Orientation of RNA polymerase II within the human VP16-Mediator-pol II-TFIIF assembly
3J0K
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/transcription
    Structure Weight: 470207.63
    Molecule: DNA-directed RNA polymerase II largest subunit
    Polymer: 1 Type: protein Length: 1455
    Chains: A
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPO21 RPB1 RPB220 SUA8 YDL140C D2150
    UniProtKB: Protein Feature View | Search PDB | P04050  
    Molecule: DNA-directed RNA polymerase II 140 kDa polypeptide
    Polymer: 2 Type: protein Length: 1224
    Chains: B
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB2 RPB150 RPO22 YOR151C
    UniProtKB: Protein Feature View | Search PDB | P08518  
    Molecule: DNA-directed RNA polymerase II 45 kDa polypeptide
    Polymer: 3 Type: protein Length: 268
    Chains: C
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB3 YIL021W
    UniProtKB: Protein Feature View | Search PDB | P16370  
    Molecule: DNA-directed RNA polymerase II 32 kDa polypeptide
    Polymer: 4 Type: protein Length: 221
    Chains: D
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB4 YJL140W J0654
    UniProtKB: Protein Feature View | Search PDB | P20433  
    Molecule: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide
    Polymer: 5 Type: protein Length: 215
    Chains: E
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB5 RPA7 RPC9 YBR154C YBR1204
    UniProtKB: Protein Feature View | Search PDB | P20434  
    Molecule: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide
    Polymer: 6 Type: protein Length: 84
    Chains: F
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPO26 RPB6 YPR187W P9677.8
    UniProtKB: Protein Feature View | Search PDB | P20435  
    Molecule: DNA-directed RNA polymerase II 19 kDa polypeptide
    Polymer: 7 Type: protein Length: 171
    Chains: G
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB7 YDR404C D9509.22
    UniProtKB: Protein Feature View | Search PDB | P34087  
    Molecule: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide
    Polymer: 8 Type: protein Length: 146
    Chains: H
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB8 YOR224C YOR50-14
    UniProtKB: Protein Feature View | Search PDB | P20436  
    Molecule: DNA-directed RNA polymerase II subunit 9
    Polymer: 9 Type: protein Length: 122
    Chains: I
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB9 YGL070C
    UniProtKB: Protein Feature View | Search PDB | P27999  
    Molecule: DNA-directed RNA polymerases I/II/III subunit 10
    Polymer: 10 Type: protein Length: 70
    Chains: J
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB10 YOR210W
    UniProtKB: Protein Feature View | Search PDB | P22139  
    Molecule: DNA-directed RNA polymerase II 13.6 kDa polypeptide
    Polymer: 11 Type: protein Length: 120
    Chains: K
    EC#: 2.7.7.6   
    Organism: Homo sapiens
    Gene Names: RPB11 YOL005C
    UniProtKB: Protein Feature View | Search PDB | P38902  
    Molecule: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide
    Polymer: 12 Type: protein Length: 46
    Chains: L
    EC#: 2.7.7.6   
    Organism: Homo sapiens
     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 3
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 4
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 5
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 6
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 7
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 8
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 9
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 10
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 11
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 12
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
     
  •   Related PDB Entries Hide
    Identifier Details
    1Y1V    
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    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       
Biological assembly 1 assigned by authors
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Bernecky, C.,  Grob, P.,  Ebmeier, C.C.,  Nogales, E.,  Taatjes, D.J.

    Deposition:   2011-10-04
    Release:   2011-10-19
    Last Modified (REVDAT):   2011-10-26
     
  •   Revision History    Hide
    Mouse over text for details
    2011-10-26
    Entry authorship
    2011-10-26
    Entry title
     
  •   Experimental Details Hide
    Method:   ELECTRON MICROSCOPY
    Exp. Data:


    EM Resolution [Å]: 36.0
    Aggregation State: PARTICLE
    Symmetry Type: ASYMMETRIC Reconstruction Method: SINGLE PARTICLE
    Specimen Type: VITREOUS ICE (CRYO EM)