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Q64249 (NR6A1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 127. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Nuclear receptor subfamily 6 group A member 1
Alternative name(s):
Germ cell nuclear factor
Short name=GCNF
Short name=mGCNF
Retinoid receptor-related testis-specific receptor
Short name=RTR
Gene names
Name:Nr6a1
Synonyms:Gcnf
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length495 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Orphan nuclear receptor. Binds to a response element containing the sequence 5'-TCAAGGTCA-3'. May be involved in the regulation of gene expression in germ cell development during gametogenesis. Ref.1

Subunit structure

Homodimer. Interacts with UIMC1. Ref.1 Ref.6 Ref.7 Ref.8

Subcellular location

Nucleus Probable.

Tissue specificity

Expressed in the germ cells of both the adult testis and ovary, being most abundant in spermatids. Ref.1 Ref.2

Sequence similarities

Belongs to the nuclear hormone receptor family. NR6 subfamily.

Contains 1 nuclear receptor DNA-binding domain.

Ontologies

Keywords
   Biological processDifferentiation
Spermatogenesis
Transcription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DomainZinc-finger
   LigandDNA-binding
Metal-binding
Zinc
   Molecular functionDevelopmental protein
Receptor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processcell differentiation

Inferred from electronic annotation. Source: UniProtKB-KW

gamete generation

Inferred from expression pattern Ref.2Ref.1. Source: UniProtKB

multicellular organismal development

Inferred from electronic annotation. Source: UniProtKB-KW

negative regulation of transcription from RNA polymerase II promoter

Inferred from direct assay PubMed 11702949PubMed 16166633. Source: MGI

spermatogenesis

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentnucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

transcription factor complex

Inferred from direct assay PubMed 16166633. Source: MGI

   Molecular_functionDNA binding

Inferred from direct assay PubMed 11702949PubMed 16166633. Source: MGI

protein binding

Inferred from physical interaction Ref.8. Source: HGNC

protein homodimerization activity

Inferred from direct assay Ref.1Ref.7. Source: UniProtKB

sequence-specific DNA binding

Inferred from direct assay Ref.1Ref.7. Source: UniProtKB

sequence-specific DNA binding transcription factor activity

Inferred from electronic annotation. Source: InterPro

steroid hormone receptor activity

Inferred from electronic annotation. Source: InterPro

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q64249-1)

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 2 (identifier: Q64249-2)

The sequence of this isoform differs from the canonical sequence as follows:
     48-62: Missing.
     63-63: V → I
Note: No experimental confirmation available.
Isoform 3 (identifier: Q64249-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-57: Missing.
     58-62: QGHIP → METWE
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 495495Nuclear receptor subfamily 6 group A member 1
PRO_0000053742

Regions

DNA binding72 – 14776Nuclear receptor Ref.1 Ref.7
Zinc finger75 – 9521NR C4-type
Zinc finger111 – 13525NR C4-type
Region187 – 26882Sufficient for interaction with UIMC1

Natural variations

Alternative sequence1 – 5757Missing in isoform 3.
VSP_025928
Alternative sequence48 – 6215Missing in isoform 2.
VSP_025929
Alternative sequence58 – 625QGHIP → METWE in isoform 3.
VSP_025930
Alternative sequence631V → I in isoform 2.
VSP_025931

Experimental info

Mutagenesis246 – 2472SY → GG: Abolishes interaction with RXRIP110. Ref.8
Mutagenesis254 – 2552LP → AA: Does not abolish interaction with RXRIP110. Ref.8
Mutagenesis265 – 2662SY → AA: Does not abolish interaction with RXRIP110. Ref.8

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: ECB0AB3E99E42661

FASTA49555,976
        10         20         30         40         50         60 
MERDERPPSG GGGGGGSAGF LEPPAALPPP PRNGFCQDEL AELDPGTNGE TDSLTLGQGH 

        70         80         90        100        110        120 
IPVSVPDDRA EQRTCLICGD RATGLHYGII SCEGCKGFFK RSICNKRVYR CSRDKNCVMS 

       130        140        150        160        170        180 
RKQRNRCQYC RLLKCLQMGM NRKAIREDGM PGGRNKSIGP VQISEEEIER IMSGQEFEEE 

       190        200        210        220        230        240 
ANHWSNHGDS DHSSPGNRAS ESNQPSPGST LSSSRSVELN GFMAFRDQYM GMSVPPHYQY 

       250        260        270        280        290        300 
IPHLFSYSGH SPLLPPQARS LDPQSYSLIH QLMSAEDLEP LGTPMLIEDG YAVTQAELFA 

       310        320        330        340        350        360 
LLCRLADELL FRQIAWIKKL PFFCELSIKD YTCLLSSTWQ ELILLSSLTV YSKQIFGELA 

       370        380        390        400        410        420 
DVTAKYSPSD EELHRFSDEG MEVIERLIYL YHKFHQLKVS NEEYACMKAI NFLNQDIRGL 

       430        440        450        460        470        480 
TSASQLEQLN KRYWYICQDF TEYKYTHQPN RFPDLMMCLP EIRYIAGKMV NVPLEQLPLL 

       490 
FKVVLHSCKT STVKE 

« Hide

Isoform 2 [UniParc].

Checksum: 17DA7AC5DB297A23
Show »

FASTA48054,469
Isoform 3 [UniParc].

Checksum: 78B62010C39F7310
Show »

FASTA43850,445

References

« Hide 'large scale' references
[1]"Cloning of a novel orphan receptor (GCNF) expressed during germ cell development."
Chen F., Cooney A.J., Wang Y., Law S.W., O'Malley B.W.
Mol. Endocrinol. 8:1434-1444(1994) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, DNA-BINDING, HOMODIMERIZATION, TISSUE SPECIFICITY.
Strain: BALB/c.
Tissue: Testis.
[2]"RTR: a new member of the nuclear receptor superfamily that is highly expressed in murine testis."
Hirose T., O'Brien D.A., Jetten A.M.
Gene 152:247-251(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
Strain: CD-1.
Tissue: Testis.
[3]"Genomic structure of the gene for mouse germ cell nuclear factor (GCNF)."
Suesens U., Borgmeyer U.
Genome Biol. 1:RESEARCH0006.1-RESEARCH0006.3(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: 129/SvJ.
Tissue: Liver.
[4]"Analysis of germ cell nuclear factor transcripts and protein expression during spermatogenesis."
Yang G., Zhang Y.-L., Buchold G.M., Jetten A.M., O'Brien D.A.
Biol. Reprod. 68:1620-1630(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: 129/Ola.
Tissue: Testis.
[5]"Lineage-specific biology revealed by a finished genome assembly of the mouse."
Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. expand/collapse author list , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P.
PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: C57BL/6J.
[6]"Isolation of proteins that interact specifically with the retinoid X receptor: two novel orphan receptors."
Seol W., Choi H.S., Moore D.D.
Mol. Endocrinol. 9:72-85(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH UIMC1.
[7]"xGCNF, a nuclear orphan receptor is expressed during neurulation in Xenopus laevis."
Joos T.O., David R., Dreyer C.
Mech. Dev. 60:45-57(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: DNA-BINDING, HOMODIMERIZATION.
[8]"RAP80: a novel nuclear protein that interacts with the retinoid-related testis-associated receptor."
Yan Z., Kim Y.-S., Jetten A.M.
J. Biol. Chem. 277:32379-32388(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH UIMC1, MUTAGENESIS OF 246-SER-TYR-247; 254-LEU-PRO-255 AND 265-SER-THY-266.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U14666 mRNA. Translation: AAA92682.1.
U09563 mRNA. Translation: AAA64746.1.
AF254821 expand/collapse EMBL AC list , AF254575, AF254815, AF254816, AF254817, AF254818, AF254819, AF254820 Genomic DNA. Translation: AAG24485.1.
AF390896 mRNA. Translation: AAM55193.1.
AF390900 expand/collapse EMBL AC list , AF390897, AF390898, AF390899 Genomic DNA. Translation: AAM95878.1.
AL844842, AL935155 Genomic DNA. Translation: CAM21928.1.
AL844842, AL935155 Genomic DNA. Translation: CAM21929.1.
AL844842 Genomic DNA. Translation: CAM21933.1.
AL935155, AL844842 Genomic DNA. Translation: CAM21313.1.
AL935155, AL844842 Genomic DNA. Translation: CAM21314.1.
CCDSCCDS16012.1. [Q64249-1]
CCDS50581.1. [Q64249-3]
PIRA57053.
RefSeqNP_001153020.1. NM_001159548.1. [Q64249-3]
NP_034394.1. NM_010264.4. [Q64249-1]
XP_006497771.1. XM_006497708.1. [Q64249-2]
UniGeneMm.439703.

3D structure databases

ProteinModelPortalQ64249.
SMRQ64249. Positions 72-484.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid199868. 5 interactions.
STRING10090.ENSMUSP00000108498.

PTM databases

PhosphoSiteQ64249.

Proteomic databases

PRIDEQ64249.

Protocols and materials databases

DNASU14536.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000076275; ENSMUSP00000075624; ENSMUSG00000063972. [Q64249-1]
ENSMUST00000112877; ENSMUSP00000108498; ENSMUSG00000063972. [Q64249-1]
ENSMUST00000168098; ENSMUSP00000126009; ENSMUSG00000063972. [Q64249-3]
GeneID14536.
KEGGmmu:14536.
UCSCuc012bus.1. mouse. [Q64249-3]
uc012buu.1. mouse. [Q64249-1]

Organism-specific databases

CTD2649.
MGIMGI:1352459. Nr6a1.

Phylogenomic databases

eggNOGNOG253308.
GeneTreeENSGT00750000117458.
HOGENOMHOG000113847.
HOVERGENHBG052664.
InParanoidQ64249.
KOK08561.
OMAHQLVSAE.
OrthoDBEOG78WKRG.
PhylomeDBQ64249.
TreeFamTF350737.

Gene expression databases

BgeeQ64249.
CleanExMM_NR6A1.
GenevestigatorQ64249.

Family and domain databases

Gene3D1.10.565.10. 3 hits.
3.30.50.10. 1 hit.
InterProIPR008946. Nucl_hormone_rcpt_ligand-bd.
IPR000536. Nucl_hrmn_rcpt_lig-bd_core.
IPR001723. Str_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PfamPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMSSF48508. SSF48508. 2 hits.
PROSITEPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSNR6A1. mouse.
NextBio286194.
PROQ64249.
SOURCESearch...

Entry information

Entry nameNR6A1_MOUSE
AccessionPrimary (citable) accession number: Q64249
Secondary accession number(s): A2AQL8, A2AQM1, Q687Z3
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: November 1, 1996
Last modified: July 9, 2014
This is version 127 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot