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Protein

Nuclear receptor ROR-beta

Gene

Rorb

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Nuclear receptor that binds DNA as a monomer to ROR response elements (RORE) containing a single core motif half-site 5'-AGGTCA-3' preceded by a short A-T-rich sequence. Considered to have intrinsic transcriptional activity, have some natural ligands such as all-trans retinoic acid (ATRA) and other retinoids which act as inverse agonists repressing the transcriptional activity. Required for normal postnatal development of rod and cone photoreceptor cells. Modulates rod photoreceptors differentiation at least by inducing the transcription factor NRL-mediated pathway. In cone photoreceptor cells, regulates transcription of OPN1SW. Involved in the regulation of the period length and stability of the circadian rhythm. May control cytoarchitectural patterning of neocortical neurons during development. May act in a dose-dependent manner to regulate barrel formation upon innervation of layer IV neurons by thalamocortical axons. May play a role in the suppression of osteoblastic differentiation through the inhibition of RUNX2 transcriptional activity.
Isoform 1 is critical for hindlimb motor control and for the differentiation of amacrine and horizontal cells in the retina. Regulates the expression of PTF1A synergistically with FOXN4.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi18 – 93Nuclear receptorPROSITE-ProRule annotationAdd BLAST76
Zinc fingeri21 – 41NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri57 – 81NR C4-typePROSITE-ProRule annotationAdd BLAST25

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, Developmental protein, DNA-binding, Receptor
Biological processBiological rhythms, Sensory transduction, Transcription, Transcription regulation, Vision
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-MMU-383280 Nuclear Receptor transcription pathway

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear receptor ROR-beta
Alternative name(s):
Nuclear receptor RZR-beta
Nuclear receptor subfamily 1 group F member 2
Retinoid-related orphan receptor-beta
Gene namesi
Name:Rorb
Synonyms:Nr1f2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 19

Organism-specific databases

MGIiMGI:1343464 Rorb

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Mice are blind, show juvenile ataxia, duck gait, hind paw clasping reflex as well as delayed onset of male fertility. They suffer a degeneration of the retina during postnatal development with severe defects in photoreceptor cell morphology. Mice display reduced anxiety and learned helplessness-related behaviors. They also show a significant increase of the circadian period. Knockouts for isoform 1 display duck gait and lack amacrine and horizontal cells with an excess of ganglion cells in the retina.4 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000535151 – 470Nuclear receptor ROR-betaAdd BLAST470

Proteomic databases

PaxDbiQ8R1B8
PRIDEiQ8R1B8

PTM databases

iPTMnetiQ8R1B8
PhosphoSitePlusiQ8R1B8

Expressioni

Tissue specificityi

Expressed in inner and outer neuroblastic layer as well as in the ganglion cell layer of the developing retina. Expressed in bone marrow osteoprogenitor cells.5 Publications

Developmental stagei

Expressed in the lateral cortical plate at E18.5 and only very weakly expressed by cortical neurons at E15.5. Expression progressively increases in layer IV neurons of the prospective somatosensory, visual and auditory cortices. At much lower levels, also expressed by scattered neurons in layer V in these areas. By P4, expression is striking in the whisker barrel cortex of the somatosensory cortex. During retinal development, isoform 1 is broadly expressed in between E13.5 and P5 then declines and is maintained at lower levels into adulthood. At E15.5, is expressed in the immature cochlea, brainstem, spinal cord and cerebral cortex. Isoform 2 is first detected at low levels at late embryonic stages (E18.5), the expression highly increases during the first postnatal week and is maintained during the adulthood.2 Publications

Inductioni

Induced by aging in bone marrow.1 Publication

Gene expression databases

BgeeiENSMUSG00000036192 Expressed in 152 organ(s), highest expression level in optic fissure
CleanExiMM_RORB
ExpressionAtlasiQ8R1B8 baseline and differential
GenevisibleiQ8R1B8 MM

Interactioni

Subunit structurei

Monomer. Interacts with CRX.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi230457, 7 interactors
STRINGi10090.ENSMUSP00000047597

Structurei

3D structure databases

ProteinModelPortaliQ8R1B8
SMRiQ8R1B8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini222 – 460NR LBDPROSITE-ProRule annotationAdd BLAST239

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni94 – 221HingeSequence analysisAdd BLAST128

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi456 – 461AF-26

Domaini

AF-2 (activation function-2) motif is required for recruiting coregulators containing the LXXLL motif, such as NCOA1, and control the transactivational activity.By similarity

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri21 – 41NR C4-typePROSITE-ProRule annotationAdd BLAST21
Zinc fingeri57 – 81NR C4-typePROSITE-ProRule annotationAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG4216 Eukaryota
ENOG410XUGR LUCA
GeneTreeiENSGT00870000136388
HOGENOMiHOG000010200
HOVERGENiHBG106848
InParanoidiQ8R1B8
KOiK08533
OMAiCTLHTEE
OrthoDBiEOG091G0649
PhylomeDBiQ8R1B8
TreeFamiTF319910

Family and domain databases

Gene3Di3.30.50.10, 1 hit
InterProiView protein in InterPro
IPR035500 NHR_like_dom_sf
IPR000536 Nucl_hrmn_rcpt_lig-bd
IPR001723 Nuclear_hrmn_rcpt
IPR003079 ROR_rcpt
IPR001628 Znf_hrmn_rcpt
IPR013088 Znf_NHR/GATA
PfamiView protein in Pfam
PF00104 Hormone_recep, 1 hit
PF00105 zf-C4, 1 hit
PRINTSiPR01293 RORNUCRECPTR
PR00398 STRDHORMONER
PR00047 STROIDFINGER
SMARTiView protein in SMART
SM00430 HOLI, 1 hit
SM00399 ZnF_C4, 1 hit
SUPFAMiSSF48508 SSF48508, 1 hit
PROSITEiView protein in PROSITE
PS51843 NR_LBD, 1 hit
PS00031 NUCLEAR_REC_DBD_1, 1 hit
PS51030 NUCLEAR_REC_DBD_2, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative promoter usage. AlignAdd to basket

This entry has 2 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 2 (identifier: Q8R1B8-2) [UniParc]FASTAAdd to basket

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.

« Hide
        10         20         30         40         50
MCENQPKTKA DGTAQIEVIP CKICGDKSSG IHYGVITCEG CKGFFRRSQQ
60 70 80 90 100
NNASYSCPRQ RNCLIDRTNR NRCQHCRLQK CLALGMSRDA VKFGRMSKKQ
110 120 130 140 150
RDSLYAEVQK HQQRLQEQRQ QQSGEAEALA RVYSSSISNG LSNLNTETGG
160 170 180 190 200
TYANGHVIDL PKSEGYYSID SGQPSPDQSG LDMTGIKQIK QEPIYDLTSV
210 220 230 240 250
PNLFTYSSFN NGQLAPGITM SEIDRIAQNI IKSHLETCQY TMEELHQLAW
260 270 280 290 300
QTHTYEEIKA YQSKSREALW QQCAIQITHA IQYVVEFAKR ITGFMELCQN
310 320 330 340 350
DQILLLKSGC LEVVLVRMCR AFNPLNNTVL FEGKYGGMQM FKALGSDDLV
360 370 380 390 400
NEAFDFAKNL CSLQLTEEEI ALFSSAVLIS PDRAWLIEPR KVQKLQEKIY
410 420 430 440 450
FALQHVIQKN HLDDETLAKL IAKIPTITAV CNLHGEKLQV FKQSHPDIVN
460 470
TLFPPLYKEL FNPDCAAVCK
Length:470
Mass (Da):53,118
Last modified:January 23, 2007 - v3
Checksum:i6E2F30DB56E94B86
GO
Isoform 1 (identifier: Q8R1B8-1) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-13: MCENQPKTKADGT → MR

Show »
Length:459
Mass (Da):52,000
Checksum:i8A22F5C8D104B269
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0R4J1H4A0A0R4J1H4_MOUSE
Nuclear receptor ROR-beta
Rorb
385Annotation score:

Sequence cautioni

The sequence AAH24842 differs from that shown. Intron retention.Curated
The sequence AAH58269 differs from that shown. Intron retention.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti107E → G in BAE93688 (Ref. 2) Curated1
Sequence conflicti220M → L in BAE93688 (Ref. 2) Curated1
Sequence conflicti247Q → H in BAE93688 (Ref. 2) Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0225761 – 13MCENQ…KADGT → MR in isoform 1. 2 PublicationsAdd BLAST13

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC024842 mRNA Translation: AAH24842.2 Sequence problems.
BC058269 mRNA Translation: AAH58269.1 Sequence problems.
DQ779923 mRNA Translation: ABG77269.1
DQ779924 mRNA Translation: ABG77270.1
AB258405 mRNA Translation: BAE93688.1
CCDSiCCDS37932.1 [Q8R1B8-1]
CCDS37933.1 [Q8R1B8-2]
RefSeqiNP_001036819.1, NM_001043354.2 [Q8R1B8-1]
NP_001276850.1, NM_001289921.1
NP_666207.3, NM_146095.4 [Q8R1B8-2]
UniGeneiMm.234641

Genome annotation databases

EnsembliENSMUST00000040153; ENSMUSP00000047597; ENSMUSG00000036192 [Q8R1B8-2]
ENSMUST00000112832; ENSMUSP00000108451; ENSMUSG00000036192 [Q8R1B8-1]
GeneIDi225998
KEGGimmu:225998
UCSCiuc008gyc.2 mouse [Q8R1B8-2]
uc008gye.2 mouse [Q8R1B8-1]

Keywords - Coding sequence diversityi

Alternative promoter usage

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC024842 mRNA Translation: AAH24842.2 Sequence problems.
BC058269 mRNA Translation: AAH58269.1 Sequence problems.
DQ779923 mRNA Translation: ABG77269.1
DQ779924 mRNA Translation: ABG77270.1
AB258405 mRNA Translation: BAE93688.1
CCDSiCCDS37932.1 [Q8R1B8-1]
CCDS37933.1 [Q8R1B8-2]
RefSeqiNP_001036819.1, NM_001043354.2 [Q8R1B8-1]
NP_001276850.1, NM_001289921.1
NP_666207.3, NM_146095.4 [Q8R1B8-2]
UniGeneiMm.234641

3D structure databases

ProteinModelPortaliQ8R1B8
SMRiQ8R1B8
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi230457, 7 interactors
STRINGi10090.ENSMUSP00000047597

PTM databases

iPTMnetiQ8R1B8
PhosphoSitePlusiQ8R1B8

Proteomic databases

PaxDbiQ8R1B8
PRIDEiQ8R1B8

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000040153; ENSMUSP00000047597; ENSMUSG00000036192 [Q8R1B8-2]
ENSMUST00000112832; ENSMUSP00000108451; ENSMUSG00000036192 [Q8R1B8-1]
GeneIDi225998
KEGGimmu:225998
UCSCiuc008gyc.2 mouse [Q8R1B8-2]
uc008gye.2 mouse [Q8R1B8-1]

Organism-specific databases

CTDi6096
MGIiMGI:1343464 Rorb

Phylogenomic databases

eggNOGiKOG4216 Eukaryota
ENOG410XUGR LUCA
GeneTreeiENSGT00870000136388
HOGENOMiHOG000010200
HOVERGENiHBG106848
InParanoidiQ8R1B8
KOiK08533
OMAiCTLHTEE
OrthoDBiEOG091G0649
PhylomeDBiQ8R1B8
TreeFamiTF319910

Enzyme and pathway databases

ReactomeiR-MMU-383280 Nuclear Receptor transcription pathway

Miscellaneous databases

ChiTaRSiRorb mouse
PROiPR:Q8R1B8
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000036192 Expressed in 152 organ(s), highest expression level in optic fissure
CleanExiMM_RORB
ExpressionAtlasiQ8R1B8 baseline and differential
GenevisibleiQ8R1B8 MM

Family and domain databases

Gene3Di3.30.50.10, 1 hit
InterProiView protein in InterPro
IPR035500 NHR_like_dom_sf
IPR000536 Nucl_hrmn_rcpt_lig-bd
IPR001723 Nuclear_hrmn_rcpt
IPR003079 ROR_rcpt
IPR001628 Znf_hrmn_rcpt
IPR013088 Znf_NHR/GATA
PfamiView protein in Pfam
PF00104 Hormone_recep, 1 hit
PF00105 zf-C4, 1 hit
PRINTSiPR01293 RORNUCRECPTR
PR00398 STRDHORMONER
PR00047 STROIDFINGER
SMARTiView protein in SMART
SM00430 HOLI, 1 hit
SM00399 ZnF_C4, 1 hit
SUPFAMiSSF48508 SSF48508, 1 hit
PROSITEiView protein in PROSITE
PS51843 NR_LBD, 1 hit
PS00031 NUCLEAR_REC_DBD_1, 1 hit
PS51030 NUCLEAR_REC_DBD_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRORB_MOUSE
AccessioniPrimary (citable) accession number: Q8R1B8
Secondary accession number(s): Q0PQZ2, Q0PQZ3, Q1MVR9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 21, 2004
Last sequence update: January 23, 2007
Last modified: September 12, 2018
This is version 144 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
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