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lin-40 DIOX_N domain-containing protein;ELM2 domain-containing protein [ Caenorhabditis elegans ]

Gene ID: 178788, updated on 2-Nov-2024

Summary

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Official Symbol
lin-40
Official Full Name
DIOX_N domain-containing protein;ELM2 domain-containing protein
Primary source
WormBase:WBGene00003025
Locus tag
CELE_T27C4.4
See related
AllianceGenome:WB:WBGene00003025
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Predicted to enable histone deacetylase binding activity; transcription coactivator activity; and transcription corepressor activity. Acts upstream of or within chromatin organization; mitochondrial unfolded protein response; and positive regulation of protein localization to nucleus. Located in nucleus. Part of NuRD complex. Is expressed in several structures, including distal tip cell; intestine; nervous system; pharynx; and somatic cell. Orthologous to several human genes including MTA1 (metastasis associated 1) and MTA3 (metastasis associated 1 family member 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See lin-40 in Genome Data Viewer
Location:
chromosome: V
Exon count:
7
Sequence:
Chromosome: V; NC_003283.11 (3704988..3712793)

Chromosome V - NC_003283.11Genomic Context describing neighboring genes Neighboring gene Uncharacterized protein Neighboring gene Neuropeptide-Like Protein Neighboring gene NadR/Ttd14 AAA domain-containing protein Neighboring gene ncRNA Neighboring gene Transmembrane protein Neighboring gene ncRNA Neighboring gene Seven TM Receptor

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Analysis of lethal mutations induced in a mutator strain that activates transposable elements in Caenorhabditis elegans. Clark DV, et al. Genome, 1990 Feb. PMID 2158925
  2. Identification of regulators of germ stem cell enwrapment by its niche in C. elegans. Linden LM, et al. Dev Biol, 2017 Sep 1. PMID 28648843, Free PMC Article
  3. Identification of epi-1 locus as a laminin alpha chain gene in the nematode Caenorhabditis elegans and characterization of epi-1 mutant alleles. Zhu X, et al. DNA Seq, 1999. PMID 10727078
  4. Formaldehyde mutagenesis of the eT1 balanced region in Caenorhabditis elegans: dose-response curve and the analysis of mutational events. Johnsen RC, et al. Mutat Res, 1988 Sep. PMID 3419443
  5. Role of C. elegans lin-40 MTA in vulval fate specification and morphogenesis. Chen Z, et al. Development, 2001 Dec. PMID 11731470

See all (52) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables chromatin binding IEA
Inferred from Electronic Annotation
more info
  
enables histone deacetylase binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within mitochondrial unfolded protein response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of protein localization to nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of NuRD complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of NuRD complex IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
DIOX_N domain-containing protein;ELM2 domain-containing protein
NP_001317834.1
  • Confirmed by transcript evidence
NP_001360139.1
  • Confirmed by transcript evidence
NP_504031.1
  • Partially confirmed by transcript evidence
NP_504032.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_003283.11 Reference assembly

    Range
    3704988..3712793
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001373016.2 → NP_001360139.1  DIOX_N domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q86S28
    Conserved Domains (4) summary
    smart00401
    Location:582 → 635
    ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
    cd04709
    Location:12 → 302
    BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...
    pfam01448
    Location:281 → 394
    ELM2; ELM2 domain
    cl21498
    Location:483 → 527
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  2. NM_071630.6 → NP_504031.1  DIOX_N domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_504031.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    O61907
    Conserved Domains (6) summary
    smart00717
    Location:482 → 527
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    smart00401
    Location:582 → 635
    ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
    cd04709
    Location:12 → 302
    BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...
    pfam01448
    Location:281 → 394
    ELM2; ELM2 domain
    cl00158
    Location:587 → 620
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
    cl21498
    Location:483 → 527
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  3. NM_071631.8 → NP_504032.1  DIOX_N domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_504032.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q76NP4
    Conserved Domains (6) summary
    smart00717
    Location:482 → 527
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    smart00401
    Location:582 → 635
    ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]
    cd04709
    Location:12 → 302
    BAH_MTA; BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH ...
    pfam01448
    Location:281 → 394
    ELM2; ELM2 domain
    cl00158
    Location:587 → 620
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
    cl21498
    Location:483 → 527
    SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

  4. NM_001330804.3 → NP_001317834.1  ELM2 domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A168H9W7
Nucleotide Protein
Heading Accession and Version

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