Gene interactions and pathways from curated databases and text-mining
Genes Dev 1999, PMID: 10444591

Analysis of the NuRD subunits reveals a histone deacetylase core complex and a connection with DNA methylation.

Zhang, Y; Ng, H H; Erdjument-Bromage, H; Tempst, P; Bird, A; Reinberg, D

ATP-dependent nucleosome remodeling and core histone acetylation and deacetylation represent mechanisms to alter nucleosome structure. NuRD is a multisubunit complex containing nucleosome remodeling and histone deacetylase activities. The histone deacetylases HDAC1 and HDAC2 and the histone binding proteins RbAp48 and RbAp46 form a core complex shared between NuRD and Sin3-histone deacetylase complexes. The histone deacetylase activity of the core complex is severely compromised. A novel polypeptide highly related to the metastasis-associated protein 1, MTA2, and the methyl-CpG-binding domain-containing protein, MBD3, were found to be subunits of the NuRD complex. MTA2 modulates the enzymatic activity of the histone deacetylase core complex. MBD3 mediates the association of MTA2 with the core histone deacetylase complex. MBD3 does not directly bind methylated DNA but is highly related to MBD2, a polypeptide that binds to methylated DNA and has been reported to possess demethylase activity. MBD2 interacts with the NuRD complex and directs the complex to methylated DNA. NuRD may provide a means of gene silencing by DNA methylation.

Document information provided by NCBI PubMed

Text Mining Data

MTA2 → MBD3: " MBD3 mediates the association of MTA2 with the core histone deacetylase complex "

Manually curated Databases

  • IRef Biogrid Interaction: HDAC1 — RBBP7 (association, biochemical)
  • IRef Biogrid Interaction: MTA2 — MBD2 (direct interaction, pull down)
  • IRef Biogrid Interaction: HDAC2 — HDAC1 (association, biochemical)
  • IRef Biogrid Interaction: RBBP7 — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: MTA2 — HDAC1 (association, biochemical)
  • IRef Biogrid Interaction: HDAC2 — MBD2 (direct interaction, pull down)
  • IRef Biogrid Interaction: HDAC2 — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: MTA2 — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: MBD3 — MBD2 (direct interaction, pull down)
  • IRef Biogrid Interaction: CHD3 — MBD2 (direct interaction, pull down)
  • IRef Biogrid Interaction: MTA2 — MBD3 (direct interaction, pull down)
  • IRef Biogrid Interaction: MTA2 — MBD3 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — MBD2 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — MBD2 (direct interaction, pull down)
  • IRef Biogrid Interaction: HDAC1 — SIN3A (association, biochemical)
  • IRef Biogrid Interaction: RBBP4 — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — RBBP4 (association, biochemical)
  • IRef Biogrid Interaction: MTA2 — HDAC2 (association, biochemical)
  • IRef Biogrid Interaction: MTA2 — RBBP7 (association, biochemical)
  • IRef Biogrid Interaction: MBD3 — RBBP7 (direct interaction, pull down)
  • IRef Biogrid Interaction: MTA2 — RBBP4 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — MBD3 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — MBD3 (direct interaction, pull down)
  • IRef Biogrid Interaction: MTA2 — CHD3 (association, biochemical)
  • IRef Biogrid Interaction: HDAC1 — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: SIN3B — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: SIN3A — SAP30 (association, biochemical)
  • IRef Biogrid Interaction: MBD3 — RBBP4 (direct interaction, pull down)
  • IRef Biogrid Interaction: HDAC1 — SIN3B (association, biochemical)
  • MIPS CORUM MeCP1 complex: MeCP1 complex complex (CHD4-HDAC1-HDAC2-MBD2-MBD3-MTA2-RBBP4-RBBP7)
  • IRef Corum Interaction: Complex of MBD2-HDAC2-RBBP4-MTA2-MBD3-RBBP7-HDAC1-CHD4 (association, pull down)
  • Gene Ontology Complexes histone deacetylase complex: histone deacetylase complex complex (RERE-ZNF217-CIR1-TAL1-HDAC4-NRIP1-HDAC5-MBD2-SAP30-CBX5-MTA2-TBL1Y)
  • IRef Hprd Interaction: MBD3 — RBBP7 (in vivo)
  • IRef Hprd Interaction: MBD3 — RBBP7 (in vitro)
  • IRef Hprd Interaction: Complex of 265 proteins (in vivo)
  • IRef Hprd Interaction: MBD3 — RBBP4 (in vivo)
  • IRef Hprd Interaction: MBD3 — RBBP4 (in vitro)
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → CHD4 (CHD4) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → p66 alpha (GATAD2A) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → p66 beta (GATAD2B) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → CHD3 (CHD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: HDAC complex complex (HDAC1-HDAC2-RBBP4-RBBP7) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → p66 alpha (GATAD2A) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → p66 beta (GATAD2B) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → CHD3 (CHD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD4 (CHD4) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 alpha (GATAD2A) → p66 beta (GATAD2B) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 alpha (GATAD2A) → CHD3 (CHD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 alpha (GATAD2A) → NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 alpha (GATAD2A) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 alpha (GATAD2A) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 beta (GATAD2B) → CHD3 (CHD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 beta (GATAD2B) → NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 beta (GATAD2B) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: p66 beta (GATAD2B) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD3 (CHD3) → NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD3 (CHD3) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: CHD3 (CHD3) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) → MTA2 (MTA2) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: NuRD/MBD3 Complex complex (MTA2-MBD3-CHD3-CHD4-GATAD2A-GATAD2B-RBBP7-HDAC1-RBBP4-HDAC2) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • NCI Pathway Database Signaling events mediated by HDAC Class I: MTA2 (MTA2) → MBD3 (MBD3) (modification, collaborate)
    Evidence: assay, physical interaction
  • Reactome Reaction: MTA1 → HIST1H4A (reaction)
  • Reactome Reaction: HDAC1 → HIST1H4A (reaction)
  • Reactome Reaction: SAP18 → HIST1H4A (reaction)
  • Reactome Reaction: MTA2 → HIST1H4A (reaction)
  • Reactome Reaction: BRMS1 → HIST1H4A (reaction)
  • Reactome Reaction: SAP30L → HIST1H4A (reaction)
  • Reactome Reaction: CHD4 → HIST1H4A (reaction)
  • Reactome Reaction: SUDS3 → HIST1H4A (reaction)
  • Reactome Reaction: HIST1H4A → ARID4B (reaction)
  • Reactome Reaction: HMG20B → HIST1H4A (reaction)
  • Reactome Reaction: MTA3 → HIST1H4A (reaction)
  • Reactome Reaction: REST → HIST1H4A (reaction)
  • Reactome Reaction: CHD3 → HIST1H4A (reaction)
  • Reactome Reaction: RCOR1 → HIST1H4A (reaction)
  • Reactome Reaction: HDAC2 → HIST1H4A (reaction)
  • Reactome Reaction: PHF21A → HIST1H4A (reaction)
  • Reactome Reaction: SAP30 → HIST1H4A (reaction)
  • Reactome Reaction: RBBP4 → HIST1H4A (reaction)
  • Reactome Reaction: KDM1A → HIST1H4A (reaction)
  • Reactome Reaction: MBD3 → HIST1H4A (reaction)
  • Reactome Reaction: RBBP7 → HIST1H4A (reaction)
  • Reactome Reaction: ARID4A → HIST1H4A (reaction)
In total, 177 gene pairs are associated to this article in curated databases