2KVN

Phi29 E-loop hairpin

• PDB DOI: https://doi.org/10.2210/pdb2KVN/pdb
• NAKB: 2KVN

• Classification: RNA
• Mutation(s): No 


• Deposited: 2010-03-19 Released: 2010-07-07 
• Deposition Author(s): Harris, S.M., Schroeder, S.J.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 132 
• Conformers Submitted: 30 
• Selection Criteria: structures with no restraint violations 

Literature

Nuclear magnetic resonance structure of the prohead RNA E-loop hairpin.

Harris, S., Schroeder, S.J.

(2010) Biochemistry 49: 5989-5997

• PubMed: 20550192 
• DOI: https://doi.org/10.1021/bi100393r
• Primary Citation of Related Structures:  
  2KVN


• PubMed Abstract: 
  

  The Bacillus subtilis phage phi29 packaging motor requires prohead RNA for genome encapsidation. The nuclear magnetic resonance structure of the prohead RNA E-loop hairpin, r(5'AUUGAGUU), is presented and compared to predictions from MC-SYM. The prohead RNA E-loop hairpins contain sequences similar to rRNA hairpins. Comparison of predicted and experimentally determined prohead and ribosomal hairpin structures reveals that sequence similarity is a stronger determinant of hairpin structural similarity than grouping similar types of RNA. All the hairpins contain a U-turn motif but differ in the first noncanonical pair and backbone orientation. These structures provide benchmarks for further improvements in RNA structure predictions from sequence.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, University of Oklahoma, 620 Parrington Oval, Norman, Oklahoma 73019, USA.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5.44 kDa 
• Atom Count: 360 
• Modelled Residue Count: 17 
• Deposited Residue Count: 17 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
RNA (5'-R(*GP*GP*UP*GP*AP*UP*UP*GP*AP*GP*UP*UP*CP*AP*CP*CP*A)-3')	A	17	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 132 
• Conformers Submitted: 30 
• Selection Criteria: structures with no restraint violations 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-07-07 
Deposition Author(s): Harris, S.M., Schroeder, S.J.

Revision History  

• Version 1.0: 2010-07-07
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-06-20
  Changes: Database references
• Version 1.3: 2024-05-01
  Changes: Data collection, Database references