5L2L

Nab2 Zn fingers 5-7 bound to A11G RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.152 
  • R-Value Work: 0.131 
  • R-Value Observed: 0.132 

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This is version 1.1 of the entry. See complete history


Literature

Structural basis for the dimerization of Nab2 generated by RNA binding provides insight into its contribution to both poly(A) tail length determination and transcript compaction in Saccharomyces cerevisiae.

Aibara, S.Gordon, J.M.Riesterer, A.S.McLaughlin, S.H.Stewart, M.

(2017) Nucleic Acids Res 45: 1529-1538

  • DOI: 10.1093/nar/gkw1224
  • Primary Citation of Related Structures:  
    5L2L

  • PubMed Abstract: 
  • In Saccharomyces cerevisiae generation of export-competent mRNPs terminates the nuclear phase of the gene expression pathway and facilitates transport to the cytoplasm for translation. Nab2 functions in this process to control both mRNP compaction that facilitates movement through nuclear pore complexes and the length of transcript poly(A) tails ...

    In Saccharomyces cerevisiae generation of export-competent mRNPs terminates the nuclear phase of the gene expression pathway and facilitates transport to the cytoplasm for translation. Nab2 functions in this process to control both mRNP compaction that facilitates movement through nuclear pore complexes and the length of transcript poly(A) tails. Nab2 has a modular structure that includes seven CCCH Zn fingers that bind to A-rich RNAs and fingers 5–7 are critical for these functions. Here, we demonstrate, using both biophysical and structural methods, that binding A11G RNA induces dimerization of Zn fingers 5–7 mediated by the novel spatial arrangement of the fingers promoting each RNA chain binding two protein chains. The dimerization of Nab2 induced by RNA binding provides a basis for understanding its function in both poly(A) tail length regulation and in the compaction of mature transcripts to facilitate nuclear export.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge, UK



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Nab2pA, B, E, F77Saccharomyces cerevisiae YJM1574Mutation(s): 0 
Gene Names: NAB2H834_YJM1574G00138
UniProt
Find proteins for P32505 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32505 
Go to UniProtKB:  P32505
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP32505
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsLengthOrganismImage
RNA (5'-R(*AP*AP*AP*AP*AP*AP*AP*AP*AP*G)-3')C, D, G, H12Saccharomyces cerevisiae
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.152 
  • R-Value Work: 0.131 
  • R-Value Observed: 0.132 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.669α = 90
b = 85.035β = 99.07
c = 64.956γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-21
    Type: Initial release
  • Version 1.1: 2017-06-14
    Changes: Database references