NMR Structure of the RNA Binding Domain of Human Fox-1 in Complex with UGCAUGU

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 30 
  • Selection Criteria: all calculated structures submitted 

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Molecular basis of RNA recognition by the human alternative splicing factor Fox-1.

Auweter, S.D.Fasan, R.Reymond, L.Underwood, J.G.Black, D.L.Pitsch, S.Allain, F.H.

(2006) EMBO J 25: 163-173

  • DOI: https://doi.org/10.1038/sj.emboj.7600918
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    The Fox-1 protein regulates alternative splicing of tissue-specific exons by binding to GCAUG elements. Here, we report the solution structure of the Fox-1 RNA binding domain (RBD) in complex with UGCAUGU. The last three nucleotides, UGU, are recognized in a canonical way by the four-stranded beta-sheet of the RBD. In contrast, the first four nucleotides, UGCA, are bound by two loops of the protein in an unprecedented manner. Nucleotides U1, G2, and C3 are wrapped around a single phenylalanine, while G2 and A4 form a base-pair. This novel RNA binding site is independent from the beta-sheet binding interface. Surface plasmon resonance analyses were used to quantify the energetic contributions of electrostatic and hydrogen bond interactions to complex formation and support our structural findings. These results demonstrate the unusual molecular mechanism of sequence-specific RNA recognition by Fox-1, which is exceptional in its high affinity for a defined but short sequence element.

  • Organizational Affiliation

    Institute for Molecular Biology and Biophysics, Swiss Federal Institute of Technology (ETH) Zurich, Zurich, Switzerland.


Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Ataxin-2-binding protein 1B [auth A]109Homo sapiensMutation(s): 0 
Gene Names: A2BP1A2BP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NWB1 (Homo sapiens)
Explore Q9NWB1 
Go to UniProtKB:  Q9NWB1
GTEx:  ENSG00000078328 
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UniProt GroupQ9NWB1
Sequence Annotations
  • Reference Sequence

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Entity ID: 1
MoleculeChains LengthOrganismImage
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 30 
  • Conformers Submitted: 30 
  • Selection Criteria: all calculated structures submitted 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-01-10
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-03-09
    Changes: Data collection, Database references, Derived calculations
  • Version 1.4: 2024-05-22
    Changes: Data collection