5LXY

Structure of the minimal RBM7 - ZCCHC8 Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.262 

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Literature

Structure of the RBM7-ZCCHC8 core of the NEXT complex reveals connections to splicing factors.

Falk, S.Finogenova, K.Melko, M.Benda, C.Lykke-Andersen, S.Jensen, T.H.Conti, E.

(2016) Nat Commun 7: 13573-13573

  • DOI: 10.1038/ncomms13573
  • Primary Citation of Related Structures:  
    5LXY, 5LXR

  • PubMed Abstract: 
  • The eukaryotic RNA exosome participates extensively in RNA processing and degradation. In human cells, three accessory factors (RBM7, ZCCHC8 and hMTR4) interact to form the nuclear exosome targeting (NEXT) complex, which directs a subset of non-coding RNAs for exosomal degradation ...

    The eukaryotic RNA exosome participates extensively in RNA processing and degradation. In human cells, three accessory factors (RBM7, ZCCHC8 and hMTR4) interact to form the nuclear exosome targeting (NEXT) complex, which directs a subset of non-coding RNAs for exosomal degradation. Here we elucidate how RBM7 is incorporated in the NEXT complex. We identify a proline-rich segment of ZCCHC8 as the interaction site for the RNA-recognition motif (RRM) of RBM7 and present the crystal structure of the corresponding complex at 2.0 Å resolution. On the basis of the structure, we identify a proline-rich segment within the splicing factor SAP145 with strong similarity to ZCCHC8. We show that this segment of SAP145 not only binds the RRM region of another splicing factor SAP49 but also the RRM of RBM7. These dual interactions of RBM7 with the exosome and the spliceosome suggest a model whereby NEXT might recruit the exosome to degrade intronic RNAs.


    Organizational Affiliation

    Department of Structural Cell Biology, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-binding protein 7 ABEGIKM90Homo sapiensMutation(s): 0 
Gene Names: RBM7
Find proteins for Q9Y580 (Homo sapiens)
Explore Q9Y580 
Go to UniProtKB:  Q9Y580
NIH Common Fund Data Resources
PHAROS:  Q9Y580
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Zinc finger CCHC domain-containing protein 8 CDFHJLN45Homo sapiensMutation(s): 0 
Gene Names: ZCCHC8
Find proteins for Q6NZY4 (Homo sapiens)
Explore Q6NZY4 
Go to UniProtKB:  Q6NZY4
NIH Common Fund Data Resources
PHAROS:  Q6NZY4
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.300 
  • R-Value Work: 0.262 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 178.771α = 90
b = 66.575β = 126.57
c = 111.912γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
xia2data reduction
Aimlessdata scaling
REFMACrefinement
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-14
    Type: Initial release