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Vitamin D3 receptor A (VDR-A) (1,25-dihydroxyvitamin D3 receptor A) (Nuclear receptor subfamily 1 group I member 1-A)

 VDRA_DANRE              Reviewed;         453 AA.
Q9PTN2; B3DFZ0;
10-JUN-2008, integrated into UniProtKB/Swiss-Prot.
24-MAR-2009, sequence version 2.
25-OCT-2017, entry version 113.
RecName: Full=Vitamin D3 receptor A;
Short=VDR-A;
AltName: Full=1,25-dihydroxyvitamin D3 receptor A;
AltName: Full=Nuclear receptor subfamily 1 group I member 1-A;
Name=vdra; Synonyms=nr1i1a, vdr;
Danio rerio (Zebrafish) (Brachydanio rerio).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
Cyprinidae; Danio.
NCBI_TaxID=7955;
[1]
NUCLEOTIDE SEQUENCE [MRNA].
Kouzmenko A.P.;
"Danio rerio vitamin D receptor.";
Submitted (JUL-1999) to the EMBL/GenBank/DDBJ databases.
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
NIH - Zebrafish Gene Collection (ZGC) project;
Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases.
[3]
TISSUE SPECIFICITY.
PubMed=17997606; DOI=10.1371/journal.pgen.0030188;
Bertrand S., Thisse B., Tavares R., Sachs L., Chaumot A.,
Bardet P.-L., Escriva H., Duffraisse M., Marchand O., Safi R.,
Thisse C., Laudet V.;
"Unexpected novel relational links uncovered by extensive
developmental profiling of nuclear receptor expression.";
PLoS Genet. 3:E188-E188(2007).
[4]
X-RAY CRYSTALLOGRAPHY (2.65 ANGSTROMS) OF 156-453 IN COMPLEX WITH
VITAMIN D3 ANALOG AND NCOA1, AND IDENTIFICATION BY MASS SPECTROMETRY.
PubMed=17346665; DOI=10.1016/j.abb.2007.01.031;
Rochel N., Hourai S., Perez-Garcia X., Rumbo A., Mourino A., Moras D.;
"Crystal structure of the vitamin D nuclear receptor ligand binding
domain in complex with a locked side chain analog of calcitriol.";
Arch. Biochem. Biophys. 460:172-176(2007).
[5]
X-RAY CRYSTALLOGRAPHY (2.2 ANGSTROMS) OF 156-453 IN COMPLEXES WITH
VITAMIN D3; LIGAND ANALOG AND NCOA1, FUNCTION, INTERACTION WITH NCOA1,
AND IDENTIFICATION BY MASS SPECTROMETRY.
PubMed=17218092; DOI=10.1016/j.jsbmb.2006.12.003;
Ciesielski F., Rochel N., Moras D.;
"Adaptability of the vitamin D nuclear receptor to the synthetic
ligand Gemini: remodelling the LBP with one side chain rotation.";
J. Steroid Biochem. Mol. Biol. 103:235-242(2007).
-!- FUNCTION: Nuclear hormone receptor. Transcription factor that
mediates the action of vitamin D3 by controlling the expression of
hormone sensitive genes. Plays a central role in calcium
homeostasis. {ECO:0000269|PubMed:17218092}.
-!- SUBUNIT: Interacts with ncoa1 and possibly other coactivators,
leading to a strong increase of transcription of target genes.
{ECO:0000269|PubMed:17218092, ECO:0000269|PubMed:17346665}.
-!- SUBCELLULAR LOCATION: Nucleus.
-!- TISSUE SPECIFICITY: Detected in embryo 24 to 48 hours after
fertilization and in gastrula. {ECO:0000269|PubMed:17997606}.
-!- DOMAIN: Composed of three domains: a modulating N-terminal domain,
a DNA-binding domain and a C-terminal ligand-binding domain.
-!- SIMILARITY: Belongs to the nuclear hormone receptor family. NR1
subfamily. {ECO:0000305}.
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EMBL; AF164512; AAF21427.1; -; mRNA.
EMBL; BC162213; AAI62213.1; -; mRNA.
EMBL; BC162226; AAI62226.1; -; mRNA.
RefSeq; NP_570994.1; NM_130919.1.
UniGene; Dr.81313; -.
PDB; 2HBH; X-ray; 2.65 A; A=156-453.
PDB; 2HC4; X-ray; 2.20 A; A=156-453.
PDB; 2HCD; X-ray; 2.60 A; A=156-453.
PDB; 3DR1; X-ray; 2.70 A; A=156-453.
PDB; 3O1D; X-ray; 2.40 A; A=156-453.
PDB; 3O1E; X-ray; 2.50 A; A=156-453.
PDB; 4FHH; X-ray; 2.33 A; A=156-453.
PDB; 4FHI; X-ray; 2.40 A; A=156-453.
PDB; 4G1D; X-ray; 2.90 A; A=156-453.
PDB; 4G1Y; X-ray; 2.85 A; A=156-453.
PDB; 4G1Z; X-ray; 2.50 A; A=156-453.
PDB; 4G20; X-ray; 2.90 A; A=156-453.
PDB; 4G21; X-ray; 2.90 A; A=156-453.
PDB; 4G2H; X-ray; 2.50 A; A=156-453.
PDB; 4IA1; X-ray; 2.44 A; A=156-453.
PDB; 4IA2; X-ray; 2.95 A; A=156-453.
PDB; 4IA3; X-ray; 2.70 A; A=156-453.
PDB; 4IA7; X-ray; 2.70 A; A=156-453.
PDB; 4Q0A; X-ray; 1.90 A; C=156-453.
PDB; 4RUJ; X-ray; 2.35 A; A=156-453.
PDB; 4RUO; X-ray; 2.81 A; X=156-453.
PDB; 4RUP; X-ray; 2.75 A; A=156-453.
PDB; 5E7V; X-ray; 2.40 A; A=156-453.
PDB; 5LGA; X-ray; 2.50 A; A=156-453.
PDB; 5NKY; X-ray; 2.10 A; A=156-453.
PDB; 5NMA; X-ray; 2.80 A; A=156-453.
PDB; 5NMB; X-ray; 2.50 A; A2=156-453.
PDBsum; 2HBH; -.
PDBsum; 2HC4; -.
PDBsum; 2HCD; -.
PDBsum; 3DR1; -.
PDBsum; 3O1D; -.
PDBsum; 3O1E; -.
PDBsum; 4FHH; -.
PDBsum; 4FHI; -.
PDBsum; 4G1D; -.
PDBsum; 4G1Y; -.
PDBsum; 4G1Z; -.
PDBsum; 4G20; -.
PDBsum; 4G21; -.
PDBsum; 4G2H; -.
PDBsum; 4IA1; -.
PDBsum; 4IA2; -.
PDBsum; 4IA3; -.
PDBsum; 4IA7; -.
PDBsum; 4Q0A; -.
PDBsum; 4RUJ; -.
PDBsum; 4RUO; -.
PDBsum; 4RUP; -.
PDBsum; 5E7V; -.
PDBsum; 5LGA; -.
PDBsum; 5NKY; -.
PDBsum; 5NMA; -.
PDBsum; 5NMB; -.
SMR; Q9PTN2; -.
BioGrid; 78317; 2.
ChEMBL; CHEMBL3217399; -.
PRIDE; Q9PTN2; -.
GeneID; 30076; -.
KEGG; dre:30076; -.
CTD; 30076; -.
ZFIN; ZDB-GENE-000210-31; vdra.
HOVERGEN; HBG108655; -.
InParanoid; Q9PTN2; -.
KO; K08539; -.
PhylomeDB; Q9PTN2; -.
EvolutionaryTrace; Q9PTN2; -.
PRO; PR:Q9PTN2; -.
Proteomes; UP000000437; Unplaced.
GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
GO; GO:1902098; F:calcitriol binding; IDA:ZFIN.
GO; GO:0008434; F:calcitriol receptor activity; IDA:ZFIN.
GO; GO:1902121; F:lithocholic acid binding; IDA:ZFIN.
GO; GO:0004879; F:RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding; IDA:ZFIN.
GO; GO:0043565; F:sequence-specific DNA binding; IEA:InterPro.
GO; GO:0003707; F:steroid hormone receptor activity; IEA:InterPro.
GO; GO:0008134; F:transcription factor binding; IPI:ZFIN.
GO; GO:0005499; F:vitamin D binding; IDA:ZFIN.
GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
GO; GO:0055074; P:calcium ion homeostasis; IMP:ZFIN.
GO; GO:0003146; P:heart jogging; IMP:ZFIN.
GO; GO:0001947; P:heart looping; IMP:ZFIN.
GO; GO:0001503; P:ossification; IMP:ZFIN.
GO; GO:0006355; P:regulation of transcription, DNA-templated; IDA:ZFIN.
GO; GO:0006351; P:transcription, DNA-templated; IDA:ZFIN.
Gene3D; 1.10.565.10; -; 1.
Gene3D; 3.30.50.10; -; 1.
InterPro; IPR035500; NHR_like_domain.
InterPro; IPR000536; Nucl_hrmn_rcpt_lig-bd.
InterPro; IPR001723; Nuclear_hrmn_rcpt.
InterPro; IPR000324; VitD_rcpt.
InterPro; IPR001628; Znf_hrmn_rcpt.
InterPro; IPR013088; Znf_NHR/GATA.
Pfam; PF00104; Hormone_recep; 1.
Pfam; PF00105; zf-C4; 1.
PRINTS; PR00398; STRDHORMONER.
PRINTS; PR00047; STROIDFINGER.
PRINTS; PR00350; VITAMINDR.
SMART; SM00430; HOLI; 1.
SMART; SM00399; ZnF_C4; 1.
SUPFAM; SSF48508; SSF48508; 1.
PROSITE; PS00031; NUCLEAR_REC_DBD_1; 1.
PROSITE; PS51030; NUCLEAR_REC_DBD_2; 1.
1: Evidence at protein level;
3D-structure; Complete proteome; DNA-binding; Metal-binding; Nucleus;
Receptor; Reference proteome; Transcription; Transcription regulation;
Zinc; Zinc-finger.
CHAIN 1 453 Vitamin D3 receptor A.
/FTId=PRO_0000337878.
DNA_BIND 53 128 Nuclear receptor. {ECO:0000255|PROSITE-
ProRule:PRU00407}.
ZN_FING 56 76 NR C4-type. {ECO:0000255|PROSITE-
ProRule:PRU00407}.
ZN_FING 92 111 NR C4-type. {ECO:0000255|PROSITE-
ProRule:PRU00407}.
REGION 129 216 Hinge.
REGION 217 453 Ligand-binding.
REGION 255 265 Vitamin D3 binding.
REGION 274 292 Interaction with coactivator LXXLL motif.
REGION 299 306 Vitamin D3 binding.
BINDING 175 175 Vitamin D3.
BINDING 333 333 Vitamin D3.
BINDING 423 423 Vitamin D3.
CONFLICT 24 24 R -> T (in Ref. 1; AAF21427).
{ECO:0000305}.
CONFLICT 32 32 V -> L (in Ref. 1; AAF21427).
{ECO:0000305}.
CONFLICT 47 47 E -> Q (in Ref. 1; AAF21427).
{ECO:0000305}.
CONFLICT 54 54 R -> P (in Ref. 1; AAF21427).
{ECO:0000305}.
HELIX 158 174 {ECO:0000244|PDB:4Q0A}.
HELIX 180 184 {ECO:0000244|PDB:4Q0A}.
HELIX 255 274 {ECO:0000244|PDB:4Q0A}.
TURN 277 281 {ECO:0000244|PDB:4Q0A}.
HELIX 284 302 {ECO:0000244|PDB:4Q0A}.
HELIX 303 305 {ECO:0000244|PDB:4Q0A}.
TURN 309 312 {ECO:0000244|PDB:4Q0A}.
STRAND 313 315 {ECO:0000244|PDB:4Q0A}.
HELIX 319 321 {ECO:0000244|PDB:4Q0A}.
STRAND 322 324 {ECO:0000244|PDB:2HCD}.
HELIX 325 328 {ECO:0000244|PDB:4Q0A}.
TURN 329 331 {ECO:0000244|PDB:4Q0A}.
HELIX 335 349 {ECO:0000244|PDB:4Q0A}.
HELIX 355 366 {ECO:0000244|PDB:4Q0A}.
HELIX 377 398 {ECO:0000244|PDB:4Q0A}.
HELIX 402 404 {ECO:0000244|PDB:2HBH}.
HELIX 405 431 {ECO:0000244|PDB:4Q0A}.
HELIX 434 437 {ECO:0000244|PDB:4Q0A}.
HELIX 442 448 {ECO:0000244|PDB:4Q0A}.
SEQUENCE 453 AA; 50867 MW; 87DE0415B3FF56CD CRC64;
MLTENSAVNS GGKSKCEAGA CESRVNGDAT SVMDLMAVST SATGQDEFDR NAPRICGVCG
DKATGFHFNA MTCEGCKGFF RRSMKRKASF TCPFNGNCTI TKDNRRHCQA CRLKRCIDIG
MMKEFILTDE EVQRKKDLIM KRKEEEAARE ARKPRLSDEQ MQIINSLVEA HHKTYDDSYS
DFVRFRPPVR EGPVTRSASR AASLHSLSDA SSDSFNHSPE SVDTKLNFSN LLMMYQDSGS
PDSSEEDQQS RLSMLPHLAD LVSYSIQKVI GFAKMIPGFR DLTAEDQIAL LKSSAIEIIM
LRSNQSFSLE DMSWSCGGPD FKYCINDVTK AGHTLELLEP LVKFQVGLKK LKLHEEEHVL
LMAICLLSPD RPGVQDHVRI EALQDRLCDV LQAYIRIQHP GGRLLYAKMI QKLADLRSLN
EEHSKQYRSL SFQPEHSMQL TPLVLEVFGS EVS


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