3D2S

Crystal structure of MBNL1 tandem zinc finger 3 and 4 domain in complex with CGCUGU RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into RNA recognition by the alternative-splicing regulator muscleblind-like MBNL1.

Teplova, M.Patel, D.J.

(2008) Nat Struct Mol Biol 15: 1343-1351

  • DOI: 10.1038/nsmb.1519
  • Primary Citation of Related Structures:  
    3D2Q, 3D2S, 3D2N

  • PubMed Abstract: 
  • Muscleblind-like (MBNL) proteins, regulators of developmentally programmed alternative splicing, harbor tandem CCCH zinc-finger (ZnF) domains that target pre-mRNAs containing YGCU(U/G)Y sequence elements (where Y is a pyrimidine). In myotonic dystrophy, ...

    Muscleblind-like (MBNL) proteins, regulators of developmentally programmed alternative splicing, harbor tandem CCCH zinc-finger (ZnF) domains that target pre-mRNAs containing YGCU(U/G)Y sequence elements (where Y is a pyrimidine). In myotonic dystrophy, reduced levels of MBNL proteins lead to aberrant alternative splicing of a subset of pre-mRNAs. The crystal structure of MBNL1 ZnF3/4 bound to r(CGCUGU) establishes that both ZnF3 and ZnF4 target GC steps, with site-specific recognition mediated by a network of hydrogen bonds formed primarily with main chain groups of the protein. The relative alignment of ZnF3 and ZnF4 domains is dictated by the topology of the interdomain linker, with a resulting antiparallel orientation of bound GC elements, supportive of a chain-reversal loop trajectory for MBNL1-bound pre-mRNA targets. We anticipate that MBNL1-mediated targeting of looped RNA segments proximal to splice-site junctions could contribute to pre-mRNA alternative-splicing regulation.


    Organizational Affiliation

    Structural Biology Program, Memorial Sloan-Kettering Cancer Center, 439 East 67th Street, New York, NY 10021, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Muscleblind-like protein 1 ABCD70Homo sapiensMutation(s): 0 
Gene Names: MBNL1EXPKIAA0428MBNL
Find proteins for Q9NR56 (Homo sapiens)
Explore Q9NR56 
Go to UniProtKB:  Q9NR56
NIH Common Fund Data Resources
PHAROS:  Q9NR56
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-R(*CP*GP*CP*UP*GP*U)-3'E, F, G, H6N/A
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 1.70 Å
    • R-Value Free: 0.260 
    • R-Value Work: 0.224 
    • R-Value Observed: 0.226 
    • Space Group: P 1 21 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 56.421α = 90
    b = 56.899β = 108.81
    c = 58.222γ = 90
    Software Package:
    Software NamePurpose
    REFMACrefinement
    ADSCdata collection
    HKL-2000data reduction
    HKL-2000data scaling
    AMoREphasing

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History 

    • Version 1.0: 2008-12-02
      Type: Initial release
    • Version 1.1: 2011-07-13
      Changes: Advisory, Refinement description, Version format compliance