6NOH

Crystal structure of FBF-2 repeat 5 mutant (C363S, R364Y, Q367S) in complex with 8-nt RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.159 
  • R-Value Observed: 0.163 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Engineering a conserved RNA regulatory protein repurposes its biological function in vivo .

Bhat, V.D.McCann, K.L.Wang, Y.Fonseca, D.R.Shukla, T.Alexander, J.C.Qiu, C.Wickens, M.Lo, T.W.Tanaka Hall, T.M.Campbell, Z.T.

(2019) Elife 8

  • DOI: 10.7554/eLife.43788
  • Primary Citation of Related Structures:  
    6NOH, 6NOD, 6NOC, 6NOF

  • PubMed Abstract: 
  • PUF ( PU milio/ F BF) RNA-binding proteins recognize distinct elements. In C. elegans , PUF-8 binds to an 8-nt motif and restricts proliferation in the germline. Conversely, FBF-2 recognizes a 9-nt element and promotes mitosis. To understand how motif divergence relates to biological function, we first determined a crystal structure of PUF-8 ...

    PUF ( PU milio/ F BF) RNA-binding proteins recognize distinct elements. In C. elegans , PUF-8 binds to an 8-nt motif and restricts proliferation in the germline. Conversely, FBF-2 recognizes a 9-nt element and promotes mitosis. To understand how motif divergence relates to biological function, we first determined a crystal structure of PUF-8. Comparison of this structure to that of FBF-2 revealed a major difference in a central repeat. We devised a modified yeast 3-hybrid screen to identify mutations that confer recognition of an 8-nt element to FBF-2. We identified several such mutants and validated structurally and biochemically their binding to 8-nt RNA elements. Using genome engineering, we generated a mutant animal with a substitution in FBF-2 that confers preferential binding to the PUF-8 element. The mutant largely rescued overproliferation in animals that spontaneously generate tumors in the absence of puf-8 . This work highlights the critical role of motif length in the specification of biological function.


    Organizational Affiliation

    Department of Biological Sciences, University of Texas Dallas, Richardson, United States.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fem-3 mRNA-binding factor 2A413Caenorhabditis elegansMutation(s): 3 
Gene Names: fbf-2F21H12.5
Find proteins for Q09312 (Caenorhabditis elegans)
Explore Q09312 
Go to UniProtKB:  Q09312
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(*UP*GP*UP*AP*AP*AP*UP*A)-3')B8Caenorhabditis elegans
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.25 Å
    • R-Value Free: 0.206 
    • R-Value Work: 0.159 
    • R-Value Observed: 0.163 
    • Space Group: P 61
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 96.397α = 90
    b = 96.397β = 90
    c = 99.853γ = 120
    Software Package:
    Software NamePurpose
    PHENIXrefinement
    SCALEPACKdata scaling
    PDB_EXTRACTdata extraction
    HKL-2000data reduction
    PHASERphasing

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2019-01-30
      Type: Initial release
    • Version 1.1: 2020-10-07
      Changes: Database references