Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 136.17 kDa 
• Atom Count: 9774 
• Modelled Residue Count: 1091 
• Deposited Residue Count: 1122 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

2I91

60kDa Ro autoantigen in complex with a fragment of misfolded RNA

• PDB DOI: 10.2210/pdb2I91/pdb
• NDB: PR0232

• Classification: RNA Binding Protein/RNA
• Organism(s): Xenopus laevis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-09-04 Released: 2006-10-17 
• Deposition Author(s): Reinisch, K.M., Stein, A.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.285 
• R-Value Work: 0.241 
• R-Value Observed: 0.245 

Literature

Structural and biochemical basis for misfolded RNA recognition by the Ro autoantigen.

Fuchs, G., Stein, A.J., Fu, C., Reinisch, K.M., Wolin, S.L.

(2006) Nat Struct Mol Biol 13: 1002-1009

• PubMed: 17041599 
• DOI: 10.1038/nsmb1156
• Primary Citation of Related Structures:  
  2I91


• PubMed Abstract: 
  

The Ro autoantigen is ring-shaped, binds misfolded noncoding RNAs and is proposed to function in quality control. Here we determine how Ro interacts with misfolded RNAs. Binding of Ro to misfolded precursor (pre)-5S ribosomal RNA requires a single-stranded 3' end and helical elements. As mutating most sequences of the helices and tail results in modest decreases in binding, Ro may be able to associate with a range of RNAs. Ro binds several other RNAs that contain single-stranded tails. A crystal structure of Ro bound to a misfolded pre-5S rRNA fragment reveals that the tail inserts into the cavity, while a helix binds on the surface. Most contacts of Ro with the helix are to the backbone. Mutagenesis reveals that Ro has an extensive RNA-binding surface. We propose that Ro uses this surface to scavenge RNAs that fail to bind their specific RNA-binding proteins.

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Organizational Affiliation: 

Department of Cell Biology, Yale University School of Medicine, New Haven, Connecticut 06510, USA.

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
60 kDa SS-A/Ro ribonucleoprotein	E [auth A], F [auth B]	538	Xenopus laevis	Mutation(s): 0  Gene Names: trove2, ro60
UniProt
Find proteins for P42700 (Xenopus laevis) Explore P42700  Go to UniProtKB:  P42700

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-R(*GP*CP*CP*UP*AP*CP*CP*C)-3'	A [auth C], C [auth E]	8	N/A

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-R(*C*GP*GP*UP*AP*GP*GP*CP*UP*UP*UP*UP*CP*AP*A)-3'	B [auth D], D [auth F]	15	N/A

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	G [auth A], I [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
MG	H [auth A], J [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.285 
• R-Value Work: 0.241 
• R-Value Observed: 0.245 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.68	α = 90
b = 119.98	β = 98.91
c = 73.54	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-09-04 
• Released Date: 2006-10-17 
Deposition Author(s): Reinisch, K.M., Stein, A.J.

Revision History  

• Version 1.0: 2006-10-17
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance