The crystal structure of an all-RNA minimal Hairpin Ribozyme with mutant G8I at the cleavage site
DOI:10.2210/pdb1zft/pdb   NDB ID: UR0060
1ZFT
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: RNA
    Structure Weight: 19967.36
    Molecule: 5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3'
    Polymer: 1 Type: rna Length: 13
    Chains: A
    Molecule: 5'-R(*CP*GP*GP*UP*GP*AP*IP*AP*AP*GP*GP*G)-3'
    Polymer: 2 Type: rna Length: 12
    Chains: B
    Mutation: G8I
    Molecule: 5'-R(*GP*GP*CP*AP*GP*AP*GP*AP*AP*AP*CP*AP*CP*AP*CP*GP*A)-3'
    Polymer: 3 Type: rna Length: 17
    Chains: C
    Molecule: 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3'
    Polymer: 4 Type: rna Length: 19
    Chains: D
    Mutation: U39C
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 4
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    1X9C   The crystal structure of an all-RNA minimal Hairpin Ribozyme (G8, U39C, low salt conditions) 
    1X9K   The crystal structure of an all-RNA minimal Hairpin Ribozyme (G8, U39C, high salt conditions) 
    1ZFR   An all-RNA Hairpin Ribozyme with mutation U39C and 2MA at A-1(low salt) 
    1ZFV   An all-RNA Hairpin Ribozyme with mutations G8A, U39C and 2'-OH at A-1 (low salt) 
    1ZFX   All-RNA Hairpin Ribozyme with mutations G8U and U39C (low salt) 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    NCO
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    NCO Co H18 N6
    COBALT HEXAMMINE(III)
    SO4
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    SO4 O4 S
    SULFATE ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    A2M
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    A2M C11 H16 N5 O7 P A rnaLinking
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:UR0060
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Wedekind, J.E.

    Deposition:   2005-04-20
    Release:   2006-02-14
    Last Modified (REVDAT):   2011-07-13
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
    2011-07-13
    Non-polymer description
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.33
    R-Value: 0.227 (obs.)
    R-Free: 0.242
    Space Group: P 61 2 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 93.40 α = 90.00 
    b = 93.40 β = 90.00 
    c = 131.50 γ = 120.00