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Protein

3-phosphoinositide-dependent protein kinase 1

Gene

PDPK1

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

Functioni

May couple lipid signals to the activation-loop phosphorylation of several protein kinases of the so-called AGC kinase family. Interacts via its pleckstrin homology domain with phosphatidic acid, PtdIns3P and PtdIns(3,4)P2 and to a lesser extent with PtdIns(4,5)P2 and PtdIns4P. May play a general role in signaling processes controlling the pathogen/stress response, polar auxin transport and development. Transphosphorylates the AGC protein kinases OXI1/AGC2-1, PK1/S6K1, PK19/S6K2 and PID resulting in their activation.5 Publications

Catalytic activityi

ATP + a protein = ADP + a phosphoprotein.1 Publication

Enzyme regulationi

Activated by phosphatidic acid (PA) and in response to the fungal elicitor xylanase.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei73ATPBy similarity1
Binding sitei128ATPBy similarity1
Active sitei167Proton acceptorPROSITE-ProRule annotation1
Binding sitei171ATP; via carbonyl oxygenBy similarity1
Binding sitei185ATPBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi54 – 56ATPBy similarity3
Nucleotide bindingi122 – 124ATPBy similarity3

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • kinase activity Source: TAIR
  • phosphatidic acid binding Source: UniProtKB
  • phosphatidylinositol binding Source: TAIR
  • protein kinase activity Source: UniProtKB
  • protein serine/threonine kinase activity Source: TAIR

GO - Biological processi

  • intracellular signal transduction Source: GO_Central
  • peptidyl-serine phosphorylation Source: GO_Central
  • positive regulation of protein kinase activity Source: TAIR
  • protein autophosphorylation Source: UniProtKB

Keywordsi

Molecular functionKinase, Serine/threonine-protein kinase, Transferase
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-ATH-1257604 PIP3 activates AKT signaling
R-ATH-165158 Activation of AKT2
R-ATH-202424 Downstream TCR signaling
R-ATH-2730905 Role of LAT2/NTAL/LAB on calcium mobilization
R-ATH-389357 CD28 dependent PI3K/Akt signaling
R-ATH-444257 RSK activation
R-ATH-5218920 VEGFR2 mediated vascular permeability

Names & Taxonomyi

Protein namesi
Recommended name:
3-phosphoinositide-dependent protein kinase 1 (EC:2.7.11.1)
Short name:
AtPDK1
Gene namesi
Name:PDPK1
Synonyms:PDK1
Ordered Locus Names:At5g04510
ORF Names:T32M21.110
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 5

Organism-specific databases

AraportiAT5G04510
TAIRilocus:2184357 AT5G04510

Subcellular locationi

Keywords - Cellular componenti

Cytoplasm, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi167D → A: Abolishes autophosphorylation. 1 Publication1
Mutagenesisi176T → A: Strongly reduces autophosphorylation. 1 Publication1
Mutagenesisi177S → A: Reduces autophosphorylation. 1 Publication1
Mutagenesisi211T → A: Strongly reduces autophosphorylation. 1 Publication1
Mutagenesisi276S → A: Abolishes autophosphorylation. 1 Publication1
Mutagenesisi382S → A: Slightly reduces autophosphorylation. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003999021 – 4913-phosphoinositide-dependent protein kinase 1Add BLAST491

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei177Phosphoserine1 Publication1
Modified residuei211Phosphothreonine; by autocatalysis1 Publication1
Modified residuei276Phosphoserine1 Publication1
Modified residuei337PhosphoserineCombined sources1
Modified residuei382Phosphoserine1 Publication1

Post-translational modificationi

Phosphorylation on Thr-211 in the activation loop is required for full activity. PDK1 itself can autophosphorylate Thr-211, leading to its own activation.1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9XF67

PTM databases

iPTMnetiQ9XF67

Expressioni

Tissue specificityi

Ubiquitous.1 Publication

Gene expression databases

ExpressionAtlasiQ9XF67 baseline and differential
GenevisibleiQ9XF67 AT

Interactioni

Subunit structurei

Interacts with AGC1-5 and AGC1-7 (PubMed:16973627). Interacts with the C-terminal PIF domain of the protein kinases D6PK/AGC1-1, OXI1/AGC2-1 and PID (PubMed:14749726, PubMed:16601102).3 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi156097 interactors.
DIPiDIP-39596N
ELMiQ9XF67
IntActiQ9XF67 16 interactors.
STRINGi3702.AT5G04510.1

Structurei

3D structure databases

ProteinModelPortaliQ9XF67
SMRiQ9XF67
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini44 – 311Protein kinasePROSITE-ProRule annotationAdd BLAST268
Domaini386 – 491PHAdd BLAST106

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni75 – 119PIF-pocketBy similarityAdd BLAST45
Regioni77 – 112PIF-bindingSequence analysisAdd BLAST36
Regioni185 – 222Activation loopAdd BLAST38

Domaini

The PH domain is responsible for the interaction with the 3-phosphoinositides. The activation loop within the kinase domain is the target of phosphorylation. The PIF-binding region in the kinase domain of PDK1 acts as a docking site, enabling it to interact with and enhance the phosphorylation of substrates containing the PIF motif.
The PIF-pocket is a small lobe in the catalytic domain required by the enzyme for the binding to the hydrophobic motif of its substrates. It is an allosteric regulatory site that can accommodate small compounds acting as allosteric inhibitors.By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG0592 Eukaryota
ENOG410XRT8 LUCA
HOGENOMiHOG000233026
InParanoidiQ9XF67
KOiK06276
OMAiQRASVWK
OrthoDBiEOG093607T4
PhylomeDBiQ9XF67

Family and domain databases

Gene3Di2.30.29.301 hit
InterProiView protein in InterPro
IPR011009 Kinase-like_dom_sf
IPR033931 PDK1-typ_PH
IPR011993 PH-like_dom_sf
IPR000719 Prot_kinase_dom
IPR008271 Ser/Thr_kinase_AS
PfamiView protein in Pfam
PF14593 PH_3, 1 hit
PF00069 Pkinase, 1 hit
SMARTiView protein in SMART
SM00220 S_TKc, 1 hit
SUPFAMiSSF56112 SSF56112, 1 hit
PROSITEiView protein in PROSITE
PS50011 PROTEIN_KINASE_DOM, 1 hit
PS00108 PROTEIN_KINASE_ST, 1 hit

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q9XF67-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MLAMEKEFDS KLVLQGNSSN GANVSRSKSF SFKAPQENFT SHDFEFGKIY
60 70 80 90 100
GVGSYSKVVR AKKKETGTVY ALKIMDKKFI TKENKTAYVK LERIVLDQLE
110 120 130 140 150
HPGIIKLYFT FQDTSSLYMA LESCEGGELF DQITRKGRLS EDEARFYTAE
160 170 180 190 200
VVDALEYIHS MGLIHRDIKP ENLLLTSDGH IKIADFGSVK PMQDSQITVL
210 220 230 240 250
PNAASDDKAC TFVGTAAYVP PEVLNSSPAT FGNDLWALGC TLYQMLSGTS
260 270 280 290 300
PFKDASEWLI FQRIIARDIK FPNHFSEAAR DLIDRLLDTE PSRRPGAGSE
310 320 330 340 350
GYVALKRHPF FNGVDWKNLR SQTPPKLAPD PASQTASPER DDTHGSPWNL
360 370 380 390 400
THIGDSLATQ NEGHSAPPTS SESSGSITRL ASIDSFDSRW QQFLEPGESV
410 420 430 440 450
LMISAVKKLQ KITSKKVQLI LTNKPKLIYV DPSKLVVKGN IIWSDNSNDL
460 470 480 490
NVVVTSPSHF KICTPKKVLS FEDAKQRASV WKKAIETLQN R
Length:491
Mass (Da):54,711
Last modified:November 1, 1999 - v1
Checksum:i2319EE69CDB5CB38
GO

Sequence cautioni

The sequence CAB85557 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF132742 mRNA Translation: AAD37165.1
AL162875 Genomic DNA Translation: CAB85557.1 Different initiation.
CP002688 Genomic DNA Translation: AED90755.1
AF360326 mRNA Translation: AAK26036.1
AY056336 mRNA Translation: AAL07185.1
PIRiT48447
RefSeqiNP_568138.1, NM_120533.5 [Q9XF67-1]
UniGeneiAt.4924

Genome annotation databases

EnsemblPlantsiAT5G04510.1; AT5G04510.1; AT5G04510 [Q9XF67-1]
GeneIDi830330
GrameneiAT5G04510.1; AT5G04510.1; AT5G04510 [Q9XF67-1]
KEGGiath:AT5G04510

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiPDPK1_ARATH
AccessioniPrimary (citable) accession number: Q9XF67
Secondary accession number(s): Q9LZ74
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 2, 2010
Last sequence update: November 1, 1999
Last modified: April 25, 2018
This is version 137 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome