
    FEBS Lett. 279:149-152(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Nipponbare.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  4. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  5. "Differential expression of a CAK (cdc2-activating kinase)-like protein kinase, cyclins and cdc2 genes from rice during the cell cycle and in response to gibberellin."
    Sauter M.
    Plant J. 11:181-190(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, INDUCTION.
  6. "A rice homolog of Cdk7/MO15 phosphorylates both cyclin-dependent protein kinases and the carboxy-terminal domain of RNA polymerase II."
    Yamaguchi M., Umeda M., Uchimiya H.
    Plant J. 16:613-619(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "Adventitious root growth and cell-cycle induction in deepwater rice."
    Lorbiecke R., Sauter M.
    Plant Physiol. 119:21-30(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  8. "Differential expression of genes for cyclin-dependent protein kinases in rice plants."
    Umeda M., Umeda-Hara C., Yamaguchi M., Hashimoto J., Uchimiya H.
    Plant Physiol. 119:31-40(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY.
  9. "Activation of CDK-activating kinase is dependent on interaction with H-type cyclins in plants."
    Yamaguchi M., Fabian T., Sauter M., Bhalerao R.P., Schrader J., Sandberg G., Umeda M., Uchimiya H.
    Plant J. 24:11-20(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, INTERACTION WITH CYCH1-1.
  10. "The rice cyclin-dependent kinase-activating kinase R2 regulates S-phase progression."
    Fabian-Marwedel T., Umeda M., Sauter M.
    Plant Cell 14:197-210(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, INDUCTION.
  11. "Control of in vitro organogenesis by cyclin-dependent kinase activities in plants."
    Yamaguchi M., Kato H., Yoshida S., Yamamura S., Uchimiya H., Umeda M.
    Proc. Natl. Acad. Sci. U.S.A. 100:8019-8023(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  12. "Genome-wide identification and expression analysis of rice cell cycle genes."
    Guo J., Song J., Wang F., Zhang X.S.
    Plant Mol. Biol. 64:349-360(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION AND GENE FAMILY.

Entry informationi

Entry nameiCDKD1_ORYSJ
AccessioniPrimary (citable) accession number: P29620
Secondary accession number(s): Q0DIF9, Q60ES0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: April 1, 1993
Last modified: May 14, 2014
This is version 107 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. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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