4ULW | pdb_00004ulw

Crystal structure of the ROQ-domain of human ROQUIN1

• PDB DOI: https://doi.org/10.2210/pdb4ULW/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-05-14 Released: 2015-01-14 
• Deposition Author(s): Schuetz, A., Heinemann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free: 
  0.241 (Depositor), 0.249 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.207 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Literature

Roquin Binding to Target Mrnas Involves a Winged Helix-Turn- Helix Motif.

Schuetz, A., Murakawa, Y., Rosenbaum, E., Landthaler, M., Heinemann, U.

(2014) Nat Commun 5: 5701

• PubMed: 25504471 
• DOI: https://doi.org/10.1038/ncomms6701
• Primary Citation Related Structures: 
  4ULW


• PubMed Abstract: 
  

  Roquin proteins mediate mRNA deadenylation by recognizing a conserved class of stem-loop RNA degradation motifs via their Roquin domain. Here we present the crystal structure of a Roquin domain, revealing a mostly helical protein fold bearing a winged helix-turn-helix motif. By combining structural, biochemical and mutation analyses, we gain insight into the mode of RNA binding. We show that the winged helix-turn-helix motif is involved in the binding of constitutive decay elements-containing stem-loop mRNAs. Moreover, we provide biochemical evidence that Roquin proteins are additionally able to bind to duplex RNA and have the potential to be functional in different oligomeric states.

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Organizational Affiliation: 
• Helmholtz Protein Sample Production Facility, Max Delbrück Center for Molecular Medicine, 13092 Berlin, Germany.
Laboratory for RNA Biology and Posttranscriptional Regulation, Berlin Institute for Medical Systems Biology, Max Delbrück Center for Molecular Medicine, 13092 Berlin, Germany.
Structure and Membrane Interaction of G-Proteins, Max Delbrück Center for Molecular Medicine, 13092 Berlin, Germany.
1] Helmholtz Protein Sample Production Facility, Max Delbrück Center for Molecular Medicine, 13092 Berlin, Germany [2] Chemistry and Biochemistry Institute, Freie Universität Berlin, 14195 Berlin, Germany.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 34.49 kDa 
• Atom Count: 2,564 
• Modeled Residue Count: 302 
• Deposited Residue Count: 304 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ROQUIN-1	A, B	152	Homo sapiens	Mutation(s): 0  EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for Q5TC82 (Homo sapiens) Explore Q5TC82  Go to UniProtKB:  Q5TC82
PHAROS:  Q5TC82 GTEx:  ENSG00000135870

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free:  0.241 (Depositor), 0.249 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.207 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 169.66	α = 90
b = 29.785	β = 100.94
c = 60.197	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-01-14 
Deposition Author(s): Schuetz, A., Heinemann, U.

Revision History  

• Version 1.0: 2015-01-14
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references, Other