Reviewed, UniProtKB/Swiss-Prot P52947 (PDX1_RAT)

Names and origin

Protein names

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 names

Name:	Pdx1
Synonyms:	Ipf1

Organism

Rattus norvegicus (Rat)

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	283 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	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. Binds the DNA sequence 5'-CC[CT]TAATGGG-3'.
Subunit structure	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 By similarity.
Subcellular location	Nucleus.
Tissue specificity	Duodenum and pancreas (Langerhans islet beta cells and small subsets of endocrine non-beta-cells, at low levels in acinar cells).
Domain	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 similarities	Belongs to the Antp homeobox family. IPF1/XlHbox-8 subfamily. Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Activator
Gene Ontology (GO)
Biological process	central nervous system development Inferred from expression pattern. Source: RGD glucose homeostasis Inferred from mutant phenotype. Source: RGD negative regulation of transcription Inferred from mutant phenotype. Source: RGD organ regeneration Inferred from expression pattern. Source: RGD organ senescence Inferred from expression pattern. Source: RGD pancreas development Inferred from expression pattern. Source: RGD positive regulation of DNA binding Inferred from mutant phenotype. Source: RGD positive regulation of cell death Inferred from mutant phenotype. Source: RGD positive regulation of cell proliferation Inferred from mutant phenotype. Source: RGD positive regulation of insulin secretion Inferred from mutant phenotype. Source: RGD positive regulation of transcription from RNA polymerase II promoter Inferred from direct assay. Source: RGD protein heterooligomerization Inferred from direct assay. Source: RGD response to chlorate Inferred from expression pattern. Source: RGD response to cytokine stimulus Inferred from expression pattern. Source: RGD response to drug Inferred from expression pattern. Source: RGD response to fatty acid Inferred from expression pattern. Source: RGD response to glucocorticoid stimulus Inferred from expression pattern. Source: RGD response to glucose stimulus Inferred from mutant phenotype. Source: RGD response to leucine Inferred from expression pattern. Source: RGD response to nicotine Inferred from expression pattern. Source: RGD response to protein stimulus Inferred from expression pattern. Source: RGD response to vitamin Inferred from expression pattern. Source: RGD response to wounding Inferred from expression pattern. Source: RGD smoothened signaling pathway Inferred from mutant phenotype. Source: RGD stem cell differentiation Inferred from mutant phenotype. Source: RGD transcription from RNA polymerase II promoter Inferred from direct assay. Source: RGD transdifferentiation Inferred from expression pattern. Source: RGD
Cellular component	cytoplasm Inferred from direct assay. Source: RGD nucleus Inferred from direct assay. Source: RGD
Molecular function	promoter binding Inferred from direct assay. Source: RGD protein complex binding Inferred from direct assay. Source: RGD protein heterodimerization activity Inferred from direct assay. Source: RGD protein homodimerization activity Inferred from direct assay. Source: RGD transcription activator activity Inferred from direct assay. Source: RGD transcription factor activity Inferred from direct assay. Source: RGD transcription factor binding Inferred from physical interaction. Source: RGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 283	283	Pancreas/duodenum homeobox protein 1		PRO_0000049150
Regions
	DNA binding	146 – 205	60	Homeobox
	Region	13 – 73	61	Transactivation domain
	Motif	118 – 123	6	Antp-type hexapeptide
	Motif	197 – 203	7	Nuclear localization signal By similarity
	Compositional bias	42 – 48	7	Poly-Pro
	Compositional bias	216 – 220	5	Poly-Gly
	Compositional bias	239 – 244	6	Poly-Pro
Experimental info
	Sequence conflict	47	1	P → T in AAA18355. Ref.1
	Sequence conflict	240	1	P → K in AAA18355. Ref.1
	Sequence conflict	247	1	A → V in AAA18355. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P52947-1 [UniParc]. Last modified October 1, 1996. Version 1. Checksum: C8C25FF2C75ED4E6	FASTA	283	30,831
	10 20 30 40 50 60 MNSEEQYYAA TQLYKDPCAF QRGPVPEFSA NPPACLYMGR QPPPPPPPQF AGSLGTLEQG 70 80 90 100 110 120 SPPDISPYEV PPLADDPAGA HLHHHLPAQL GLAHPPPGPF PNGTETGGLE EPSRVHLPFP 130 140 150 160 170 180 WMKSTKAHAW KSQWAGGAYA AEPEENKRTR TAYTRAQLLE LEKEFLFNKY ISRPRRVELA 190 200 210 220 230 240 VMLNLTERHI KIWFQNRRMK WKKEEDKKRS SGTTSGGGGG EEPEQDCAVT SGEELLALPP 250 260 270 280 PPPPGGAVPS GVPAAAREGR LPSGLSASPQ PSSIAPLRPQ EPR

References

[1]	"IDX-1: a new homeodomain transcription factor expressed in rat pancreatic islets and duodenum that transactivates the somatostatin gene." Miller C.P., McGehee R.E. Jr., Habener J.F. EMBO J. 13:1145-1156(1994) [PubMed: 7907546] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"Characterization of somatostatin transactivating factor-1, a novel homeobox factor that stimulates somatostatin expression in pancreatic islet cells." Leonard J., Peers B., Johnson T., Ferreri K., Lee S., Montminy M.R. Mol. Endocrinol. 7:1275-1283(1993) [PubMed: 7505393] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	U04833 mRNA. Translation: AAA18355.1. S67435 mRNA. Translation: AAB29317.1.
IPI	IPI00327500.
PIR	S42634.
RefSeq	NP_074043.3.
UniGene	Rn.54603
3D structure databases
HSSP	HSSP built from PDB template 9ANT based on UniProtKB P02833.
SMR	P52947. Positions 148-205.
ModBase	Search...
PTM databases
PhosphoSite	P52947.
Genome annotation databases
GeneID	29535.
KEGG	rno:29535.
Organism-specific databases
CTD	29535.
RGD	62387. Pdx1.
Phylogenomic databases
HOVERGEN	P52947.
Gene expression databases
Genevestigator	P52947.
Family and domain databases
InterPro	IPR001356. Homeobox. IPR017995. Homeobox_antennapedia. IPR001827. Homeobox_Antennapedia_CS. IPR017970. Homeobox_CS. IPR020479. Homeobox_region. IPR012287. Homeodomain-rel. [Graphical view]
Gene3D	G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
PRINTS	PR00025. ANTENNAPEDIA. PR00024. HOMEOBOX.
ProDom	PD000010. Homeobox. 1 hit. [Graphical view] [Entries sharing at least one domain]
SMART	SM00389. HOX. 1 hit. [Graphical view]
PROSITE	PS00032. ANTENNAPEDIA. False negative. PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	609520.

Entry information

Entry name

PDX1_RAT

Accession

Primary (citable) accession number: P52947

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	October 1, 1996
Last modified:	October 13, 2009
This is version 69 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)