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Protein

3-phosphoinositide-dependent protein kinase 1

Gene

pdk-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the daf-2/insulin receptor-like transduction pathway, which controls longevity and prevents developmental arrest at the dauer stage. Phosphorylates and activates sgk-1, akt-1 and akt-2.2 Publications

Catalytic activityi

ATP + a protein = ADP + a phosphoprotein.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei98 – 981ATPBy similarity
Binding sitei158 – 1581ATPBy similarity
Active sitei197 – 1971Proton acceptorPROSITE-ProRule annotation
Binding sitei201 – 2011ATP; via carbonyl oxygenBy similarity
Binding sitei215 – 2151ATPBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi79 – 813ATPBy similarity
Nucleotide bindingi152 – 1543ATPBy similarity

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • protein kinase activity Source: WormBase
  • protein serine/threonine kinase activity Source: UniProtKB-KW

GO - Biological processi

  • dauer larval development Source: WormBase
  • learning or memory Source: WormBase
  • protein phosphorylation Source: WormBase
  • regulation of chemotaxis Source: WormBase
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Kinase, Serine/threonine-protein kinase, Transferase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-CEL-114604. GPVI-mediated activation cascade.
R-CEL-1257604. PIP3 activates AKT signaling.
R-CEL-165158. Activation of AKT2.
R-CEL-202424. Downstream TCR signaling.
R-CEL-2730905. Role of LAT2/NTAL/LAB on calcium mobilization.
R-CEL-354192. Integrin alphaIIb beta3 signaling.
R-CEL-389357. CD28 dependent PI3K/Akt signaling.
R-CEL-392451. G beta:gamma signalling through PI3Kgamma.
R-CEL-444257. RSK activation.
R-CEL-5218920. VEGFR2 mediated vascular permeability.
R-CEL-5218921. VEGFR2 mediated cell proliferation.
R-CEL-5625740. RHO GTPases activate PKNs.
SignaLinkiQ9Y1J3.

Names & Taxonomyi

Protein namesi
Recommended name:
3-phosphoinositide-dependent protein kinase 1 (EC:2.7.11.1)
Alternative name(s):
Pdk-class protein kinase 1
Gene namesi
Name:pdk-1
ORF Names:H42K12.1
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome X

Organism-specific databases

WormBaseiH42K12.1a; CE28739; WBGene00003965; pdk-1.
H42K12.1b; CE28740; WBGene00003965; pdk-1.

Subcellular locationi

GO - Cellular componenti

  • axon Source: WormBase
  • cytoplasm Source: UniProtKB-SubCell
  • neuronal cell body Source: WormBase
  • nucleus Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi297 – 2971G → R in sa680; developmental arrest at dauer stage, extended life span, increased body size, low fertility, and defects in egg-laying and social behavior. 1 Publication
Mutagenesisi305 – 3051A → V in mg142; no obvious phenotype. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 6366363-phosphoinositide-dependent protein kinase 1PRO_0000086503Add
BLAST

Proteomic databases

EPDiQ9Y1J3.
PaxDbiQ9Y1J3.
PRIDEiQ9Y1J3.

PTM databases

iPTMnetiQ9Y1J3.

Expressioni

Developmental stagei

Expressed in late stage embryos and throughout life. At L1, expressed in neurons, intestinal cells and hypodermal cells. In adults, expressed in the somatic gonad.1 Publication

Interactioni

Subunit structurei

Interacts directly with sgk-1, akt-1 and akt-2.1 Publication

Protein-protein interaction databases

BioGridi45427. 2 interactions.
DIPiDIP-27322N.
IntActiQ9Y1J3. 3 interactions.
MINTiMINT-1039329.
STRINGi6239.H42K12.1b.

Structurei

3D structure databases

ProteinModelPortaliQ9Y1J3.
SMRiQ9Y1J3. Positions 41-569.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 364296Protein kinasePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni100 – 14950PIF-pocketBy similarityAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili550 – 63182Sequence analysisAdd
BLAST

Domaini

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

Contains 1 protein kinase domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0592. Eukaryota.
ENOG410XRT8. LUCA.
GeneTreeiENSGT00550000074819.
HOGENOMiHOG000233026.
InParanoidiQ9Y1J3.
KOiK06276.
OMAiFRTFFVH.
OrthoDBiEOG7R56S4.
PhylomeDBiQ9Y1J3.

Family and domain databases

Gene3Di2.30.29.30. 2 hits.
InterProiIPR011009. Kinase-like_dom.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR000719. Prot_kinase_dom.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00233. PH. 1 hit.
SM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 2 hits.
SSF56112. SSF56112. 2 hits.
PROSITEiPS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform a (identifier: Q9Y1J3-1) [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
MEDLTPTNTS LDTTTTNNDT TSDREAAPTT LNLTPTASES ENSLSPVTAE
60 70 80 90 100
DLIAKSIKEG CPKRTSNDFM FLQSMGEGAY SQVFRCREVA TDAMFAVKVL
110 120 130 140 150
QKSYLNRHQK MDAIIREKNI LTYLSQECGG HPFVTQLYTH FHDQARIYFV
160 170 180 190 200
IGLVENGDLG ESLCHFGSFD MLTSKFFASE ILTGLQFLHD NKIVHRDMKP
210 220 230 240 250
DNVLIQKDGH ILITDFGSAQ AFGGLQLSQE GFTDANQASS RSSDSGSPPP
260 270 280 290 300
TRFYSDEEVP EENTARRTTF VGTALYVSPE MLADGDVGPQ TDIWGLGCIL
310 320 330 340 350
FQCLAGQPPF RAVNQYHLLK RIQELDFSFP EGFPEEASEI IAKILVRDPS
360 370 380 390 400
TRITSQELMA HKFFENVDWV NIANIKPPVL HAYIPATFGE PEYYSNIGPV
410 420 430 440 450
EPGLDDRALF RLMNLGNDAS ASQPSTFRPS NVEHRGDPFV SEIAPRANSE
460 470 480 490 500
AEKNRAARAQ KLEEQRVKNP FHIFTNNSLI LKQGYLEKKR GLFARRRMFL
510 520 530 540 550
LTEGPHLLYI DVPNLVLKGE VPWTPCMQVE LKNSGTFFIH TPNRVYYLFD
560 570 580 590 600
LEKKADEWCK AINDVRKRYS VTIEKTFNSA MRDGTFGSIY GKKKSRKEMM
610 620 630
REQKALRRKQ EKEEKKALKA EQVSKKLSMQ MDKKSP
Length:636
Mass (Da):71,917
Last modified:November 1, 1999 - v1
Checksum:i5885237039D80AF2
GO
Isoform b (identifier: Q9Y1J3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     259-260: Missing.
     427-428: Missing.

Show »
Length:632
Mass (Da):71,417
Checksum:iCF302D403142176A
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei259 – 2602Missing in isoform b. 1 PublicationVSP_017049
Alternative sequencei427 – 4282Missing in isoform b. 1 PublicationVSP_017050

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF130406 mRNA. Translation: AAD42307.1.
AF130407 mRNA. Translation: AAD42308.1.
FO080926 Genomic DNA. Translation: CCD67851.1.
FO080926 Genomic DNA. Translation: CCD67852.1.
RefSeqiNP_001024742.1. NM_001029571.2. [Q9Y1J3-2]
NP_001024743.1. NM_001029572.2. [Q9Y1J3-1]
UniGeneiCel.8028.

Genome annotation databases

EnsemblMetazoaiH42K12.1b; H42K12.1b; WBGene00003965. [Q9Y1J3-1]
GeneIDi180475.
KEGGicel:CELE_H42K12.1.
UCSCiH42K12.1b. c. elegans. [Q9Y1J3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF130406 mRNA. Translation: AAD42307.1.
AF130407 mRNA. Translation: AAD42308.1.
FO080926 Genomic DNA. Translation: CCD67851.1.
FO080926 Genomic DNA. Translation: CCD67852.1.
RefSeqiNP_001024742.1. NM_001029571.2. [Q9Y1J3-2]
NP_001024743.1. NM_001029572.2. [Q9Y1J3-1]
UniGeneiCel.8028.

3D structure databases

ProteinModelPortaliQ9Y1J3.
SMRiQ9Y1J3. Positions 41-569.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi45427. 2 interactions.
DIPiDIP-27322N.
IntActiQ9Y1J3. 3 interactions.
MINTiMINT-1039329.
STRINGi6239.H42K12.1b.

PTM databases

iPTMnetiQ9Y1J3.

Proteomic databases

EPDiQ9Y1J3.
PaxDbiQ9Y1J3.
PRIDEiQ9Y1J3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiH42K12.1b; H42K12.1b; WBGene00003965. [Q9Y1J3-1]
GeneIDi180475.
KEGGicel:CELE_H42K12.1.
UCSCiH42K12.1b. c. elegans. [Q9Y1J3-1]

Organism-specific databases

CTDi180475.
WormBaseiH42K12.1a; CE28739; WBGene00003965; pdk-1.
H42K12.1b; CE28740; WBGene00003965; pdk-1.

Phylogenomic databases

eggNOGiKOG0592. Eukaryota.
ENOG410XRT8. LUCA.
GeneTreeiENSGT00550000074819.
HOGENOMiHOG000233026.
InParanoidiQ9Y1J3.
KOiK06276.
OMAiFRTFFVH.
OrthoDBiEOG7R56S4.
PhylomeDBiQ9Y1J3.

Enzyme and pathway databases

ReactomeiR-CEL-114604. GPVI-mediated activation cascade.
R-CEL-1257604. PIP3 activates AKT signaling.
R-CEL-165158. Activation of AKT2.
R-CEL-202424. Downstream TCR signaling.
R-CEL-2730905. Role of LAT2/NTAL/LAB on calcium mobilization.
R-CEL-354192. Integrin alphaIIb beta3 signaling.
R-CEL-389357. CD28 dependent PI3K/Akt signaling.
R-CEL-392451. G beta:gamma signalling through PI3Kgamma.
R-CEL-444257. RSK activation.
R-CEL-5218920. VEGFR2 mediated vascular permeability.
R-CEL-5218921. VEGFR2 mediated cell proliferation.
R-CEL-5625740. RHO GTPases activate PKNs.
SignaLinkiQ9Y1J3.

Miscellaneous databases

NextBioi909544.
PROiQ9Y1J3.

Family and domain databases

Gene3Di2.30.29.30. 2 hits.
InterProiIPR011009. Kinase-like_dom.
IPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR000719. Prot_kinase_dom.
IPR008271. Ser/Thr_kinase_AS.
[Graphical view]
PfamiPF00069. Pkinase. 1 hit.
[Graphical view]
SMARTiSM00233. PH. 1 hit.
SM00220. S_TKc. 1 hit.
[Graphical view]
SUPFAMiSSF50729. SSF50729. 2 hits.
SSF56112. SSF56112. 2 hits.
PROSITEiPS50011. PROTEIN_KINASE_DOM. 1 hit.
PS00108. PROTEIN_KINASE_ST. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A PDK1 homolog is necessary and sufficient to transduce AGE-1 PI3 kinase signals that regulate diapause in Caenorhabditis elegans."
    Paradis S., Ailion M., Toker A., Thomas J.H., Ruvkun G.
    Genes Dev. 13:1438-1452(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B), MUTAGENESIS OF GLY-297 AND ALA-305, DEVELOPMENTAL STAGE, FUNCTION.
    Strain: Bristol N2.
  2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.
  3. "C. elegans SGK-1 is the critical component in the Akt/PKB kinase complex to control stress response and life span."
    Hertweck M., Goebel C., Baumeister R.
    Dev. Cell 6:577-588(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SGK-1; AKT-1 AND AKT-2, FUNCTION.

Entry informationi

Entry nameiPDPK1_CAEEL
AccessioniPrimary (citable) accession number: Q9Y1J3
Secondary accession number(s): Q9UA36
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 24, 2006
Last sequence update: November 1, 1999
Last modified: May 11, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  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.