Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.97 kDa 
• Atom Count: 726 
• Modelled Residue Count: 34 
• Deposited Residue Count: 34 
• Unique nucleic acid chains: 1

2EUY

Solution structure of the internal loop of human U65 H/ACA snoRNA 3' hairpin

• PDB DOI: 10.2210/pdb2EUY/pdb
• NDB: 2EUY

• Classification: RNA
• Mutation(s): No 


• Deposited: 2005-10-30 Released: 2006-01-03 
• Deposition Author(s): Feigon, J., Khanna, M., Wu, H., Johansson, C., Caizergues-Ferrer, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Structural study of the H/ACA snoRNP components Nop10p and the 3' hairpin of U65 snoRNA.

Khanna, M., Wu, H., Johansson, C., Caizergues-Ferrer, M., Feigon, J.

(2006) RNA 12: 40-52

• PubMed: 16373493 
• DOI: 10.1261/rna.2221606
• Primary Citation of Related Structures:  
  1Y2Y, 2EUY


• PubMed Abstract: 
  

The H/ACA small nucleolar ribonucleoprotein (snoRNP) complexes guide the modification of uridine to pseudouridine at conserved sites in rRNA. The H/ACA snoRNPs each comprise a target-site-specific snoRNA and four core proteins, Nop10p, Nhp2p, Gar1p, and the pseudouridine synthase, Cbf5p, in yeast. The secondary structure of the H/ACA snoRNAs includes two hairpins that each contain a large internal loop (the pseudouridylation pocket), one or both of which are partially complementary to the target RNA(s). We have determined the solution structure of an RNA hairpin derived from the human U65 box H/ACA snoRNA including the pseudouridylation pocket and adjacent stems, providing the first three-dimensional structural information on these H/ACA snoRNAs. We have also determined the structure of Nop10p and investigated its interaction with RNA using NMR spectroscopy. Nop10p contains a structurally well-defined N-terminal region composed of a beta-hairpin, and the rest of the protein lacks a globular structure. Chemical shift mapping of the interaction of RNA constructs of U65 box H/ACA 3' hairpin with Nop10p shows that the beta-hairpin binds weakly but specifically to RNA. The unstructured region of Nop10p likely interacts with Cbf5p.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, 607 Charles Young Drive East, P.O. Box 951569, University of California, Los Angeles, CA 90095-1569, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
U65 box H/ACA snoRNA	A	34	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2EUY Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-10-30 
• Released Date: 2006-01-03 
Deposition Author(s): Feigon, J., Khanna, M., Wu, H., Johansson, C., Caizergues-Ferrer, M.

Revision History  

• Version 1.0: 2006-01-03
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-09
  Changes: Data collection, Database references, Derived calculations