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Foot-and-mouth disease virus RNA-polymerase RNA dependent in complex with a template-primer RNA and 5F-UTP
DOI:10.2210/pdb2e9t/pdb   NDB ID: PR0263
2E9T
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/rna
    Structure Weight: 116971.71
    Molecule: 5'-R(P*UP*AP*GP*GP*GP*CP*CP*C)-3'
    Polymer: 1 Type: rna Length: 8
    Chains: B, E
    Details: RNA template
    Molecule: 5'-R(*GP*GP*GP*CP*CP*CP*(5FU))-3'
    Polymer: 2 Type: rna Length: 7
    Chains: C, F
    Details: RNA primer
    Molecule: RNA-dependent RNA polymerase
    Polymer: 3 Type: protein Length: 476
    Chains: A, D
    EC#: 2.7.7.48   
    Organism: Foot-and-mouth disease virus C-S8c1
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  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

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  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 3
    Scientific Name: Foot-and-mouth disease virus c-s8c1   Taxonomy   Expression System: Escherichia coli bl21  
     
  •   Related PDB Entries Hide
    Identifier Details
    1U09  Foot-and-mouth disease virus RNA-dependent RNA polymerase 
    1WNE  Foot-and-mouth disease virus RNA-dependent RNA polymerase in complex with a template-primer RNA 
    2D7S  Foot-and-mouth disease virus RNA-dependent RNA polymerase with a protein-primer VPg 
    2E9R  Foot-and-mouth disease virus RNA-dependent RNA polymerase in complex with a template-primer RNA and RTP 
    2E9Z   
    2F8E  Foot-and-mouth disease virus RNA-dependent RNA polymerase with a protein-primer VPg uridylated 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    MG
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    MG Mg
    MAGNESIUM ION
    PPV
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    PPV H4 O7 P2
    PYROPHOSPHATE
    PPV:2E9T
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    5FU
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    5FU C9 H12 F N2 O9 P U rnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: PR0263
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Ferrer-Orta, C.,  Arias, A.,  Perez-Luque, R.,  Escarmis, C.,  Domingo, E.,  Verdaguer, N.

    Deposition:   2007-01-26
    Release:   2007-06-26
    Last Modified (REVDAT):   2014-04-16
     
  •   Revision History    Hide
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    2014-04-16
    Other
    2011-07-13
    Refinement description
    2011-07-13
    Version format compliance
    2011-07-13
    Flag residual B-value
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.60
    R-Value: 0.236 (obs.)
    R-Free: 0.289
    Space Group: P 31 2 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 95.60 α = 90.00 
    b = 95.60 β = 90.00 
    c = 201.15 γ = 120.00