2MXY

Solution structure of hnRNP C RRM in complex with 5'-AUUUUUC-3' RNA


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural and mechanistic insights into poly(uridine) tract recognition by the hnRNP C RNA recognition motif.

Cienikova, Z.Damberger, F.F.Hall, J.Allain, F.H.Maris, C.

(2014) J Am Chem Soc 136: 14536-14544

  • DOI: 10.1021/ja507690d
  • Primary Citation of Related Structures:  
    2MXY, 2MZ1

  • PubMed Abstract: 
  • HnRNP C is a ubiquitous RNA regulatory factor and the principal constituent of the nuclear hnRNP core particle. The protein contains one amino-terminal RNA recognition motif (RRM) known to bind uridine (U)-rich sequences. This work provides a molecular and mechanistic understanding of this interaction ...

    HnRNP C is a ubiquitous RNA regulatory factor and the principal constituent of the nuclear hnRNP core particle. The protein contains one amino-terminal RNA recognition motif (RRM) known to bind uridine (U)-rich sequences. This work provides a molecular and mechanistic understanding of this interaction. We solved the solution structures of the RRM in complex with poly(U) oligomers of five and seven nucleotides. The five binding pockets of RRM recognize uridines with an unusual 5'-to-3' gradient of base selectivity. The target recognition is therefore strongly sensitive to base clustering, explaining the preference for contiguous uridine tracts. Using a novel approach integrating the structurally derived recognition consensus of the RRM with a thermodynamic description of its multi-register binding, we modeled the saturation of cellular uridine tracts by this protein. The binding pattern is remarkably consistent with the experimentally observed transcriptome-wide cross-link distribution of the full-length hnRNP C on short uridine tracts. This result re-establishes the RRM as the primary RNA-binding domain of the hnRNP C tetramer and provides a proof of concept for interpreting high-throughput interaction data using structural approaches.


    Organizational Affiliation

    Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zürich , 8093 Zürich, Switzerland.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Heterogeneous nuclear ribonucleoproteins C1/C2A105Homo sapiensMutation(s): 0 
Gene Names: HNRNPCHNRPC
UniProt & NIH Common Fund Data Resources
Find proteins for P07910 (Homo sapiens)
Explore P07910 
Go to UniProtKB:  P07910
PHAROS:  P07910
Entity Groups  
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UniProt GroupP07910
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsLengthOrganismImage
5'-R(*AP*UP*UP*UP*UP*UP*C)-3'B7synthetic construct
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

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

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-02-25
    Type: Initial release