Reviewed, UniProtKB/Swiss-Prot Q14995 (NR1D2_HUMAN)

Names and origin

Protein names

Recommended name:
    Nuclear receptor subfamily 1 group D member 2
Alternative name(s):
    Rev-erb-beta
    EAR-1R
    Orphan nuclear hormone receptor BD73

Gene names

Name:

NR1D2

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	579 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Binds to the sequences 5'-AATGTAGGTCA-3' and 5'-ATAACTAGGTCA-3'. Acts as a potent competitive repressor of ROR alpha function By similarity.
Subunit structure	Interacts with NCOA5 coactivator, leading to a strong increase of transcription of target genes. Ref.6
Subcellular location	Nucleus 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
Coding sequence diversity	Polymorphism
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Receptor Repressor
Technical term	3D-structure
Gene Ontology (GO)
Biological process	regulation of transcription, DNA-dependent Ref.5 Traceable author statement. Source: UniProtKB transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Ref.5 Traceable author statement. Source: UniProtKB
Molecular function	sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro steroid hormone receptor activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 579

579

Nuclear receptor subfamily 1 group D member 2

PRO_0000053501

Regions

DNA binding

100 – 176

77

Nuclear receptor

Zinc finger

103 – 123

21

NR C4-type

Zinc finger

140 – 164

25

NR C4-type

Compositional bias

13 – 20

8

Poly-Ser

Compositional bias

35 – 39

5

Poly-Ser

Natural variations

Natural variant

21

1

P → H: dbSNP rs17854365. Ref.4

VAR_047377

Natural variant

282

1

Q → K: dbSNP rs17857305. Ref.4

VAR_047378

Natural variant

288

1

P → R: dbSNP rs17857306. Ref.4

VAR_047379

Natural variant

386

1

L → M: dbSNP rs4858097. Ref.4 Ref.1 Ref.5

VAR_047380

Experimental info

Sequence conflict

519 – 520

2

IE → NRK in AAA65937. Ref.5

Secondary structure

1

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579

Helix Strand Turn

Details...

Turn

398 – 401

4

Helix

402 – 406

5

Beta strand

407 – 411

5

Helix

413 – 422

10

Turn

424 – 428

5

Helix

431 – 450

20

Helix

451 – 453

3

Turn

456 – 459

4

Beta strand

460 – 462

3

Turn

471 – 478

8

Helix

482 – 495

14

Helix

500 – 511

12

Helix

516 – 518

3

Helix

522 – 543

22

Helix

545 – 550

6

Helix

552 – 555

4

Helix

557 – 568

12

Helix

569 – 571

3

Sequences

	Sequence		Length	Mass (Da)
	Q14995-1 [UniParc]. Last modified November 25, 2008. Version 3. Checksum: 39BDDCD323BD14BF	FASTA	579	64,625
	10 20 30 40 50 60 MEVNAGGVIA YISSSSSASS PASCHSEGSE NSFQSSSSSV PSSPNSSNSD TNGNPKNGDL 70 80 90 100 110 120 ANIEGILKND RIDCSMKTSK SSAPGMTKSH SGVTKFSGMV LLCKVCGDVA SGFHYGVHAC 130 140 150 160 170 180 EGCKGFFRRS IQQNIQYKKC LKNENCSIMR MNRNRCQQCR FKKCLSVGMS RDAVRFGRIP 190 200 210 220 230 240 KREKQRMLIE MQSAMKTMMN SQFSGHLQND TLVEHHEQTA LPAQEQLRPK PQLEQENIKS 250 260 270 280 290 300 SSPPSSDFAK EEVIGMVTRA HKDTFMYNQE QQENSAESMQ PQRGERIPKN MEQYNLNHDH 310 320 330 340 350 360 CGNGLSSHFP CSESQQHLNG QFKGRNIMHY PNGHAICIAN GHCMNFSNAY TQRVCDRVPI 370 380 390 400 410 420 DGFSQNENKN SYLCNTGGRM HLVCPLSKSP YVDPHKSGHE IWEEFSMSFT PAVKEVVEFA 430 440 450 460 470 480 KRIPGFRDLS QHDQVNLLKA GTFEVLMVRF ASLFDAKERT VTFLSGKKYS VDDLHSMGAG 490 500 510 520 530 540 DLLNSMFEFS EKLNALQLSD EEMSLFTAVV LVSADRSGIE NVNSVEALQE TLIRALRTLI 550 560 570 MKNHPNEASI FTKLLLKLPD LRSLNNMHSE ELLAFKVHP

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isolation of a novel member of the thyroid/steroid hormone receptor superfamily from human osteoblastic osteosarcoma HOS cell." Kamizono A., Shuichiro K., Kohei U. Submitted (JUL-1993) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT MET-386.
[2]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Hippocampus.
[3]	"The DNA sequence, annotation and analysis of human chromosome 3." Muzny D.M., Scherer S.E., Kaul R., Wang J., Yu J., Sudbrak R., Buhay C.J., Chen R., Cree A., Ding Y., Dugan-Rocha S., Gill R., Gunaratne P., Harris R.A., Hawes A.C., Hernandez J., Hodgson A.V., Hume J. , Jackson A., Khan Z.M., Kovar-Smith C., Lewis L.R., Lozado R.J., Metzker M.L., Milosavljevic A., Miner G.R., Morgan M.B., Nazareth L.V., Scott G., Sodergren E., Song X.-Z., Steffen D., Wei S., Wheeler D.A., Wright M.W., Worley K.C., Yuan Y., Zhang Z., Adams C.Q., Ansari-Lari M.A., Ayele M., Brown M.J., Chen G., Chen Z., Clendenning J., Clerc-Blankenburg K.P., Chen R., Chen Z., Davis C., Delgado O., Dinh H.H., Dong W., Draper H., Ernst S., Fu G., Gonzalez-Garay M.L., Garcia D.K., Gillett W., Gu J., Hao B., Haugen E., Havlak P., He X., Hennig S., Hu S., Huang W., Jackson L.R., Jacob L.S., Kelly S.H., Kube M., Levy R., Li Z., Liu B., Liu J., Liu W., Lu J., Maheshwari M., Nguyen B.-V., Okwuonu G.O., Palmeiri A., Pasternak S., Perez L.M., Phelps K.A., Plopper F.J., Qiang B., Raymond C., Rodriguez R., Saenphimmachak C., Santibanez J., Shen H., Shen Y., Subramanian S., Tabor P.E., Verduzco D., Waldron L., Wang J., Wang J., Wang Q., Williams G.A., Wong G.K.-S., Yao Z., Zhang J., Zhang X., Zhao G., Zhou J., Zhou Y., Nelson D., Lehrach H., Reinhardt R., Naylor S.L., Yang H., Olson M., Weinstock G., Gibbs R.A. Nature 440:1194-1198(2006) [PubMed: 16641997] [Abstract] 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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANTS HIS-21; LYS-282; ARG-288 AND MET-386. Tissue: Brain.
[5]	"A new orphan member of the nuclear hormone receptor superfamily closely related to Rev-Erb." Dumas B., Harding H.P., Choi H.-S., Lehmann K.A., Chung M., Lazar M.A., Moore D.D. Mol. Endocrinol. 8:996-1005(1994) [PubMed: 7997240] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 2-579, VARIANT MET-386. Tissue: Peripheral blood lymphocyte.
[6]	"CIA, a novel estrogen receptor coactivator with a bifunctional nuclear receptor interacting determinant." Sauve F., McBroom L.D.B., Gallant J., Moraitis A.N., Labrie F., Giguere V. Mol. Cell. Biol. 21:343-353(2001) [PubMed: 11113208] [Abstract] Cited for: INTERACTION WITH NCOA5.
[7]	"Structural insight into the constitutive repression function of the nuclear receptor Rev-erbbeta." Woo E.-J., Jeong D.G., Lim M.-Y., Jun Kim S., Kim K.-J., Yoon S.-M., Park B.-C., Eon Ryu S. J. Mol. Biol. 373:735-744(2007) [PubMed: 17870090] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 386-579.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

D16815 mRNA. Translation: BAA20088.1.
AK313464 mRNA. Translation: BAG36250.1.
AC124914 Genomic DNA. No translation available.
BC045613 mRNA. Translation: AAH45613.1.
L31785 mRNA. Translation: AAA65937.1.

IPI

IPI00788022.

PIR

A57057.

RefSeq

NP_005117.3.

UniGene

Hs.37288

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2V0V	X-ray	2.40	A/B/C/D	387-579	[»]
2V7C	X-ray	2.40	A/B	387-579	[»]
3CQV	X-ray	1.90	A	381-579	[»]

SMR

Q14995. Positions 98-181.

ModBase

Search...

Genome annotation databases

Ensembl

ENSG00000174738. Homo sapiens. [Contig view]

GeneID

9975.

KEGG

hsa:9975.

Organism-specific databases

GeneCards

GC03P023961.

H-InvDB

HIX0024322.

HGNC

HGNC:7963. NR1D2.

MIM

602304. gene.

PharmGKB

PA31749.

GenAtlas

Search...

Phylogenomic databases

HOGENOM

Q14995.

HOVERGEN

Q14995.

Gene expression databases

ArrayExpress

Q14995.

Bgee

Q14995.

CleanEx

HS_NR1D2.

GermOnline

ENSG00000174738. Homo sapiens.

Family and domain databases

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]

Gene3D

G3DSA:1.10.565.10. Nucl_hrmn_rcpt_lig_bd. 1 hit.
G3DSA:3.30.50.10. Znf_NHR/GATA. 1 hit.

Pfam

PF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]

PRINTS

PR00398. STRDHORMONER.
PR00047. STROIDFINGER.
PR00350. VITAMINDR.

ProDom

PD000035. Znf_C4steroid. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]

PROSITE

PS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

37672.

SOURCE

Search...

Entry information

Entry name

NR1D2_HUMAN

Accession

Primary (citable) accession number: Q14995
Secondary accession number(s): B2R8Q3, O00402, Q86XD4

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1999
Last sequence update:	November 25, 2008
Last modified:	June 16, 2009
This is version 90 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)