Gene interactions and pathways from curated databases and text-mining
J Biol Chem 2003, PMID: 12777385

Proteomic analysis of human Nop56p-associated pre-ribosomal ribonucleoprotein complexes. Possible link between Nop56p and the nucleolar protein treacle responsible for Treacher Collins syndrome.

Hayano, Toshiya; Yanagida, Mitsuaki; Yamauchi, Yoshio; Shinkawa, Takashi; Isobe, Toshiaki; Takahashi, Nobuhiro

Nop56p is a component of the box C/D small nucleolar ribonucleoprotein complexes that direct 2'-O-methylation of pre-rRNA during its maturation. Genetic analyses in yeast have shown that Nop56p plays important roles in the early steps of pre-rRNA processing. However, its precise function remains elusive, especially in higher eukaryotes. Here we describe the proteomic characterization of human Nop56p (hNop56p)-associated pre-ribosomal ribonucleoprotein complexes. Mass spectrometric analysis of purified pre-ribosomal ribonucleoprotein complexes identified 61 ribosomal proteins, 16 trans-acting factors probably involved in ribosome biogenesis, and 29 proteins whose function in ribosome biogenesis is unknown. Identification of pre-rRNA species within hNop56p-associated pre-ribosomal ribonucleoprotein complexes, coupled with the known functions of yeast orthologs of the probable trans-acting factors identified in human, demonstrated that hNop56p functions in the early to middle stages of 60 S subunit synthesis in human cells. Interestingly, the nucleolar phosphoprotein treacle, which is responsible for the craniofacial disorder associated with Treacher Collins syndrome, was found to be a constituent of hNop56p-associated pre-rRNP complexes. The association of hNop56p and treacle within the complexes was independent of rRNA integrity, indicating a direct interaction. In addition, the protein compositions of the treacle-associated and hNop56p-associated pre-ribosomal ribonucleoprotein complexes were very similar, suggesting functional similarities between these two complexes with respect to ribosome biogenesis in human cells.

Diseases/Pathways annotated by Medline MESH: Mandibulofacial Dysostosis
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Text Mining Data

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Manually curated Databases

  • IRef Bind Interaction: Complex of 46 proteins
  • IRef Biogrid Interaction: PWP1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP58 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: GNL3 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — U2AF1 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: EEF1A1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: EEF2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL15 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: MYBBP1A — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: HIST1H2BM — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: SLC25A5 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL18 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — LUC7L2 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL9 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: HIST1H1D — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: ACTA2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: SRP14 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL11 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: SCYL2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — ACTG2 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL27A (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL5 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL6 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: LYAR — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: DHX9 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL10A (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: DDX21 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL18A — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL17 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NHP2L1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NCL — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: EBNA1BP2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL26 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL8 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: HNRNPA1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: TOP1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: H1FX — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: TUBB1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL13 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL23A — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — IGF2BP1 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL21 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL12 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: TUBA1A — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL4 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL30 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPS8 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — HNRNPM (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPS4X — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: U2AF2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: YBX1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — NPM1 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPS9 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL13A (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPS16 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL23 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: TUFM — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: ILF2 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — HNRNPU (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL7 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL35A — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL10 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOLC1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL14 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RPL3 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: RPL31 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — ILF3 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: BRIX1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — TCOF1 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — PPAN (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NAP1L1 — NOP56 (physical association, affinity chromatography technology)
  • IRef Biogrid Interaction: NOP56 — RBM28 (physical association, affinity chromatography technology)
  • MIPS CORUM Nop56p-associated pre-rRNA complex: Nop56p-associated pre-rRNA complex complex (ACTA2-ACTG2-BRIX1-DDX21-DHX9-EBNA1BP2-EEF1A1-EEF2-FBL-GNL3-H1FX-HIST1H1D-HIST1H2BM-HNRNPA1-HNRNPM-HNRNPU-IGF2BP1-ILF2-ILF3-LUC7L2-LYAR-MYBBP1A-NAP1L1-NCL-NHP2L1-NOP58-NOP56-NOLC1-NPM1-PWP1-RBM28-RPL10-RPL10A-RPL11-RPL12-RPL13-RPL13A-RPL14-RPL15-RPL17-RPL18-RPL18A-RPL19-RPL21-RPL22-RPL23-RPL23A-RPL24-RPL26-RPL27-RPL27A-RPL28-RPL29-RPL3-RPL30-RPL31-RPL32-RPL35-RPL35A-RPL36-RPL36A-RPL37A-RPL39-RPL4-RPL5-RPL6-RPL7-RPL7A-RPL8-RPL9-RPLP0-RPLP1-RPLP2-RPS11-RPS12-RPS13-RPS14-RPS15-RPS15A-RPS16-RPS17-RPS18-RPS2-RPS23-RPS24-RPS29-RPS3A-RPS6-RPS7-RPS8-RPS9-RSL1D1-SCYL2-SLC25A5-SRP14-SRPK1-TCOF1-TOP1-TUBA1A-TUBB1-TUFM-U2AF1-U2AF2-YBX1)
  • IRef Corum Interaction: Complex of 209 proteins (association, anti tag coimmunoprecipitation)
  • IRef Hprd Interaction: TCOF1 — NOP56 (in vitro)
In total, 5445 gene pairs are associated to this article in curated databases