P48281 (VDR_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Vitamin D3 receptor
Short name=VDR

Alternative name(s):
1,25-dihydroxyvitamin D3 receptor
Nuclear receptor subfamily 1 group I member 1

Gene names

Name:	Vdr
Synonyms:	Nr1i1

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	422 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Nuclear hormone receptor. Transcription factor that mediates the action of vitamin D3 by controlling the expression of hormone sensitive genes. Regulates transcription of hormone sensitive genes via its association with the WINAC complex, a chromatin-remodeling complex. Recruited to promoters via its interaction with the WINAC complex subunit BAZ1B/WSTF, which mediates the interaction with acetylated histones, an essential step for VDR-promoter association. Plays a central role in calcium homeostasis By similarity.
Subunit structure	Homodimer in the absence of bound vitamin D3. Heterodimer with RXRA after vitamin D3 binding. Interacts with SMAD3. Interacts with MED1, NCOA1, NCOA2, NCOA3 and NCOA6 coactivators, leading to a strong increase of transcription of target genes. Interacts (in a ligand-dependent manner) with BAZ1B/WSTF. Interacts with SNW1 By similarity.
Subcellular location	Nucleus By similarity.
Induction	By 1,25-dihydroxyvitamin D3 in kidney. Ref.5
Domain	Composed of three domains: a modulating N-terminal domain, a DNA-binding domain and a C-terminal ligand-binding domain By similarity.
Sequence similarities	Belongs to the nuclear hormone receptor family. NR1 subfamily. Contains 1 nuclear receptor DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Receptor
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	calcium ion transport Inferred from mutant phenotype PubMed 11687634. Source: MGI cell morphogenesis Inferred from electronic annotation. Source: Compara cellular calcium ion homeostasis Inferred from mutant phenotype PubMed 9241280. Source: MGI decidualization Inferred from electronic annotation. Source: Compara intestinal absorption Inferred from mutant phenotype PubMed 11687634. Source: MGI lactation Inferred from mutant phenotype PubMed 15178742. Source: MGI mammary gland branching involved in pregnancy Inferred from mutant phenotype PubMed 15178742. Source: MGI negative regulation of keratinocyte proliferation Inferred from electronic annotation. Source: Compara negative regulation of transcription from RNA polymerase II promoter Inferred from electronic annotation. Source: Compara negative regulation of transcription, DNA-dependent Inferred from sequence orthology PubMed 11891224. Source: MGI organ morphogenesis Inferred from mutant phenotype PubMed 9241280. Source: MGI positive regulation of apoptotic process involved in mammary gland involution Inferred from mutant phenotype PubMed 15178742. Source: MGI positive regulation of keratinocyte differentiation Inferred from electronic annotation. Source: Compara positive regulation of transcription from RNA polymerase II promoter Inferred from electronic annotation. Source: Compara positive regulation of vitamin D 24-hydroxylase activity Inferred from electronic annotation. Source: Compara regulation of calcidiol 1-monooxygenase activity Inferred from mutant phenotype PubMed 9295274. Source: BHF-UCL skeletal system development Inferred from mutant phenotype PubMed 9241280. Source: MGI
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	DNA binding Inferred from direct assay PubMed 15601870. Source: MGI ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity Inferred from direct assay PubMed 15322135. Source: MGI sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro steroid hormone receptor activity Inferred from electronic annotation. Source: InterPro vitamin D response element binding Inferred from electronic annotation. Source: Compara vitamin D3 receptor activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
Grip1	Q925T6	2	EBI-346797,EBI-537752
GTF2B	Q00403	2	EBI-346797,EBI-389564	From a different organism.
NCOA3	Q9Y6Q9	2	EBI-346797,EBI-81196	From a different organism.
SNW1	Q13573	2	EBI-346797,EBI-632715	From a different organism.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 422	422	Vitamin D3 receptor		PRO_0000053543
Regions
	DNA binding	21 – 96	76	Nuclear receptor
	Zinc finger	24 – 44	21	NR C4-type
	Zinc finger	60 – 84	25	NR C4-type
	Region	97 – 186	90	Hinge
	Region	187 – 422	236	Ligand-binding
	Region	222 – 232	11	Vitamin D3 binding By similarity
	Region	241 – 259	19	Interaction with coactivator LXXLL motif By similarity
	Region	266 – 273	8	Vitamin D3 binding By similarity
Sites
	Binding site	143	1	Vitamin D3 By similarity
	Binding site	300	1	Vitamin D3 By similarity
	Binding site	392	1	Vitamin D3 By similarity
Experimental info
	Sequence conflict	276	1	L → M in BAA06737. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P48281 [UniParc]. Last modified July 27, 2011. Version 2. Checksum: 4614DD4A129F2732	FASTA	422	47,834
	10 20 30 40 50 60 MEAMAASTSL PDPGDFDRNV PRICGVCGDR ATGFHFNAMT CEGCKGFFRR SMKRKALFTC 70 80 90 100 110 120 PFNGDCRITK DNRRHCQACR LKRCVDIGMM KEFILTDEEV QRKREMIMKR KEEEALKDSL 130 140 150 160 170 180 RPKLSEEQQH IIAILLDAHH KTYDPTYADF RDFRPPIRAD VSTGSYSPRP TLSFSGDSSS 190 200 210 220 230 240 NSDLYTPSLD MMEPASFSTM DLNEEGSDDP SVTLDLSPLS MLPHLADLVS YSIQKVIGFA 250 260 270 280 290 300 KMIPGFRDLT SDDQIVLLKS SAIEVIMLRS NQSFTLDDMS WDCGSQDYKY DITDVSRAGH 310 320 330 340 350 360 TLELIEPLIK FQVGLKKLNL HEEEHVLLMA ICIVSPDRPG VQDAKLVEAI QDRLSNTLQT 370 380 390 400 410 420 YIRCRHPPPG SHQLYAKMIQ KLADLRSLNE EHSKQYRSLS FQPENSMKLT PLVLEVFGNE IS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and sequencing of the gene encoding the mouse vitamin D receptor." Kamei Y., Kawada T., Fukuwatari T., Ono T., Kato S., Sugimoto E. Gene 152:281-282(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: C57BL/6J and NOD. Tissue: Intestine.
[3]	Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: FVB/N. Tissue: Mammary tumor.
[5]	"Klotho, a gene related to a syndrome resembling human premature aging, functions in a negative regulatory circuit of vitamin D endocrine system." Tsujikawa H., Kurotaki Y., Fujimori T., Fukuda K., Nabeshima Y. Mol. Endocrinol. 17:2393-2403(2003) [PubMed] [Europe PMC] [Abstract] Cited for: INDUCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	D31969 mRNA. Translation: BAA06737.1. AK030339 mRNA. Translation: BAC26911.1. AK154647 mRNA. Translation: BAE32738.1. CH466550 Genomic DNA. Translation: EDL04218.1. BC006716 mRNA. Translation: AAH06716.1.
IPI	IPI00311693.
PIR	PC4019.
RefSeq	NP_033530.2. NM_009504.4.
UniGene	Mm.245084.
3D structure databases
ProteinModelPortal	P48281.
SMR	P48281. Positions 22-106, 124-421.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-31478N.
IntAct	P48281. 7 interactions.
STRING	10090.ENSMUSP00000023119.
PTM databases
PhosphoSite	P48281.
Proteomic databases
PRIDE	P48281.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000023119; ENSMUSP00000023119; ENSMUSG00000022479.
GeneID	22337.
KEGG	mmu:22337.
Organism-specific databases
CTD	7421.
MGI	MGI:103076. Vdr.
Phylogenomic databases
eggNOG	NOG283526.
GeneTree	ENSGT00680000099585.
HOGENOM	HOG000220844.
HOVERGEN	HBG108655.
InParanoid	Q922X0.
KO	K08539.
OMA	NESFTMD.
OrthoDB	EOG4J6RR1.
Gene expression databases
ArrayExpress	P48281.
Bgee	P48281.
CleanEx	MM_VDR.
Genevestigator	P48281.
GermOnline	ENSMUSG00000022479. Mus musculus.
Family and domain databases
Gene3D	1.10.565.10. 2 hits. 3.30.50.10. 1 hit.
InterPro	IPR008946. Nucl_hormone_rcpt_ligand-bd. IPR000536. Nucl_hrmn_rcpt_lig-bd_core. IPR001723. Str_hrmn_rcpt. IPR000324. VitD_rcpt. IPR001628. Znf_hrmn_rcpt. IPR013088. Znf_NHR/GATA. [Graphical view]
Pfam	PF00104. Hormone_recep. 1 hit. PF00105. zf-C4. 1 hit. [Graphical view]
PRINTS	PR00398. STRDHORMONER. PR00047. STROIDFINGER. PR00350. VITAMINDR.
SMART	SM00430. HOLI. 1 hit. SM00399. ZnF_C4. 1 hit. [Graphical view]
SUPFAM	SSF48508. Str_ncl_receptor. 1 hit.
PROSITE	PS00031. NUCLEAR_REC_DBD_1. 1 hit. PS51030. NUCLEAR_REC_DBD_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
BindingDB	P48281.
ChEMBL	CHEMBL5601.
ChiTaRS	VDR. mouse.
NextBio	302589.
SOURCE	Search...

Entry information

Entry name

VDR_MOUSE

Accession

Primary (citable) accession number: P48281
Secondary accession number(s): Q922X0

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	July 27, 2011
Last modified:	April 3, 2013
This is version 114 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program