3SDE

Crystal structure of a paraspeckle-protein heterodimer, PSPC1/NONO


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of the heterodimer of human NONO and paraspeckle protein component 1 and analysis of its role in subnuclear body formation.

Passon, D.M.Lee, M.Rackham, O.Stanley, W.A.Sadowska, A.Filipovska, A.Fox, A.H.Bond, C.S.

(2012) Proc Natl Acad Sci U S A 109: 4846-4850

  • DOI: 10.1073/pnas.1120792109
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Proteins of the Drosophila behavior/human splicing (DBHS) family include mammalian SFPQ (PSF), NONO (p54nrb), PSPC1, and invertebrate NONA and Hrp65. DBHS proteins are predominately nuclear, and are involved in transcriptional and posttranscriptional ...

    Proteins of the Drosophila behavior/human splicing (DBHS) family include mammalian SFPQ (PSF), NONO (p54nrb), PSPC1, and invertebrate NONA and Hrp65. DBHS proteins are predominately nuclear, and are involved in transcriptional and posttranscriptional gene regulatory functions as well as DNA repair. DBHS proteins influence a wide gamut of biological processes, including the regulation of circadian rhythm, carcinogenesis, and progression of cancer. Additionally, mammalian DBHS proteins associate with the architectural long noncoding RNA NEAT1 (Menε/β) to form paraspeckles, subnuclear bodies that alter gene expression via the nuclear retention of RNA. Here we describe the crystal structure of the heterodimer of the multidomain conserved region of the DBHS proteins, PSPC1 and NONO. These proteins form an extensively intertwined dimer, consistent with the observation that the different DBHS proteins are typically copurified from mammalian cells, and suggesting that they act as obligate heterodimers. The PSPC1/NONO heterodimer has a right-handed antiparallel coiled-coil that positions two of four RNA recognition motif domains in an unprecedented arrangement on either side of a 20-Å channel. This configuration is supported by a protein:protein interaction involving the NONA/paraspeckle domain, which is characteristic of the DBHS family. By examining various mutants and truncations in cell culture, we find that DBHS proteins require an additional antiparallel coiled-coil emanating from either end of the dimer for paraspeckle subnuclear body formation. These results suggest that paraspeckles may potentially form through self-association of DBHS dimers into higher-order structures.


    Related Citations: 
    • PSPC1/NONO, a paraspeckle-specific heterodimer: from optimisation of C-terminus to diffraction-quality crystals
      Lee, M., Passon, D.M., Fox, A.H., Bond, C.S.
      () To be published --: --
    • Crystallisation of a paraspeckle protein PSPC1/NONO heterodimer
      Passon, D.M., Lee, M., Fox, A.H., Bond, C.S.
      () To be published --: --

    Organizational Affiliation

    School of Chemistry and Biochemistry, University of Western Australia, Crawley, Western Australia 6009, Australia.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Paraspeckle component 1A261Homo sapiensMutation(s): 0 
Gene Names: PSPC1PSP1
Find proteins for Q8WXF1 (Homo sapiens)
Explore Q8WXF1 
Go to UniProtKB:  Q8WXF1
NIH Common Fund Data Resources
PHAROS  Q8WXF1
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Non-POU domain-containing octamer-binding proteinB261Homo sapiensMutation(s): 0 
Gene Names: NONONRB54
Find proteins for Q15233 (Homo sapiens)
Explore Q15233 
Go to UniProtKB:  Q15233
NIH Common Fund Data Resources
PHAROS  Q15233
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download CCD File 
A, B
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.9α = 90
b = 67.18β = 99.96
c = 94.08γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
SOLVEphasing
BUSTERrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-03-14
    Type: Initial release
  • Version 1.1: 2012-03-28
    Changes: Database references
  • Version 1.2: 2012-04-11
    Changes: Database references