2BJ6

Crystal Structure of a decameric HNA-RNA hybrid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.217 

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This is version 1.2 of the entry. See complete history


Literature

Reinforced Hna Backbone Hydration in the Crystal Structure of a Decameric Hna/RNA Hybrid

Maier, T.Przylas, I.Strater, N.Herdewijn, P.Saenger, W.

(2005) J Am Chem Soc 127: 2937

  • DOI: https://doi.org/10.1021/ja045843v
  • Primary Citation of Related Structures:  
    2BJ6

  • PubMed Abstract: 

    The crystal structure of a decameric HNA/RNA (HNA = 2',3'-dideoxy-1',5'-anhydro-d-arabinohexitol nucleic acid) hybrid with the RNA sequence 5'-GGCAUUACGG-3' is the first crystal structure of a hybrid duplex between a naturally occurring nucleic acid and a strand, which is fully modified to contain a six-membered ring instead of ribose. The presence of four duplex helices in the asymmetric unit allows for a detailed discussion of hydration, which revealed a tighter spinelike backbone hydration for the HNA- than for the RNA-strands. The reinforced backbone hydration is suggested to contribute significantly to the exceptional stability of HNA-containing duplexes and might be one of the causes for the evolutionary preference for ribose-derived nucleic acids.


  • Organizational Affiliation

    Institut für Chemie der Freien Universität Berlin, Takustrasse 6, 14195 Berlin, Germany.


Macromolecules

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Entity ID: 1
MoleculeChains LengthOrganismImage
SYNTHETIC HNA
A, B, C, D
10Homo sapiens
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
5'-R(*GP*GP*CP*AP*UP*UP*AP*CP*GP*GP)-3'
E, F, G, H
10Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.217 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 113.91α = 90
b = 113.91β = 90
c = 55.37γ = 90
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
CCP4phasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-03-09
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance