Refinement of RNA binding domain 3 in CUG triplet repeat RNA-binding protein 1

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 40 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

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Structural basis for the sequence-specific RNA-recognition mechanism of human CUG-BP1 RRM3

Tsuda, K.Kuwasako, K.Takahashi, M.Someya, T.Inoue, M.Terada, T.Kobayashi, N.Shirouzu, M.Kigawa, T.Tanaka, A.Sugano, S.Guntert, P.Muto, Y.Yokoyama, S.

(2009) Nucleic Acids Res 

  • DOI: https://doi.org/10.1093/nar/gkp546
  • Primary Citation of Related Structures:  
    2RQ4, 2RQC

  • PubMed Abstract: 

    The CUG-binding protein 1 (CUG-BP1) is a member of the CUG-BP1 and ETR-like factors (CELF) family or the Bruno-like family and is involved in the control of splicing, translation and mRNA degradation. Several target RNA sequences of CUG-BP1 have been predicted, such as the CUG triplet repeat, the GU-rich sequences and the AU-rich element of nuclear pre-mRNAs and/or cytoplasmic mRNA. CUG-BP1 has three RNA-recognition motifs (RRMs), among which the third RRM (RRM3) can bind to the target RNAs on its own. In this study, we solved the solution structure of the CUG-BP1 RRM3 by hetero-nuclear NMR spectroscopy. The CUG-BP1 RRM3 exhibited a noncanonical RRM fold, with the four-stranded beta-sheet surface tightly associated with the N-terminal extension. Furthermore, we determined the solution structure of the CUG-BP1 RRM3 in the complex with (UG)(3) RNA, and discovered that the UGU trinucleotide is specifically recognized through extensive stacking interactions and hydrogen bonds within the pocket formed by the beta-sheet surface and the N-terminal extension. This study revealed the unique mechanism that enables the CUG-BP1 RRM3 to discriminate the short RNA segment from other sequences, thus providing the molecular basis for the comprehension of the role of the RRM3s in the CELF/Bruno-like family.

  • Organizational Affiliation

    RIKEN Systems and Structural Biology Center, Tsurumi, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CUG-BP- and ETR-3-like factor 1115Homo sapiensMutation(s): 0 
Gene Names: CUGBP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q92879 (Homo sapiens)
Explore Q92879 
Go to UniProtKB:  Q92879
PHAROS:  Q92879
GTEx:  ENSG00000149187 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ92879
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 40 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2009-08-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2022-03-16
    Changes: Data collection, Database references, Derived calculations
  • Version 1.3: 2024-05-29
    Changes: Data collection