Nuclear receptor ROR-alpha - Homo sapiens (Human)

Names and origin

Protein names

Recommended name:
    Nuclear receptor ROR-alpha
Alternative name(s):
    Retinoid-related orphan receptor-alpha
    Nuclear receptor RZR-alpha
    Nuclear receptor subfamily 1 group F member 1

Gene names

Name:	RORA
Synonyms:	NR1F1, RZRA

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

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

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Protein attributes

Sequence length	556 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	Orphan nuclear receptor. Binds DNA as a monomer to hormone response elements (HRE) containing a single core motif half-site preceded by a short A-T-rich sequence. This isomer binds to the consensus sequence 5'-[AT][TA]A[AT][CGT]TAGGTCA-3'.
Subunit structure	Monomer.
Subcellular location	Nucleus Probable.
Sequence similarities	Belongs to the nuclear hormone receptor family. NR1 subfamily. Contains 1 nuclear receptor DNA-binding domain.

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Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Molecular function	Activator Receptor
Technical term	3D-structure
Gene Ontology (GO)
Biological process	positive regulation of transcription from RNA polymerase II promoter Inferred from direct assay. Source: MGI signal transduction Ref.1 Non-traceable author statement. Source: ProtInc transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	protein binding Inferred from physical interaction. Source: IntAct sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro steroid hormone receptor activity Inferred from electronic annotation. Source: InterPro transcription factor activity Inferred from direct assay. Source: MGI zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct	Notes
NR0B1	P51843	1	EBI-748689,EBI-946109

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Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform Alpha-2 (identifier: P35398-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform Alpha-1 (identifier: P35398-2) The sequence of this isoform differs from the canonical sequence as follows: 1-99: MNEGAPGDSD...KEVQTGYMNA → MESAPAAPDP...ISVTKKTHTS

Isoform Alpha-3 (identifier: P35398-3) The sequence of this isoform differs from the canonical sequence as follows: 46-98: RDELFGILQI...DKEVQTGYMN → SSSTCSSLSR...FSFLLPALRK

Isoform Alpha-4 (identifier: P35398-4) The sequence of this isoform differs from the canonical sequence as follows: 1-98: MNEGAPGDSD...DKEVQTGYMN → MMYFVIAEMK

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 556

556

Nuclear receptor ROR-alpha

PRO_0000053512

Regions

DNA binding

106 – 171

66

Nuclear receptor

Zinc finger

106 – 126

21

NR C4-type

Zinc finger

142 – 166

25

NR C4-type

Region

1 – 105

105

Modulating

Region

172 – 304

133

Hinge

Region

305 – 556

252

Ligand-binding

Compositional bias

199 – 202

4

Poly-Gln

Natural variations

Alternative sequence

1 – 99

99

MNEGA…GYMNA → MESAPAAPDPAASEPGSSGA DAAAGSRETPLNQESARKSE PPAPVRRQSYSSTSRGISVT KKTHTS in isoform Alpha-1.

VSP_003655

Alternative sequence

1 – 98

98

MNEGA…TGYMN → MMYFVIAEMK in isoform Alpha-4.

VSP_003657

Alternative sequence

46 – 98

53

RDELF…TGYMN → SSSTCSSLSRLFWSQLEHIN WDGATAKNFINLREFFSFLL PALRK in isoform Alpha-3.

VSP_003656

Natural variant

18

1

P → S in a colorectal cancer sample; somatic mutation. Ref.4

VAR_036062

Experimental info

Sequence conflict

401

1

M → V in AAA02963. Ref.2

Sequence conflict

499

1

I → M in AAA02963. Ref.2

Secondary structure

1

.

556

Helix Strand Turn

Details...

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Sequences

Sequence		Length	Mass (Da)
Isoform Alpha-2 [UniParc]. Last modified June 1, 1994. Version 1. Checksum: 0D9797A147CEE8AE Show »	FASTA	556	63,036
10 20 30 40 50 60 MNEGAPGDSD LETEARVPWS IMGHCLRTGQ ARMSATPTPA GEGARRDELF GILQILHQCI 70 80 90 100 110 120 LSSGDAFVLT GVCCSWRQNG KPPYSQKEDK EVQTGYMNAQ IEIIPCKICG DKSSGIHYGV 130 140 150 160 170 180 ITCEGCKGFF RRSQQSNATY SCPRQKNCLI DRTSRNRCQH CRLQKCLAVG MSRDAVKFGR 190 200 210 220 230 240 MSKKQRDSLY AEVQKHRMQQ QQRDHQQQPG EAEPLTPTYN ISANGLTELH DDLSNYIDGH 250 260 270 280 290 300 TPEGSKADSA VSSFYLDIQP SPDQSGLDIN GIKPEPICDY TPASGFFPYC SFTNGETSPT 310 320 330 340 350 360 VSMAELEHLA QNISKSHLET CQYLREELQQ ITWQTFLQEE IENYQNKQRE VMWQLCAIKI 370 380 390 400 410 420 TEAIQYVVEF AKRIDGFMEL CQNDQIVLLK AGSLEVVFIR MCRAFDSQNN TVYFDGKYAS 430 440 450 460 470 480 PDVFKSLGCE DFISFVFEFG KSLCSMHLTE DEIALFSAFV LMSADRSWLQ EKVKIEKLQQ 490 500 510 520 530 540 KIQLALQHVL QKNHREDGIL TKLICKVSTL RALCGRHTEK LMAFKAIYPD IVRLHFPPLY 550 KELFTSEFEP AMQIDG « Hide
Isoform Alpha-1. Checksum: 0FA43BBCE6E28DC7 Show »	FASTA	523	58,975
10 20 30 40 50 60 MESAPAAPDP AASEPGSSGA DAAAGSRETP LNQESARKSE PPAPVRRQSY SSTSRGISVT 70 80 90 100 110 120 KKTHTSQIEI IPCKICGDKS SGIHYGVITC EGCKGFFRRS QQSNATYSCP RQKNCLIDRT 130 140 150 160 170 180 SRNRCQHCRL QKCLAVGMSR DAVKFGRMSK KQRDSLYAEV QKHRMQQQQR DHQQQPGEAE 190 200 210 220 230 240 PLTPTYNISA NGLTELHDDL SNYIDGHTPE GSKADSAVSS FYLDIQPSPD QSGLDINGIK 250 260 270 280 290 300 PEPICDYTPA SGFFPYCSFT NGETSPTVSM AELEHLAQNI SKSHLETCQY LREELQQITW 310 320 330 340 350 360 QTFLQEEIEN YQNKQREVMW QLCAIKITEA IQYVVEFAKR IDGFMELCQN DQIVLLKAGS 370 380 390 400 410 420 LEVVFIRMCR AFDSQNNTVY FDGKYASPDV FKSLGCEDFI SFVFEFGKSL CSMHLTEDEI 430 440 450 460 470 480 ALFSAFVLMS ADRSWLQEKV KIEKLQQKIQ LALQHVLQKN HREDGILTKL ICKVSTLRAL 490 500 510 520 CGRHTEKLMA FKAIYPDIVR LHFPPLYKEL FTSEFEPAMQ IDG « Hide
Isoform Alpha-3. Checksum: 505F1369DEFEB3A6 Show »	FASTA	548	62,251
10 20 30 40 50 60 MNEGAPGDSD LETEARVPWS IMGHCLRTGQ ARMSATPTPA GEGARSSSTC SSLSRLFWSQ 70 80 90 100 110 120 LEHINWDGAT AKNFINLREF FSFLLPALRK AQIEIIPCKI CGDKSSGIHY GVITCEGCKG 130 140 150 160 170 180 FFRRSQQSNA TYSCPRQKNC LIDRTSRNRC QHCRLQKCLA VGMSRDAVKF GRMSKKQRDS 190 200 210 220 230 240 LYAEVQKHRM QQQQRDHQQQ PGEAEPLTPT YNISANGLTE LHDDLSNYID GHTPEGSKAD 250 260 270 280 290 300 SAVSSFYLDI QPSPDQSGLD INGIKPEPIC DYTPASGFFP YCSFTNGETS PTVSMAELEH 310 320 330 340 350 360 LAQNISKSHL ETCQYLREEL QQITWQTFLQ EEIENYQNKQ REVMWQLCAI KITEAIQYVV 370 380 390 400 410 420 EFAKRIDGFM ELCQNDQIVL LKAGSLEVVF IRMCRAFDSQ NNTVYFDGKY ASPDVFKSLG 430 440 450 460 470 480 CEDFISFVFE FGKSLCSMHL TEDEIALFSA FVLMSADRSW LQEKVKIEKL QQKIQLALQH 490 500 510 520 530 540 VLQKNHREDG ILTKLICKVS TLRALCGRHT EKLMAFKAIY PDIVRLHFPP LYKELFTSEF EPAMQIDG « Hide
Isoform Alpha-4. Checksum: 928118C357B9017A Show »	FASTA	468	53,598
10 20 30 40 50 60 MMYFVIAEMK AQIEIIPCKI CGDKSSGIHY GVITCEGCKG FFRRSQQSNA TYSCPRQKNC 70 80 90 100 110 120 LIDRTSRNRC QHCRLQKCLA VGMSRDAVKF GRMSKKQRDS LYAEVQKHRM QQQQRDHQQQ 130 140 150 160 170 180 PGEAEPLTPT YNISANGLTE LHDDLSNYID GHTPEGSKAD SAVSSFYLDI QPSPDQSGLD 190 200 210 220 230 240 INGIKPEPIC DYTPASGFFP YCSFTNGETS PTVSMAELEH LAQNISKSHL ETCQYLREEL 250 260 270 280 290 300 QQITWQTFLQ EEIENYQNKQ REVMWQLCAI KITEAIQYVV EFAKRIDGFM ELCQNDQIVL 310 320 330 340 350 360 LKAGSLEVVF IRMCRAFDSQ NNTVYFDGKY ASPDVFKSLG CEDFISFVFE FGKSLCSMHL 370 380 390 400 410 420 TEDEIALFSA FVLMSADRSW LQEKVKIEKL QQKIQLALQH VLQKNHREDG ILTKLICKVS 430 440 450 460 TLRALCGRHT EKLMAFKAIY PDIVRLHFPP LYKELFTSEF EPAMQIDG « Hide

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isoform-specific amino-terminal domains dictate DNA-binding properties of ROR alpha, a novel family of orphan hormone nuclear receptors." Giguere V., Tini M., Flock G., Ong E., Evans R.M., Otulakowski G. Genes Dev. 8:538-553(1994) [PubMed: 7926749] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS ALPHA-1; ALPHA-2 AND ALPHA-3). Tissue: Retina and Testis.
[2]	"Identification of nuclear receptor mRNAs by RT-PCR amplification of conserved zinc-finger motif sequences." Becker-Andre M., Andre E., Delamarter J.F. Biochem. Biophys. Res. Commun. 194:1371-1379(1993) [PubMed: 7916608] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM ALPHA-4). Tissue: Umbilical vein endothelial cell.
[3]	"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] (ISOFORM ALPHA-1). Tissue: Muscle.
[4]	"The consensus coding sequences of human breast and colorectal cancers." Sjoeblom T., Jones S., Wood L.D., Parsons D.W., Lin J., Barber T.D., Mandelker D., Leary R.J., Ptak J., Silliman N., Szabo S., Buckhaults P., Farrell C., Meeh P., Markowitz S.D., Willis J., Dawson D., Willson J.K.V. Velculescu V.E. Science 314:268-274(2006) [PubMed: 16959974] [Abstract] Cited for: VARIANT [LARGE SCALE ANALYSIS] SER-18.
+	Additional computationally mapped references.

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Cross-references

Sequence databases

U04897 mRNA. Translation: AAA62658.1.
U04898 mRNA. Translation: AAA62659.1.
U04899 mRNA. Translation: AAA62660.1.
L14611 mRNA. Translation: AAA02963.1.
BC008831 mRNA. Translation: AAH08831.1.

IPI

IPI00018225.
IPI00107635.
IPI00218544.
IPI00243584.

PIR

A53196.
A56856.
B53196.
C53196.

RefSeq

NP_002934.1.
NP_599022.1.
NP_599023.1.

UniGene

Hs.695914

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1N83	X-ray	1.63	A	304-556	[»]
1S0X	X-ray	2.20	A	304-556	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

P35398. 3 interactions.

PTM databases

PhosphoSite

P35398.

Proteomic databases

PRIDE

P35398.

Genome annotation databases

Ensembl

ENSG00000069667. Homo sapiens. [Contig view]

GeneID

6095.

KEGG

hsa:6095.

Organism-specific databases

GeneCards

GC15M058576.

H-InvDB

HIX0012303.

HGNC

HGNC:10258. RORA.

HPA

CAB009861.

MIM

600825. gene.

PharmGKB

PA34630.

GenAtlas

Search...

Phylogenomic databases

HOGENOM

P35398.

HOVERGEN

P35398.

OMA

P35398. SWRENGK.

Enzyme and pathway databases

Pathway_Interaction_DB

hif1_tfpathway. HIF-1-alpha transcription factor network.

Gene expression databases

ArrayExpress

P35398.

Bgee

P35398.

CleanEx

HS_RORA.

GermOnline

ENSG00000069667. Homo sapiens.

Family and domain databases

InterPro

IPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR003079. ROR_rcpt.
IPR001723. Str_hrmn_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

PR01293. RORNUCRECPTR.
PR00398. STRDHORMONER.
PR00047. STROIDFINGER.

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

23703.

SOURCE

Search...

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Entry information

Entry name

RORA_HUMAN

Accession

Primary (citable) accession number: P35398
Secondary accession number(s): P35397

Q96H83

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 1, 1994
Last sequence update:	June 1, 1994
Last modified:	June 16, 2009
This is version 100 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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Relevant documents

Human chromosome 15

Human chromosome 15: entries, gene names and cross-references to MIM

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Alternative products

Sequence annotation (Features)

Molecule processing

Regions

Natural variations

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other Resources

Entry information

Relevant documents