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P29620 (CDKD1_ORYSJ) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 106. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Cyclin-dependent kinase D-1

Short name=CDKD;1
EC=2.7.11.22
EC=2.7.11.23
Alternative name(s):
CDC2+/CDC28-related protein kinase R2
CDK-activating kinase R2
Short name=CAK-R2
Gene names
Name:CDKD-1
Synonyms:R2
Ordered Locus Names:Os05g0392300, LOC_Os05g32600
ORF Names:OJ1764_D01.12
OrganismOryza sativa subsp. japonica (Rice) [Reference proteome]
Taxonomic identifier39947 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza

Protein attributes

Sequence length424 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.6 Ref.9 Ref.10 Ref.11

Catalytic activity

ATP + a protein = ADP + a phosphoprotein.

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

Subunit structure

Interacts with CYCH1-1. Ref.9

Subcellular location

Nucleus Ref.10.

Tissue specificity

Expressed in actively dividing cells of roots, leaves and shoots. Expressed in the intercalary meristem and the elongation zone of internodes. Ref.5 Ref.8 Ref.9 Ref.10

Developmental stage

Expression reaches a peak in the G1/S phases and then decreases in the G2/M phases. Ref.5 Ref.10

Induction

By gibberellic acid (GA3) and submergence in the meristematic zone of internodes. Down-regulated by auxin. Ref.5 Ref.7 Ref.10 Ref.12

Sequence similarities

Belongs to the protein kinase superfamily. CMGC Ser/Thr protein kinase family. CDC2/CDKX subfamily.

Contains 1 protein kinase domain.

Sequence caution

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

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 424424Cyclin-dependent kinase D-1
PRO_0000086074

Regions

Domain19 – 299281Protein kinase
Nucleotide binding25 – 339ATP By similarity

Sites

Active site1411Proton acceptor By similarity
Binding site481ATP By similarity

Amino acid modifications

Modified residue291Phosphothreonine By similarity
Modified residue301Phosphotyrosine By similarity
Modified residue1681Phosphoserine By similarity
Modified residue1741Phosphothreonine By similarity

Sequences

Sequence LengthMass (Da)Tools
P29620 [UniParc].

Last modified April 1, 1993. Version 1.
Checksum: 28606BE7120BB048

FASTA42447,613
        10         20         30         40         50         60 
MASGDGGDDA GVKRVADRYL KREVLGEGTY GVVFKAVDTK TGNTVAIKKI RLGKYKEGVN 

        70         80         90        100        110        120 
FTALREIKLL KELKDSNIIE LIDAFPYKGN LHLVFEFMET DLEAVIRDRN IVLSPADTKS 

       130        140        150        160        170        180 
YIQMMLKGLA FCHKKWVLHR DMKPNNLLIG ADGQLKLADF GLARIFGSPE RNFTHQVFAR 

       190        200        210        220        230        240 
WYRAPELLFG TKQYGSAVDI WAAGCIFAEL LLRRPFLQGS SDIDQLGKIF AAFGTPKSSQ 

       250        260        270        280        290        300 
WPDMVYLPDY VEYQFVSAPP LRSLFPMASD DALDLLSRMF TYDPKARITA QQALEHRYFL 

       310        320        330        340        350        360 
SVPAPTKPSQ LPRPPPKGDS GNNKIPDLNL QDGPVVLSPP RKLRRVTAHE GMEVHMHRAD 

       370        380        390        400        410        420 
RTEEHPSGAR HMDDMSSQSS RIPMSVDVGA IFGTRPAPRP TLNSADKSRL KRKLDMDPEF 


GYTE 

« Hide

References

« Hide 'large scale' references
[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]"A fine physical map of the rice chromosome 5."
Cheng C.-H., Chung M.C., Liu S.-M., Chen S.-K., Kao F.Y., Lin S.-J., Hsiao S.-H., Tseng I.C., Hsing Y.-I.C., Wu H.-P., Chen C.-S., Shaw J.-F., Wu J., Matsumoto T., Sasaki T., Chen H.-C., Chow T.-Y.
Mol. Genet. Genomics 274:337-345(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Nipponbare.
[3]"The map-based sequence of the rice genome."
International rice genome sequencing project (IRGSP)
Nature 436:793-800(2005) [PubMed] [Europe PMC] [Abstract]
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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X58194 mRNA. Translation: CAA41172.1.
AC107085 Genomic DNA. Translation: AAV31263.1. Sequence problems.
AP008211 Genomic DNA. Translation: BAF17364.1.
PIRS13934.
RefSeqNP_001055450.1. NM_001061985.1.
UniGeneOs.2689.

3D structure databases

ProteinModelPortalP29620.
SMRP29620. Positions 21-314.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID4338689.
KEGGosa:4338689.

Organism-specific databases

GrameneP29620.

Phylogenomic databases

eggNOGCOG0515.
KOK02202.
OMATYAVVYR.
ProtClustDBCLSN2679882.

Family and domain databases

InterProIPR011009. 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]
PfamPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTSM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMSSF56112. SSF56112. 1 hit.
PROSITEPS00107. PROTEIN_KINASE_ATP. 1 hit.
PS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameCDKD1_ORYSJ
AccessionPrimary (citable) accession number: P29620
Secondary accession number(s): Q0DIF9, Q60ES0
Entry history
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: April 1, 1993
Last modified: April 16, 2014
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Oryza sativa (rice)

Index of Oryza sativa entries and their corresponding gene designations