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

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_003283.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

blmp-1 is necessary for controlling histone methylation level in daf-7 mutants, suggesting BLMP-1 regulates the expression of SAMS-1, which in turn may regulate histone methylation and dauer formation.Our results reveal a new interaction between BLMP-1/BLIMP-1 and LIN-40/MTA1, as well as potential epigenetic downstream pathways
Title: BLIMP-1/BLMP-1 and Metastasis-Associated Protein Regulate Stress Resistant Development in Caenorhabditis elegans.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

T27C4.4 (e-PCR)
- UniSTS:311041

Homology

Orthologs from OrthoDB

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

NC_003283.11 Reference assembly

Range

3704988..3712793

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Status: REVIEWED

UniProtKB/TrEMBL

A0A168H9W7