5M8I

Solution structure of CUG-BP2 RRM3 in complex with 5'-UUUAA-3' RNA


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy and least restraints violation 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Aromatic side-chain conformational switch on the surface of the RNA Recognition Motif enables RNA discrimination.

Diarra Dit Konte, N.Krepl, M.Damberger, F.F.Ripin, N.Duss, O.Sponer, J.Allain, F.H.

(2017) Nat Commun 8: 654-654

  • DOI: 10.1038/s41467-017-00631-3

  • PubMed Abstract: 
  • The cyclooxygenase-2 is a pro-inflammatory and cancer marker, whose mRNA stability and translation is regulated by the CUG-binding protein 2 interacting with AU-rich sequences in the 3' untranslated region. Here, we present the solution NMR structure ...

    The cyclooxygenase-2 is a pro-inflammatory and cancer marker, whose mRNA stability and translation is regulated by the CUG-binding protein 2 interacting with AU-rich sequences in the 3' untranslated region. Here, we present the solution NMR structure of CUG-binding protein 2 RRM3 in complex with 5'-UUUAA-3' originating from the COX-2 3'-UTR. We show that RRM3 uses the same binding surface and protein moieties to interact with AU- and UG-rich RNA motifs, binding with low and high affinity, respectively. Using NMR spectroscopy, isothermal titration calorimetry and molecular dynamics simulations, we demonstrate that distinct sub-states characterized by different aromatic side-chain conformations at the RNA-binding surface allow for high- or low-affinity binding with functional implications. This study highlights a mechanism for RNA discrimination possibly common to multiple RRMs as several prominent members display a similar rearrangement of aromatic residues upon binding their targets.The RNA Recognition Motif (RRM) is the most ubiquitous RNA binding domain. Here the authors combined NMR and molecular dynamics simulations and show that the RRM RNA binding surface exists in different states and that a conformational switch of aromatic side-chains fine-tunes sequence specific binding affinities.


    Organizational Affiliation

    Department of Biology, ETH Zürich, Institute of Molecular Biology and Biophysics, HPP L 14.1 Hönggerbergring 64, 8093, Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CUGBP Elav-like family member 2
A
114Homo sapiensGene Names: CELF2 (BRUNOL3, CUGBP2, ETR3, NAPOR)
Find proteins for O95319 (Homo sapiens)
Go to Gene View: CELF2
Go to UniProtKB:  O95319
Entity ID: 2
MoleculeChainsLengthOrganism
RNA (5'-R(*UP*UP*UP*AP*A)-3')B5Homo sapiens
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy and least restraints violation 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-10-11
    Type: Initial release