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RPase in complex with DNA and RNA
DOI:10.2210/pdb4q5s/pdb   NDB ID: NA2982
4Q5S
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transcription/dna/rna
    Structure Weight: 443984.10
    Molecule: DNA-directed RNA polymerase subunit alpha
    Polymer: 1 Type: protein Length: 315
    Chains: A, B
    EC#: 2.7.7.6   
    Organism: Thermus thermophilus
    Gene Name: rpoA
    UniProtKB: Protein Feature View | Search PDB | Q9Z9H6  
    Molecule: DNA-directed RNA polymerase subunit beta
    Polymer: 2 Type: protein Length: 1119
    Chains: C
    EC#: 2.7.7.6   
    Organism: Thermus thermophilus HB8
    Gene Names: rpoB TTHA1813
    UniProtKB: Protein Feature View | Search PDB | Q8RQE9  
    Molecule: DNA-directed RNA polymerase subunit beta'
    Polymer: 3 Type: protein Length: 1524
    Chains: D
    EC#: 2.7.7.6   
    Organism: Thermus thermophilus HB8
    Gene Names: rpoC TTHA1812
    UniProtKB: Protein Feature View | Search PDB | Q8RQE8  
    Molecule: DNA-directed RNA polymerase subunit omega
    Polymer: 4 Type: protein Length: 99
    Chains: E
    EC#: 2.7.7.6   
    Organism: Thermus thermophilus HB8
    Gene Names: rpoZ TTHA1561
    UniProtKB: Protein Feature View | Search PDB | Q8RQE7  
    Molecule: RNA polymerase sigma factor SigA
    Polymer: 5 Type: protein Length: 423
    Chains: F
    Organism: Thermus thermophilus HB8
    Gene Names: sigA TTHA0532
    UniProtKB: Protein Feature View | Search PDB | Q5SKW1  
    Molecule: DNA (5'-D(*CP*CP*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*GP*CP*AP*GP*CP*CP*A)-3')
    Polymer: 6 Type: dna Length: 22
    Chains: G
    Details: template DNA
    Molecule: DNA (5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*AP*GP*G)-3')
    Polymer: 7 Type: dna Length: 27
    Chains: H
    Details: non-template DNA
    Molecule: RNA (5'-R(P*CP*UP*CP*AP*C)-3')
    Polymer: 8 Type: rna Length: 5
    Chains: I
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 2
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 3
    Scientific Name: Thermus thermophilus   Taxonomy    
    Polymer: 4
    Scientific Name: Thermus thermophilus hb8   Taxonomy    
    Polymer: 5
    Scientific Name: Thermus thermophilus   Taxonomy   Expression System: Escherichia coli  
    Polymer: 6
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 7
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 8
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    4Q4Z   
    4Q5A   
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    ATP
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    ATP C10 H16 N5 O13 P3
    ADENOSINE-5'-TRIPHOSPHATE
    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
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA2982
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Murakami, K.S.

    Deposition:   2014-04-17
    Release:   2014-07-09
    Last Modified (REVDAT):   2014-09-24
     
  •   Revision History    Hide
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    2014-09-24
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   3.00
    R-Value: 0.270 (obs.)
    R-Free: 0.294
    Space Group: C 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 187.09 α = 90.00 
    b = 102.07 β = 98.14 
    c = 297.26 γ = 90.00