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 2.0 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: https://doi.org/10.7554/eLife.07320
  • Primary Citation of Related Structures:  
    4YHU, 4YHV, 4YHW

  • 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 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.


  • Organizational Affiliation

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


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
U4/U6 small nuclear ribonucleoprotein PRP3
A, B, C
177Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: PRP3RNA3YDR473CD8035.16
UniProt
Find proteins for Q03338 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q03338 
Go to UniProtKB:  Q03338
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ03338
Sequence Annotations
Expand
  • Reference Sequence
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



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB 740

Revision History  (Full details and data files)

  • Version 1.0: 2015-07-22
    Type: Initial release
  • Version 1.1: 2015-09-30
    Changes: Database references
  • Version 2.0: 2024-05-08
    Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations