NHR25_CAEEL
ID NHR25_CAEEL Reviewed; 572 AA.
AC Q19345; Q7JMA3; Q9NJ95; Q9NJ96; Q9NJ97;
DT 30-MAY-2000, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1996, sequence version 1.
DT 03-AUG-2022, entry version 165.
DE RecName: Full=Nuclear hormone receptor family member nhr-25;
GN Name=nhr-25 {ECO:0000312|WormBase:F11C1.6a};
GN ORFNames=F11C1.6 {ECO:0000312|WormBase:F11C1.6b};
OS Caenorhabditis elegans.
OC Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida;
OC Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae;
OC Caenorhabditis.
OX NCBI_TaxID=6239;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B), FUNCTION, SUBCELLULAR
RP LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, AND DISRUPTION
RP PHENOTYPE.
RC STRAIN=Bristol N2;
RX PubMed=10772806; DOI=10.1006/dbio.2000.9679;
RA Gissendanner C.R., Sluder A.E.;
RT "nhr-25, the Caenorhabditis elegans ortholog of ftz-f1, is required for
RT epidermal and somatic gonad development.";
RL Dev. Biol. 221:259-272(2000).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Bristol N2;
RX PubMed=9851916; DOI=10.1126/science.282.5396.2012;
RG The C. elegans sequencing consortium;
RT "Genome sequence of the nematode C. elegans: a platform for investigating
RT biology.";
RL Science 282:2012-2018(1998).
RN [3]
RP FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH NOB-1 AND LIN-39,
RP DISRUPTION PHENOTYPE, AND MUTAGENESIS OF LEU-32.
RX PubMed=15314147; DOI=10.1128/mcb.24.17.7345-7358.2004;
RA Chen Z., Eastburn D.J., Han M.;
RT "The Caenorhabditis elegans nuclear receptor gene nhr-25 regulates
RT epidermal cell development.";
RL Mol. Cell. Biol. 24:7345-7358(2004).
RN [4]
RP FUNCTION, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE, AND MUTAGENESIS OF
RP LEU-32.
RX PubMed=21408209; DOI=10.1371/journal.pgen.1002010;
RA Nelson M.D., Zhou E., Kiontke K., Fradin H., Maldonado G., Martin D.,
RA Shah K., Fitch D.H.;
RT "A bow-tie genetic architecture for morphogenesis suggested by a genome-
RT wide RNAi screen in Caenorhabditis elegans.";
RL PLoS Genet. 7:E1002010-E1002010(2011).
RN [5]
RP FUNCTION, AND INDUCTION.
RX PubMed=29748542; DOI=10.1038/s41598-018-25333-8;
RA Park M.R., Ryu S., Maburutse B.E., Oh N.S., Kim S.H., Oh S., Jeong S.Y.,
RA Jeong D.Y., Oh S., Kim Y.;
RT "Probiotic Lactobacillus fermentum strain JDFM216 stimulates the longevity
RT and immune response of Caenorhabditis elegans through a nuclear hormone
RT receptor.";
RL Sci. Rep. 8:7441-7441(2018).
CC -!- FUNCTION: Orphan nuclear receptor and probable transcription activator,
CC required during development (PubMed:10772806, PubMed:15314147). Plays a
CC role in male tail tip morphogenesis regulating the expression of the
CC transcription factor dmd-3 in a negative feedback loop
CC (PubMed:21408209). Regulates vulval precursor cell (VPC)
CC differentiation, in concert with homeobox protein lin-39
CC (PubMed:15314147). Involved in promoting embryogenesis, in concert with
CC homeobox protein nob-1 (PubMed:15314147). May play a role in modulation
CC of lifespan and immunity (PubMed:29748542).
CC {ECO:0000269|PubMed:10772806, ECO:0000269|PubMed:15314147,
CC ECO:0000269|PubMed:21408209, ECO:0000269|PubMed:29748542}.
CC -!- SUBUNIT: Interacts with lin-39 (PubMed:15314147). Interacts with nob-1
CC (PubMed:15314147). {ECO:0000269|PubMed:15314147}.
CC -!- INTERACTION:
CC Q19345; Q9XVI2: sys-1; NbExp=2; IntAct=EBI-3871243, EBI-3871339;
CC Q19345; Q10953: wrm-1; NbExp=3; IntAct=EBI-3871243, EBI-2530558;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00407,
CC ECO:0000269|PubMed:10772806, ECO:0000269|PubMed:15314147}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=a {ECO:0000312|WormBase:F11C1.6a}; Synonyms=Alpha
CC {ECO:0000303|PubMed:10772806};
CC IsoId=Q19345-1; Sequence=Displayed;
CC Name=b {ECO:0000312|WormBase:F11C1.6b}; Synonyms=Beta
CC {ECO:0000303|PubMed:10772806};
CC IsoId=Q19345-2; Sequence=VSP_003723;
CC -!- TISSUE SPECIFICITY: Expressed in the epidermis, the developing somatic
CC gonad, and a subset of other epithelial cells.
CC {ECO:0000269|PubMed:10772806}.
CC -!- DEVELOPMENTAL STAGE: First expressed post-fertilization and expression
CC continues throughout embryogenesis to adulthood (PubMed:10772806). More
CC highly expressed in embryos and L1 to L3 stage larvae than L4 larva and
CC adults (PubMed:10772806). Highly expressed in hyp8-11 cells in the male
CC tail tip during male tail tip morphogenesis but ceases by the late L4
CC larval stage of development (PubMed:21408209).
CC {ECO:0000269|PubMed:10772806, ECO:0000269|PubMed:21408209}.
CC -!- INDUCTION: Transcription up-regulated in response to intestinal
CC colonization by probiotic Lactobacillus fermentum strain JDFM216
CC (PubMed:29748542). {ECO:0000269|PubMed:29748542}.
CC -!- DISRUPTION PHENOTYPE: RNAi-mediated knockdown results in embryonic or
CC larval lethality in the majority of animals (PubMed:10772806). RNAi-
CC mediated knockdown results in embryos that do not survive due to failed
CC epidermally mediated process of embryo elongation (PubMed:10772806). Of
CC the animals that hatch, larvae display a squat body statue, referred to
CC as a dumpy phenotype, have uncoordinated movements and posterior
CC patterning defects (PubMed:10772806). Larvae also have anterior
CC patterning defects such as kinked or notched noses (PubMed:10772806).
CC Animals that progress to adulthood are sterile and vulvaless
CC (PubMed:10772806). RNAi-mediated knockdown disrupts tail tip
CC morphogenesis resulting in retention of the pointed larval tail tip in
CC 33% of adult males (also known as the Lep phenotype) (PubMed:10772806,
CC PubMed:21408209). Knockdown causes enhanced embryonic lethality on a
CC nob-1 mutant background. {ECO:0000269|PubMed:10772806,
CC ECO:0000269|PubMed:15314147, ECO:0000269|PubMed:21408209}.
CC -!- SIMILARITY: Belongs to the nuclear hormone receptor family.
CC {ECO:0000305}.
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DR EMBL; AF179214; AAF67038.1; -; mRNA.
DR EMBL; AF179215; AAF67039.1; -; mRNA.
DR EMBL; AF179216; AAF67040.1; -; mRNA.
DR EMBL; BX284606; CAA91028.1; -; Genomic_DNA.
DR EMBL; BX284606; CAE48496.1; -; Genomic_DNA.
DR PIR; T20764; T20764.
DR RefSeq; NP_001024550.1; NM_001029379.2. [Q19345-1]
DR RefSeq; NP_001024551.1; NM_001029380.3. [Q19345-2]
DR AlphaFoldDB; Q19345; -.
DR SMR; Q19345; -.
DR BioGRID; 46336; 9.
DR IntAct; Q19345; 2.
DR STRING; 6239.F11C1.6a; -.
DR EPD; Q19345; -.
DR PaxDb; Q19345; -.
DR PeptideAtlas; Q19345; -.
DR EnsemblMetazoa; F11C1.6a.1; F11C1.6a.1; WBGene00003623. [Q19345-1]
DR EnsemblMetazoa; F11C1.6a.2; F11C1.6a.2; WBGene00003623. [Q19345-1]
DR EnsemblMetazoa; F11C1.6b.1; F11C1.6b.1; WBGene00003623. [Q19345-2]
DR GeneID; 181432; -.
DR KEGG; cel:CELE_F11C1.6; -.
DR UCSC; F11C1.6b.2; c. elegans. [Q19345-1]
DR CTD; 181432; -.
DR WormBase; F11C1.6a; CE03191; WBGene00003623; nhr-25. [Q19345-1]
DR WormBase; F11C1.6b; CE35856; WBGene00003623; nhr-25. [Q19345-2]
DR eggNOG; KOG4218; Eukaryota.
DR GeneTree; ENSGT00940000153391; -.
DR HOGENOM; CLU_011437_0_0_1; -.
DR InParanoid; Q19345; -.
DR OMA; NSIVTWA; -.
DR OrthoDB; 619653at2759; -.
DR PhylomeDB; Q19345; -.
DR SignaLink; Q19345; -.
DR PRO; PR:Q19345; -.
DR Proteomes; UP000001940; Chromosome X.
DR Bgee; WBGene00003623; Expressed in embryo and 6 other tissues.
DR GO; GO:0005634; C:nucleus; IDA:WormBase.
DR GO; GO:0090575; C:RNA polymerase II transcription regulator complex; IBA:GO_Central.
DR GO; GO:0070016; F:armadillo repeat domain binding; IPI:UniProtKB.
DR GO; GO:0004879; F:nuclear receptor activity; IEA:InterPro.
DR GO; GO:0000978; F:RNA polymerase II cis-regulatory region sequence-specific DNA binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0009755; P:hormone-mediated signaling pathway; IBA:GO_Central.
DR GO; GO:0018996; P:molting cycle, collagen and cuticulin-based cuticle; IMP:WormBase.
DR GO; GO:0110039; P:positive regulation of nematode male tail tip morphogenesis; IMP:UniProtKB.
DR GO; GO:0045944; P:positive regulation of transcription by RNA polymerase II; IMP:WormBase.
DR GO; GO:0006357; P:regulation of transcription by RNA polymerase II; IBA:GO_Central.
DR GO; GO:0009888; P:tissue development; IBA:GO_Central.
DR Gene3D; 1.10.565.10; -; 1.
DR Gene3D; 3.30.50.10; -; 1.
DR InterPro; IPR035500; NHR-like_dom_sf.
DR InterPro; IPR016355; NR5_fam.
DR InterPro; IPR000536; Nucl_hrmn_rcpt_lig-bd.
DR InterPro; IPR001723; Nuclear_hrmn_rcpt.
DR InterPro; IPR001628; Znf_hrmn_rcpt.
DR InterPro; IPR013088; Znf_NHR/GATA.
DR PANTHER; PTHR24086; PTHR24086; 1.
DR Pfam; PF00104; Hormone_recep; 1.
DR Pfam; PF00105; zf-C4; 1.
DR PRINTS; PR00398; STRDHORMONER.
DR PRINTS; PR00047; STROIDFINGER.
DR SMART; SM00430; HOLI; 1.
DR SMART; SM00399; ZnF_C4; 1.
DR SUPFAM; SSF48508; SSF48508; 1.
DR PROSITE; PS51843; NR_LBD; 1.
DR PROSITE; PS00031; NUCLEAR_REC_DBD_1; 1.
DR PROSITE; PS51030; NUCLEAR_REC_DBD_2; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Developmental protein; DNA-binding; Metal-binding;
KW Nucleus; Receptor; Reference proteome; Transcription;
KW Transcription regulation; Zinc; Zinc-finger.
FT CHAIN 1..572
FT /note="Nuclear hormone receptor family member nhr-25"
FT /id="PRO_0000053774"
FT DOMAIN 307..567
FT /note="NR LBD"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01189"
FT DNA_BIND 15..90
FT /note="Nuclear receptor"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 18..38
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT ZN_FING 54..78
FT /note="NR C4-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00407"
FT VAR_SEQ 1..80
FT /note="Missing (in isoform b)"
FT /evidence="ECO:0000303|PubMed:10772806"
FT /id="VSP_003723"
FT MUTAGEN 32
FT /note="L->F: In ku217; disrupts tail tip morphogenesis
FT resulting in retention of the pointed larval tail tip in
FT adult males (also known as the Lep phenotype). Causes
FT embryonic and larval lethality, sterility, egg-laying
FT defects, and abnormal vulval precursor cell
FT differentiation. Abolishes expression of the transcription
FT factor dmd-3 in hyp8-11 tail tip cells."
FT /evidence="ECO:0000269|PubMed:15314147,
FT ECO:0000269|PubMed:21408209"
FT CONFLICT 100
FT /note="F -> L (in Ref. 1; AAF67039)"
FT /evidence="ECO:0000305"
FT CONFLICT 540
FT /note="R -> Q (in Ref. 1; AAF67039)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 572 AA; 64772 MW; D3092AE533092D7A CRC64;
MTDVERMVLR PNHEGEMCPV CGDRVSGYHY GLLTCESCKG FFKRTVQNKK QYQCSAEANC
HVDRTCRKRC PSCRFQKCLT MGMKMEAVRA DRMRGGRNKF GSFYKKDRAH RMQRNAMRVS
TVQVPAVLGA QSQAQTFYQP PEHQVSSSTT DQNNQINYFD QTKIKTEYIK TEYDAHLQSP
TLSSSTNQQL SVSDFIMRPG YLVDPQDSLA VLLGSTIDDP LLRHTFPAAY QLNEVKQEPF
DYSEQFIHHS LHDYPTYTSN TTNYATMMPM TTVSSTQSLV TSTSSTTTGR MTEASSTSPI
LPLCPAPTEK TVDHFYNSSI AEMCKTLPDD AQIARIFTSV KGTSKPEKHA FSIQVAEENL
KDIVIWAKND QLFSKLSLDD QMILLQTSWT TVHIVDITNA MVHGNLLSQY KMSNGDEVPV
GLVALLGNQT FVSSWNDVVI RLRNMGFTNF DYCAFRFLAL FDQSMDSFPA VSTARSRVLQ
SWREVRCTTA FLEIFEQIRR LAYDSLRYLW NLHSNCPTNW EQFFPEASLV LEMIRTTVNR
SASSSVTAIT QVPAIQLPTP QATYTAVPYM AS
