4YHU

Yeast Prp3 C-terminal fragment 296-469

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.209 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

A composite double-/single-stranded RNA-binding region in protein Prp3 supports tri-snRNP stability and splicing.

Liu, S., Mozaffari-Jovin, S., Wollenhaupt, J., Santos, K.F., Theuser, M., Dunin-Horkawicz, S., Fabrizio, P., Bujnicki, J.M., Luhrmann, R., Wahl, M.C.

(2015) Elife 4: e07320-e07320

  • DOI: 10.7554/eLife.07320
  • Structures With Same Primary Citation

  • PubMed Abstract: 

    • Prp3 is an essential U4/U6 di-snRNP-associated protein whose functions and molecular mechanisms in pre-mRNA splicing are presently poorly understood. We show by structural and biochemical analyses that Prp3 contains a bipartite U4/U6 di-snRNA-binding ...

    Prp3 is an essential U4/U6 di-snRNP-associated protein whose functions and molecular mechanisms in pre-mRNA splicing are presently poorly understood. We show by structural and biochemical analyses that Prp3 contains a bipartite U4/U6 di-snRNA-binding region comprising an expanded ferredoxin-like fold, which recognizes a 3'-overhang of U6 snRNA, and a preceding peptide, which binds U4/U6 stem II. Phylogenetic analyses revealed that the single-stranded RNA-binding domain is exclusively found in Prp3 orthologs, thus qualifying as a spliceosome-specific RNA interaction module. The composite double-stranded/single-stranded RNA-binding region assembles cooperatively with Snu13 and Prp31 on U4/U6 di-snRNAs and inhibits Brr2-mediated U4/U6 di-snRNA unwinding in vitro. RNP-disrupting mutations in Prp3 lead to U4/U6•U5 tri-snRNP assembly and splicing defects in vivo. Our results reveal how Prp3 acts as an important bridge between U4/U6 and U5 in the tri-snRNP and comparison with a Prp24-U6 snRNA recycling complex suggests how Prp3 may be involved in U4/U6 reassembly after splicing.

    Related Citations: 
    • Structure determination by multiple-wavelength anomalous dispersion (MAD) at the Pr LIII edge
      Pueringer, S., Hellmig, M., Liu, S., Weiss, M., Wahl, M.C., Mueller, U.
      (2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68: 981
    Organizational Affiliation: 

    Laboratory of Structural Biochemistry, Freie Universität Berlin, Berlin, Germany.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
U4/U6 small nuclear ribonucleoprotein PRP3A, B, C177Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: PRP3, RNA3, YDR473C, D8035.16
Find proteins for Q03338 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q03338 
Go to UniProtKB:  Q03338
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
YT3
Query on YT3
Download CCD File 
A, B, C
YTTRIUM (III) ION
Y
GRTBAGCGDOYUBE-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.209 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 87.663α = 90
b = 161.205β = 90
c = 105.214γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
MOLREPphasing
REFMACrefinement

Structure Validation

View Full Validation Report


View more in-depth experimental data

Entry History & Funding Information

Deposition Data

  • Deposited Date: 2015-02-27 
  • Released Date: 2015-07-22 
    • Deposition Author(s): Liu, S., Wahl, M.C.
Funding OrganizationLocationGrant Number
DFGGermanySFB 740

Revision History 

  • Version 1.0: 2015-07-22
    Type: Initial release
  • Version 1.1: 2015-09-30
    Changes: Database references