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Crystal Structure of an RNA polymerase II-TFIIB complex
3K7A
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transcription
    Structure Weight: 508474.23
    Molecule: DNA-directed RNA polymerase II subunit RPB1
    Polymer: 1 Type: protein Length: 1733
    Chains: A
    EC#: 2.7.7.6   
    Organism: Saccharomyces cerevisiae
    Gene Names: RPO21 RPB1 RPB220 SUA8 YDL140C D2150
    UniProtKB: Protein Feature View | Search PDB | P04050  
    Molecule: DNA-directed RNA polymerase II subunit RPB2
    Polymer: 2 Type: protein Length: 1224
    Chains: B
    EC#: 2.7.7.6   
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB2 RPB150 RPO22 YOR151C
    UniProtKB: Protein Feature View | Search PDB | P08518  
    Molecule: DNA-directed RNA polymerase II subunit RPB3
    Polymer: 3 Type: protein Length: 318
    Chains: C
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB3 YIL021W
    UniProtKB: Protein Feature View | Search PDB | P16370  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Polymer: 4 Type: protein Length: 215
    Chains: E
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB5 RPA7 RPC9 YBR154C YBR1204
    UniProtKB: Protein Feature View | Search PDB | P20434  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC2
    Polymer: 5 Type: protein Length: 155
    Chains: F
    Organism: Saccharomyces cerevisiae
    Gene Names: RPO26 RPB6 YPR187W P9677.8
    UniProtKB: Protein Feature View | Search PDB | P20435  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    Polymer: 6 Type: protein Length: 146
    Chains: H
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB8 YOR224C YOR50-14
    UniProtKB: Protein Feature View | Search PDB | P20436  
    Molecule: DNA-directed RNA polymerase II subunit RPB9
    Polymer: 7 Type: protein Length: 122
    Chains: I
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB9 YGL070C
    UniProtKB: Protein Feature View | Search PDB | P27999  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC5
    Polymer: 8 Type: protein Length: 70
    Chains: J
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB10 YOR210W
    UniProtKB: Protein Feature View | Search PDB | P22139  
    Molecule: DNA-directed RNA polymerase II subunit RPB11
    Polymer: 9 Type: protein Length: 120
    Chains: K
    Organism: Saccharomyces cerevisiae
    Gene Names: RPB11 YOL005C
    UniProtKB: Protein Feature View | Search PDB | P38902  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC4
    Polymer: 10 Type: protein Length: 70
    Chains: L
    Organism: Saccharomyces cerevisiae
    Gene Names: RPC10 RPB12 YHR143W-A YHR143BW
    UniProtKB: Protein Feature View | Search PDB | P40422  
    Molecule: Transcription initiation factor IIB
    Polymer: 11 Type: protein Length: 345
    Chains: M
    Organism: Saccharomyces cerevisiae
    Gene Names: SUA7 YPR086W P9513.4
    UniProtKB: Protein Feature View | Search PDB | P29055  
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 2
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 3
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 4
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 5
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 6
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 7
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 8
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 9
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 10
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Saccharomyces cerevisiae  
    Polymer: 11
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast Expression System: Escherichia coli  
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    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       
Biological assembly 1 assigned by authors
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Liu, X.,  Bushnell, D.A.,  Wang, D.,  Calero, G.,  Kornberg, R.D.

    Deposition:   2009-10-12
    Release:   2009-11-24
    Last Modified (REVDAT):   2012-09-05
     
  •   Revision History    Hide
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    2012-09-05
    Biological assembly
    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   3.80
    R-Value: 0.268 (obs.)
    R-Free: 0.313
    Space Group: I 2 2 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 204.15 α = 90.00 
    b = 216.21 β = 90.00 
    c = 420.98 γ = 90.00