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Protein

Nuclear hormone receptor family member nhr-25

Gene

nhr-25

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Orphan nuclear receptor. Seems to be required during development. Disruption of nhr-25 function leads to embryonic arrest due to failure of the epidermally mediated process of embryo elongation.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi15 – 9076Nuclear receptorPROSITE-ProRule annotationAdd
BLAST
Zinc fingeri18 – 3821NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri54 – 7825NR C4-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • molting cycle, collagen and cuticulin-based cuticle Source: WormBase
  • multicellular organism development Source: UniProtKB-KW
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Receptor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear hormone receptor family member nhr-25
Gene namesi
Name:nhr-25
ORF Names:F11C1.6
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome X

Organism-specific databases

WormBaseiF11C1.6a; CE03191; WBGene00003623; nhr-25.
F11C1.6b; CE35856; WBGene00003623; nhr-25.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  • nucleus Source: WormBase
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 572572Nuclear hormone receptor family member nhr-25PRO_0000053774Add
BLAST

Proteomic databases

PaxDbiQ19345.
PRIDEiQ19345.

Expressioni

Tissue specificityi

Expressed in the epidermis, the developing somatic gonad, and a subset of other epithelial cells.1 Publication

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
sys-1Q9XVI22EBI-3871243,EBI-3871339
wrm-1Q109533EBI-3871243,EBI-2530558

GO - Molecular functioni

  • armadillo repeat domain binding Source: UniProtKB

Protein-protein interaction databases

BioGridi46336. 4 interactions.
IntActiQ19345. 2 interactions.
STRINGi6239.F11C1.6a.

Structurei

3D structure databases

ProteinModelPortaliQ19345.
SMRiQ19345. Positions 16-109, 320-534.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the nuclear hormone receptor family.Curated
Contains 1 nuclear receptor DNA-binding domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri18 – 3821NR C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri54 – 7825NR C4-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG4218. Eukaryota.
ENOG410YWC2. LUCA.
GeneTreeiENSGT00760000118887.
HOGENOMiHOG000021002.
InParanoidiQ19345.
OMAiRPNHEGE.
OrthoDBiEOG7BS4B9.
PhylomeDBiQ19345.

Family and domain databases

Gene3Di1.10.565.10. 3 hits.
3.30.50.10. 1 hit.
InterProiIPR016355. NR5_fam.
IPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PANTHERiPTHR24086. PTHR24086. 2 hits.
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTiSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMiSSF48508. SSF48508. 2 hits.
PROSITEiPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

Isoform a (identifier: Q19345-1) [UniParc]FASTAAdd to basket

Also known as: Alpha

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
MTDVERMVLR PNHEGEMCPV CGDRVSGYHY GLLTCESCKG FFKRTVQNKK
60 70 80 90 100
QYQCSAEANC HVDRTCRKRC PSCRFQKCLT MGMKMEAVRA DRMRGGRNKF
110 120 130 140 150
GSFYKKDRAH RMQRNAMRVS TVQVPAVLGA QSQAQTFYQP PEHQVSSSTT
160 170 180 190 200
DQNNQINYFD QTKIKTEYIK TEYDAHLQSP TLSSSTNQQL SVSDFIMRPG
210 220 230 240 250
YLVDPQDSLA VLLGSTIDDP LLRHTFPAAY QLNEVKQEPF DYSEQFIHHS
260 270 280 290 300
LHDYPTYTSN TTNYATMMPM TTVSSTQSLV TSTSSTTTGR MTEASSTSPI
310 320 330 340 350
LPLCPAPTEK TVDHFYNSSI AEMCKTLPDD AQIARIFTSV KGTSKPEKHA
360 370 380 390 400
FSIQVAEENL KDIVIWAKND QLFSKLSLDD QMILLQTSWT TVHIVDITNA
410 420 430 440 450
MVHGNLLSQY KMSNGDEVPV GLVALLGNQT FVSSWNDVVI RLRNMGFTNF
460 470 480 490 500
DYCAFRFLAL FDQSMDSFPA VSTARSRVLQ SWREVRCTTA FLEIFEQIRR
510 520 530 540 550
LAYDSLRYLW NLHSNCPTNW EQFFPEASLV LEMIRTTVNR SASSSVTAIT
560 570
QVPAIQLPTP QATYTAVPYM AS
Length:572
Mass (Da):64,772
Last modified:November 1, 1996 - v1
Checksum:iD3092AE533092D7A
GO
Isoform b (identifier: Q19345-2) [UniParc]FASTAAdd to basket

Also known as: Beta

The sequence of this isoform differs from the canonical sequence as follows:
     1-80: Missing.

Show »
Length:492
Mass (Da):55,521
Checksum:i666A99A41C0E2404
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti100 – 1001F → L in AAF67039 (PubMed:10772806).Curated
Sequence conflicti540 – 5401R → Q in AAF67039 (PubMed:10772806).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8080Missing in isoform b. 1 PublicationVSP_003723Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF179214 mRNA. Translation: AAF67038.1.
AF179215 mRNA. Translation: AAF67039.1.
AF179216 mRNA. Translation: AAF67040.1.
Z54270 Genomic DNA. Translation: CAA91028.1.
Z54270 Genomic DNA. Translation: CAE48496.1.
PIRiT20764.
RefSeqiNP_001024550.1. NM_001029379.2. [Q19345-1]
NP_001024551.1. NM_001029380.3. [Q19345-2]
UniGeneiCel.7338.

Genome annotation databases

EnsemblMetazoaiF11C1.6a; F11C1.6a; WBGene00003623. [Q19345-1]
GeneIDi181432.
KEGGicel:CELE_F11C1.6.
UCSCiF11C1.6b.2. c. elegans. [Q19345-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF179214 mRNA. Translation: AAF67038.1.
AF179215 mRNA. Translation: AAF67039.1.
AF179216 mRNA. Translation: AAF67040.1.
Z54270 Genomic DNA. Translation: CAA91028.1.
Z54270 Genomic DNA. Translation: CAE48496.1.
PIRiT20764.
RefSeqiNP_001024550.1. NM_001029379.2. [Q19345-1]
NP_001024551.1. NM_001029380.3. [Q19345-2]
UniGeneiCel.7338.

3D structure databases

ProteinModelPortaliQ19345.
SMRiQ19345. Positions 16-109, 320-534.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi46336. 4 interactions.
IntActiQ19345. 2 interactions.
STRINGi6239.F11C1.6a.

Proteomic databases

PaxDbiQ19345.
PRIDEiQ19345.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiF11C1.6a; F11C1.6a; WBGene00003623. [Q19345-1]
GeneIDi181432.
KEGGicel:CELE_F11C1.6.
UCSCiF11C1.6b.2. c. elegans. [Q19345-1]

Organism-specific databases

CTDi181432.
WormBaseiF11C1.6a; CE03191; WBGene00003623; nhr-25.
F11C1.6b; CE35856; WBGene00003623; nhr-25.

Phylogenomic databases

eggNOGiKOG4218. Eukaryota.
ENOG410YWC2. LUCA.
GeneTreeiENSGT00760000118887.
HOGENOMiHOG000021002.
InParanoidiQ19345.
OMAiRPNHEGE.
OrthoDBiEOG7BS4B9.
PhylomeDBiQ19345.

Miscellaneous databases

NextBioi913918.
PROiQ19345.

Family and domain databases

Gene3Di1.10.565.10. 3 hits.
3.30.50.10. 1 hit.
InterProiIPR016355. NR5_fam.
IPR000536. Nucl_hrmn_rcpt_lig-bd.
IPR001723. Nuclear_hrmn_rcpt.
IPR001628. Znf_hrmn_rcpt.
IPR013088. Znf_NHR/GATA.
[Graphical view]
PANTHERiPTHR24086. PTHR24086. 2 hits.
PfamiPF00104. Hormone_recep. 1 hit.
PF00105. zf-C4. 1 hit.
[Graphical view]
PRINTSiPR00398. STRDHORMONER.
PR00047. STROIDFINGER.
SMARTiSM00430. HOLI. 1 hit.
SM00399. ZnF_C4. 1 hit.
[Graphical view]
SUPFAMiSSF48508. SSF48508. 2 hits.
PROSITEiPS00031. NUCLEAR_REC_DBD_1. 1 hit.
PS51030. NUCLEAR_REC_DBD_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "nhr-25, the Caenorhabditis elegans ortholog of ftz-f1, is required for epidermal and somatic gonad development."
    Gissendanner C.R., Sluder A.E.
    Dev. Biol. 221:259-272(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B), FUNCTION, TISSUE SPECIFICITY.
    Strain: Bristol N2.
  2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.

Entry informationi

Entry nameiNHR25_CAEEL
AccessioniPrimary (citable) accession number: Q19345
Secondary accession number(s): Q7JMA3
, Q9NJ95, Q9NJ96, Q9NJ97
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1996
Last modified: May 11, 2016
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.