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Protein

Pancreas/duodenum homeobox protein 1

Gene

Pdx1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Activates insulin and somatostatin gene transcription. Key regulator of islet peptide hormone expression but also responsible for the development of the pancreas, most probably by determining maturation and differentiation of common pancreatic precursor cells in the developing gut. As part of a PDX1:PBX1b:MEIS2b complex in pancreatic acinar cells is involved in the transcriptional activation of the ELA1 enhancer; the complex binds to the enhancer B element and cooperates with the transcription factor 1 complex (PTF1) bound to the enhancer A element. Binds the DNA sequence 5'-CC[CT]TAATGGG-3'.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi146 – 205HomeoboxPROSITE-ProRule annotationAdd BLAST60

GO - Molecular functioni

  • chromatin binding Source: RGD
  • DNA binding Source: RGD
  • DNA binding transcription factor activity Source: RGD
  • promoter-specific chromatin binding Source: RGD
  • protein heterodimerization activity Source: RGD
  • RNA polymerase II proximal promoter sequence-specific DNA binding Source: RGD
  • sequence-specific DNA binding Source: RGD
  • transcription factor binding Source: RGD

GO - Biological processi

  • animal organ regeneration Source: RGD
  • animal organ senescence Source: RGD
  • cell differentiation Source: RGD
  • central nervous system development Source: RGD
  • detection of glucose Source: BHF-UCL
  • digestive tract development Source: RGD
  • endocrine pancreas development Source: RGD
  • exocrine pancreas development Source: RGD
  • glucose homeostasis Source: RGD
  • glucose metabolic process Source: RGD
  • insulin secretion Source: RGD
  • liver development Source: RGD
  • morphogenesis of embryonic epithelium Source: RGD
  • negative regulation of cell proliferation Source: RGD
  • negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway Source: RGD
  • negative regulation of transcription, DNA-templated Source: RGD
  • negative regulation of transcription by RNA polymerase II Source: RGD
  • negative regulation of type B pancreatic cell apoptotic process Source: RGD
  • nitric oxide mediated signal transduction Source: RGD
  • pancreas development Source: RGD
  • positive regulation of cell death Source: RGD
  • positive regulation of cell proliferation Source: RGD
  • positive regulation of DNA binding Source: RGD
  • positive regulation of insulin secretion Source: RGD
  • positive regulation of insulin secretion involved in cellular response to glucose stimulus Source: RGD
  • positive regulation of transcription, DNA-templated Source: RGD
  • positive regulation of transcription by RNA polymerase II Source: RGD
  • regulation of cell proliferation Source: RGD
  • regulation of gene expression Source: CACAO
  • regulation of transcription, DNA-templated Source: RGD
  • regulation of transcription by RNA polymerase II Source: RGD
  • response to alkaloid Source: RGD
  • response to chlorate Source: RGD
  • response to cytokine Source: RGD
  • response to drug Source: RGD
  • response to fatty acid Source: RGD
  • response to glucocorticoid Source: RGD
  • response to glucose Source: RGD
  • response to iron(II) ion Source: RGD
  • response to leucine Source: RGD
  • response to lipid Source: RGD
  • response to nicotine Source: RGD
  • response to nutrient levels Source: RGD
  • response to organic cyclic compound Source: RGD
  • response to vitamin Source: RGD
  • response to wounding Source: RGD
  • smoothened signaling pathway Source: RGD
  • stem cell differentiation Source: RGD
  • transcription, DNA-templated Source: RGD
  • transcription by RNA polymerase II Source: RGD
  • transdifferentiation Source: RGD
  • type B pancreatic cell differentiation Source: BHF-UCL

Keywordsi

Molecular functionActivator, DNA-binding
Biological processTranscription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Pancreas/duodenum homeobox protein 1
Alternative name(s):
Insulin promoter factor 1
Short name:
IPF-1
Islet/duodenum homeobox 1
Short name:
IDX-1
Somatostatin-transactivating factor 1
Short name:
STF-1
Gene namesi
Name:Pdx1
Synonyms:Ipf1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 12

Organism-specific databases

RGDi62387 Pdx1

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000491501 – 283Pancreas/duodenum homeobox protein 1Add BLAST283

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei151Phosphothreonine; by PASKBy similarity1
Modified residuei268PhosphoserineCombined sources1

Post-translational modificationi

Phosphorylated by the SAPK2 pathway at high intracellular glucose concentration. Phosphorylated by HIPK2 on Ser-268 upon glucose accumulation. This phosphorylation mediates subnuclear localization shifting. Phosphorylation by PASK may lead to translocation into the cytosol (By similarity).By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP52947
PRIDEiP52947

PTM databases

iPTMnetiP52947
PhosphoSitePlusiP52947

Expressioni

Tissue specificityi

Duodenum and pancreas (Langerhans islet beta cells and small subsets of endocrine non-beta-cells, at low levels in acinar cells).

Gene expression databases

GenevisibleiP52947 RN

Interactioni

Subunit structurei

Interacts with the basic helix-loop-helix domains of TCF3(E47) and NEUROD1 and with HMG-I(Y). Interacts with SPOP and the methyltransferase SETD7. Part of a PDX1:PBX1b:MEIS2b complex (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Psmd9Q9WTV53EBI-7626093,EBI-7626072

GO - Molecular functioni

  • protein heterodimerization activity Source: RGD
  • transcription factor binding Source: RGD

Protein-protein interaction databases

IntActiP52947, 1 interactor
MINTiP52947
STRINGi10116.ENSRNOP00000066935

Structurei

3D structure databases

ProteinModelPortaliP52947
SMRiP52947
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni13 – 73Transactivation domainAdd BLAST61

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi118 – 123Antp-type hexapeptide6
Motifi197 – 203Nuclear localization signalBy similarity7

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi42 – 48Poly-Pro7
Compositional biasi216 – 220Poly-Gly5
Compositional biasi239 – 244Poly-Pro6

Domaini

The Antp-type hexapeptide mediates heterodimerization with PBX on a regulatory element of the somatostatin promoter.
The homeodomain, which contains the nuclear localization signal, not only mediates DNA-binding, but also acts as a protein-protein interaction domain for TCF3(E47), NEUROD1 and HMG-I(Y).By similarity

Sequence similaritiesi

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiKOG0489 Eukaryota
ENOG410ZTBY LUCA
GeneTreeiENSGT00910000144005
HOVERGENiHBG004525
InParanoidiP52947
KOiK07594
OMAiPPPCLYM
OrthoDBiEOG091G0GVH
PhylomeDBiP52947

Family and domain databases

CDDicd00086 homeodomain, 1 hit
InterProiView protein in InterPro
IPR009057 Homeobox-like_sf
IPR017995 Homeobox_antennapedia
IPR017970 Homeobox_CS
IPR001356 Homeobox_dom
IPR020479 Homeobox_metazoa
PfamiView protein in Pfam
PF00046 Homeobox, 1 hit
PRINTSiPR00025 ANTENNAPEDIA
PR00024 HOMEOBOX
SMARTiView protein in SMART
SM00389 HOX, 1 hit
SUPFAMiSSF46689 SSF46689, 1 hit
PROSITEiView protein in PROSITE
PS00027 HOMEOBOX_1, 1 hit
PS50071 HOMEOBOX_2, 1 hit

Sequencei

Sequence statusi: Complete.

P52947-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNSEEQYYAA TQLYKDPCAF QRGPVPEFSA NPPACLYMGR QPPPPPPPQF
60 70 80 90 100
AGSLGTLEQG SPPDISPYEV PPLADDPAGA HLHHHLPAQL GLAHPPPGPF
110 120 130 140 150
PNGTETGGLE EPSRVHLPFP WMKSTKAHAW KSQWAGGAYA AEPEENKRTR
160 170 180 190 200
TAYTRAQLLE LEKEFLFNKY ISRPRRVELA VMLNLTERHI KIWFQNRRMK
210 220 230 240 250
WKKEEDKKRS SGTTSGGGGG EEPEQDCAVT SGEELLALPP PPPPGGAVPS
260 270 280
GVPAAAREGR LPSGLSASPQ PSSIAPLRPQ EPR
Length:283
Mass (Da):30,831
Last modified:October 1, 1996 - v1
Checksum:iC8C25FF2C75ED4E6
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti47P → T in AAA18355 (PubMed:7907546).Curated1
Sequence conflicti240P → K in AAA18355 (PubMed:7907546).Curated1
Sequence conflicti247A → V in AAA18355 (PubMed:7907546).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U04833 mRNA Translation: AAA18355.1
S67435 mRNA Translation: AAB29317.1
PIRiS42634
RefSeqiNP_074043.3, NM_022852.3
UniGeneiRn.54603

Genome annotation databases

EnsembliENSRNOT00000071942; ENSRNOP00000066935; ENSRNOG00000046458
GeneIDi29535
KEGGirno:29535

Similar proteinsi

Entry informationi

Entry nameiPDX1_RAT
AccessioniPrimary (citable) accession number: P52947
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: April 25, 2018
This is version 130 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health