4WJU

Crystal structure of Rsa4 from Saccharomyces cerevisiae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A network of assembly factors is involved in remodeling rRNA elements during preribosome maturation.

Baler, J.Paternoga, H.Holdermann, I.Thoms, M.Granneman, S.Barrio-Garcia, C.Nyarko, A.Stier, G.Clark, S.A.Schraivogel, D.Kallas, M.Beckmann, R.Tollervey, D.Barbar, E.Sinning, I.Hurt, E.

(2014) J.Cell Biol. 207: 481-498

  • DOI: 10.1083/jcb.201408111
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Eukaryotic ribosome biogenesis involves ∼200 assembly factors, but how these contribute to ribosome maturation is poorly understood. Here, we identify a network of factors on the nascent 60S subunit that actively remodels preribosome structure. At it ...

    Eukaryotic ribosome biogenesis involves ∼200 assembly factors, but how these contribute to ribosome maturation is poorly understood. Here, we identify a network of factors on the nascent 60S subunit that actively remodels preribosome structure. At its hub is Rsa4, a direct substrate of the force-generating ATPase Rea1. We show that Rsa4 is connected to the central protuberance by binding to Rpl5 and to ribosomal RNA (rRNA) helix 89 of the nascent peptidyl transferase center (PTC) through Nsa2. Importantly, Nsa2 binds to helix 89 before relocation of helix 89 to the PTC. Structure-based mutations of these factors reveal the functional importance of their interactions for ribosome assembly. Thus, Rsa4 is held tightly in the preribosome and can serve as a "distribution box," transmitting remodeling energy from Rea1 into the developing ribosome. We suggest that a relay-like factor network coupled to a mechano-enzyme is strategically positioned to relocate rRNA elements during ribosome maturation.


    Organizational Affiliation

    Biochemistry Center of Heidelberg University, INF328, D-69120 Heidelberg, Germany ed.hurt@bzh.uni-heidelberg.de irmi.sinning@bzh.uni-heidelberg.de barbare@science.oregonstate.edu.,Biochemistry Center of Heidelberg University, INF328, D-69120 Heidelberg, Germany.,National Magnetic Resonance Facility; Biochemistry Department, University of Wisconsin-Madison, Madison, WI 53706.,Centre for Synthetic and Systems Biology (SynthSys) and Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3BF, Scotland, UK.,Department of Biochemistry and Biophysics, Oregon State University, Corvallis, OR 97331.,Department of Biochemistry and Biophysics, Oregon State University, Corvallis, OR 97331 ed.hurt@bzh.uni-heidelberg.de irmi.sinning@bzh.uni-heidelberg.de barbare@science.oregonstate.edu.,Gene Center, Department of Chemistry and Biochemistry, University of Munich, 80539 Munich, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ribosome assembly protein 4
A, B
515Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: RSA4
Find proteins for P25382 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P25382
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.203 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 96.870α = 90.00
b = 108.470β = 90.00
c = 261.910γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
XDSdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-11-19
    Type: Initial release
  • Version 1.1: 2014-12-03
    Type: Database references
  • Version 1.2: 2014-12-10
    Type: Database references
  • Version 1.3: 2015-01-14
    Type: Database references