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Protein

Cyclin-dependent kinase D-3

Gene

CDKD-3

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

Functioni

May form a stable complex with cyclin CYCH1-1 that phosphorylates human CDK2 and the C-terminal domain (CTD) of the large subunit of RNA polymerase II.2 Publications

Catalytic activityi

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

Enzyme regulationi

Activated by phosphorylation by CDKF-1.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei41ATPCurated1
Active sitei134Proton acceptorPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi18 – 26ATPPROSITE-ProRule annotation9

GO - Molecular functioni

GO - Biological processi

  • cell cycle Source: UniProtKB-KW
  • cell division Source: UniProtKB-KW
  • regulation of cell cycle Source: TAIR
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

Enzyme and pathway databases

ReactomeiR-ATH-113418. Formation of the Early Elongation Complex.
R-ATH-5696395. Formation of Incision Complex in GG-NER.
R-ATH-674695. RNA Polymerase II Pre-transcription Events.
R-ATH-6781823. Formation of TC-NER Pre-Incision Complex.
R-ATH-6782135. Dual incision in TC-NER.
R-ATH-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-ATH-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-ATH-69273. Cyclin A/B1 associated events during G2/M transition.
R-ATH-69656. Cyclin A:Cdk2-associated events at S phase entry.
R-ATH-72086. mRNA Capping.
R-ATH-73776. RNA Polymerase II Promoter Escape.
R-ATH-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-ATH-75953. RNA Polymerase II Transcription Initiation.
R-ATH-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-ATH-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Names & Taxonomyi

Protein namesi
Recommended name:
Cyclin-dependent kinase D-3 (EC:2.7.11.22, EC:2.7.11.23)
Short name:
CDKD;3
Alternative name(s):
CDK-activating kinase 2-At
Short name:
CAK2-At
Gene namesi
Name:CDKD-3
Ordered Locus Names:At1g18040
ORF Names:T10F20.5, T10O22.1
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G18040.

Subcellular locationi

  • Nucleus 1 Publication

GO - Cellular componenti

  • nucleus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi23Y → F: Abolishes phosphorylation by WEE1. 1 Publication1
Mutagenesisi41K → R: Prevents autophosphorylation. 1 Publication1
Mutagenesisi161S → A: Reduces phosphorylation by CDKF-1 by 20%. Abolishes phosphorylation by CDKF-1; when associated with A-167. 1 Publication1
Mutagenesisi167T → A: Reduces phosphorylation by CDKF-1 by 80%. Abolishes phosphorylation by CDKF-1; when associated with A-161. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002931211 – 391Cyclin-dependent kinase D-3Add BLAST391

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei23Phosphotyrosine1 Publication1
Modified residuei161Phosphoserine; by CAK1 Publication1
Modified residuei167Phosphothreonine; by CAK1 Publication1

Post-translational modificationi

Phosphorylated by CDKF-1 at Ser-161 and Thr-167. Phosphorylated at Tyr-23 by WEE1. Autophosphorylated.2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9LMT0.
PRIDEiQ9LMT0.

PTM databases

iPTMnetiQ9LMT0.

Expressioni

Tissue specificityi

Expressed in roots, shoots and suspension cell culture.1 Publication

Gene expression databases

GenevisibleiQ9LMT0. AT.

Interactioni

Subunit structurei

Interacts with CYCH1-1. Binding to CYCH1-1 activates CDK kinase.2 Publications

Protein-protein interaction databases

BioGridi23623. 33 interactors.
IntActiQ9LMT0. 6 interactors.
STRINGi3702.AT1G18040.1.

Structurei

3D structure databases

ProteinModelPortaliQ9LMT0.
SMRiQ9LMT0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini12 – 292Protein kinasePROSITE-ProRule annotationAdd BLAST281

Sequence similaritiesi

Contains 1 protein kinase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0659. Eukaryota.
ENOG410XQDH. LUCA.
HOGENOMiHOG000233024.
InParanoidiQ9LMT0.
KOiK02202.
OMAiGLEYCHR.
OrthoDBiEOG09360B04.
PhylomeDBiQ9LMT0.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
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.

Q9LMT0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEQPKKVAD RYLKQEVLGQ GTYGVVFKAT DTKTEQTVAI KKIRLGKQRE
60 70 80 90 100
GVNITALREI KMLKELKHPH IILLIDAFPH KENLHLVFEF METDLEAVIR
110 120 130 140 150
DSNIFLSPAD IKSYLLMTFK GLAYCHDKWV LHRDMKPNNL LIGVDGQLKL
160 170 180 190 200
ADFGLARIFG SPNRKFTHQV FARWYRAPEL LFGAKQYGAA VDVWAVACIF
210 220 230 240 250
AELLLRRPFL QGNSDIDQLS KIFAAFGTPK ADQWPDLTKL PDYVEYQFVP
260 270 280 290 300
APSLRSLFPA VSDDALDLLS KMFTYDPKAR ISIKQALEHR YFTSAPAPTD
310 320 330 340 350
PAKLPKPVPK QDGKSSYGKH EAITVQSPPR KLRRVMPERG RVDSLKSHVD
360 370 380 390
KDQQAPMSLD FTILAERPPN RPTITSADRS HLKRKLDLEF Q
Length:391
Mass (Da):44,530
Last modified:October 1, 2000 - v1
Checksum:i3FD4A2293283B656
GO

Sequence cautioni

The sequence AAF78394 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB047274 mRNA. Translation: BAB62843.1.
AC034107 Genomic DNA. Translation: AAF97821.1.
AC069551 Genomic DNA. Translation: AAF78394.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE29667.1.
AY099677 mRNA. Translation: AAM20528.1.
AY128857 mRNA. Translation: AAM91257.1.
PIRiH86315.
RefSeqiNP_173244.1. NM_101666.3.
UniGeneiAt.14957.
At.26247.

Genome annotation databases

EnsemblPlantsiAT1G18040.1; AT1G18040.1; AT1G18040.
GeneIDi838384.
GrameneiAT1G18040.1; AT1G18040.1; AT1G18040.
KEGGiath:AT1G18040.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB047274 mRNA. Translation: BAB62843.1.
AC034107 Genomic DNA. Translation: AAF97821.1.
AC069551 Genomic DNA. Translation: AAF78394.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE29667.1.
AY099677 mRNA. Translation: AAM20528.1.
AY128857 mRNA. Translation: AAM91257.1.
PIRiH86315.
RefSeqiNP_173244.1. NM_101666.3.
UniGeneiAt.14957.
At.26247.

3D structure databases

ProteinModelPortaliQ9LMT0.
SMRiQ9LMT0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi23623. 33 interactors.
IntActiQ9LMT0. 6 interactors.
STRINGi3702.AT1G18040.1.

PTM databases

iPTMnetiQ9LMT0.

Proteomic databases

PaxDbiQ9LMT0.
PRIDEiQ9LMT0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G18040.1; AT1G18040.1; AT1G18040.
GeneIDi838384.
GrameneiAT1G18040.1; AT1G18040.1; AT1G18040.
KEGGiath:AT1G18040.

Organism-specific databases

TAIRiAT1G18040.

Phylogenomic databases

eggNOGiKOG0659. Eukaryota.
ENOG410XQDH. LUCA.
HOGENOMiHOG000233024.
InParanoidiQ9LMT0.
KOiK02202.
OMAiGLEYCHR.
OrthoDBiEOG09360B04.
PhylomeDBiQ9LMT0.

Enzyme and pathway databases

ReactomeiR-ATH-113418. Formation of the Early Elongation Complex.
R-ATH-5696395. Formation of Incision Complex in GG-NER.
R-ATH-674695. RNA Polymerase II Pre-transcription Events.
R-ATH-6781823. Formation of TC-NER Pre-Incision Complex.
R-ATH-6782135. Dual incision in TC-NER.
R-ATH-6782210. Gap-filling DNA repair synthesis and ligation in TC-NER.
R-ATH-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-ATH-69273. Cyclin A/B1 associated events during G2/M transition.
R-ATH-69656. Cyclin A:Cdk2-associated events at S phase entry.
R-ATH-72086. mRNA Capping.
R-ATH-73776. RNA Polymerase II Promoter Escape.
R-ATH-73779. RNA Polymerase II Transcription Pre-Initiation And Promoter Opening.
R-ATH-75953. RNA Polymerase II Transcription Initiation.
R-ATH-76042. RNA Polymerase II Transcription Initiation And Promoter Clearance.
R-ATH-77075. RNA Pol II CTD phosphorylation and interaction with CE.

Miscellaneous databases

PROiQ9LMT0.

Gene expression databases

GenevisibleiQ9LMT0. AT.

Family and domain databases

InterProiIPR011009. Kinase-like_dom.
IPR000719. Prot_kinase_dom.
IPR017441. Protein_kinase_ATP_BS.
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...

Entry informationi

Entry nameiCDKD3_ARATH
AccessioniPrimary (citable) accession number: Q9LMT0
Secondary accession number(s): Q9LM42
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 10, 2007
Last sequence update: October 1, 2000
Last modified: November 30, 2016
This is version 126 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

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 one 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.