2L6I

Solution structure of coronaviral stem-loop 2 (SL2)

• PDB DOI: https://doi.org/10.2210/pdb2L6I/pdb
• BMRB: 17309
• NAKB: 2L6I

• Classification: RNA
• Mutation(s): No 


• Deposited: 2010-11-21 Released: 2011-03-23 
• Deposition Author(s): Lee, C., Li, L., Giedroc, D.P.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 27 
• Selection Criteria: structures with the lowest energy 

Literature

The solution structure of coronaviral stem-loop 2 (SL2) reveals a canonical CUYG tetraloop fold.

Lee, C.W., Li, L., Giedroc, D.P.

(2011) FEBS Lett 585: 1049-1053

• PubMed: 21382373 
• DOI: https://doi.org/10.1016/j.febslet.2011.03.002
• Primary Citation of Related Structures:  
  2L6I


• PubMed Abstract: 
  

  The transcription and replication of the severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) is regulated by specific viral genome sequences within 5'- and 3'-untranslated regions (5'-UTR and 3'-UTR). Here we report the solution structure of 5'-UTR derived stem-loop 2 (SL2) of SARS-CoV determined by NMR spectroscopy. The highly conserved pentaloop of SL2 is stacked on 5-bp stem and adopts a canonical CUYG tetraloop fold with the 3' nucleotide (U51) flipped out of the stack. The significance of this structure in the context of a previous mutagenesis analysis of SL2 function in replication of the related group 2 coronavirus, mouse hepatitis virus, is discussed.

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Organizational Affiliation: 

Department of Chemistry, Indiana University, Bloomington, IN 47405, USA.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5.06 kDa 
• Atom Count: 334 
• Modelled Residue Count: 16 
• Deposited Residue Count: 16 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (5'-R(*GP*AP*UP*CP*UP*CP*UP*UP*GP*UP*AP*GP*AP*UP*CP*A)-3')	A	16	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 27 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-03-23 
Deposition Author(s): Lee, C., Li, L., Giedroc, D.P.

Revision History  

• Version 1.0: 2011-03-23
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-05-01
  Changes: Data collection, Database references