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X-ray crystal structure of the Escherichia coli RNA polymerase in complex with Benzoxazinorifamycin-2c
4KN7
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/antibiotic
    Structure Weight: 922201.32
    Molecule: DNA-directed RNA polymerase subunit alpha
    Polymer: 1 Type: protein Length: 329
    Chains: A, B, F, G
    EC#: 2.7.7.6   
    Organism: Escherichia coli
    Gene Names: rpoA pez phs sez b3295 JW3257
    UniProtKB: Protein Feature View | Search PDB | P0A7Z4  
    Molecule: DNA-directed RNA polymerase subunit beta
    Polymer: 2 Type: protein Length: 1342
    Chains: C, H
    EC#: 2.7.7.6   
    Organism: Escherichia coli
    Gene Names: rpoB groN nitB rif ron stl stv tabD b3987 JW3950
    UniProtKB: Protein Feature View | Search PDB | P0A8V2  
    Molecule: DNA-directed RNA polymerase subunit beta'
    Polymer: 3 Type: protein Length: 1407
    Chains: D, I
    EC#: 2.7.7.6   
    Organism: Escherichia coli
    Gene Names: rpoC tabB b3988 JW3951
    UniProtKB: Protein Feature View | Search PDB | P0A8T7  
    Molecule: DNA-directed RNA polymerase subunit omega
    Polymer: 4 Type: protein Length: 91
    Chains: E, J
    EC#: 2.7.7.6   
    Organism: Escherichia coli
    Gene Names: rpoZ b3649 JW3624
    UniProtKB: Protein Feature View | Search PDB | P0A800  
    Molecule: RNA polymerase sigma factor RpoD
    Polymer: 5 Type: protein Length: 613
    Chains: X, Y
    Organism: Escherichia coli
    Gene Names: rpoD alt b3067 JW3039
    UniProtKB: Protein Feature View | Search PDB | P00579  
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 3
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 4
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 5
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
     
  •   Related PDB Entries Hide
    Identifier Details
    4KMU  X-ray crystal structure of the Escherichia coli RNA polymerase in complex with Rifampin 
    4KN4  X-ray crystal structure of the Escherichia coli RNA polymerase in complex with Benzoxazinorifamycin-2b 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    1RM
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    1RM C56 H70 N6 O13
    Benzoxazinorifamycin-2c
    MG
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    MG Mg
    MAGNESIUM ION
    ZN
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    ZN Zn
    ZINC ION
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   Deposition Summary Hide
    Authors:   Murakami, K.S.

    Deposition:   2013-05-08
    Release:   2013-05-22
    Last Modified (REVDAT):   2013-07-03
     
  •   Revision History    Hide
    Mouse over text for details
    2013-07-03
    Citation
    2013-05-29
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   3.69
    R-Value: 0.255 (obs.)
    R-Free: 0.309
    Space Group: P 21 21 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 185.83 α = 90.00 
    b = 204.58 β = 90.00 
    c = 308.70 γ = 90.00