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Arrested RNA Polymerase II elongation complex
DOI:10.2210/pdb3po2/pdb   NDB ID: NA0842
3PO2
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transferase/dna/rna
    Structure Weight: 532296.45
    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
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPB3 YIL021W
    UniProtKB:   Protein Feature View | Search PDB | P16370  
    Molecule: DNA-directed RNA polymerase II subunit RPB4
    Polymer: 4 Type: protein Length: 221
    Chains: D
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPB4 YJL140W J0654
    UniProtKB:   Protein Feature View | Search PDB | P20433  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Polymer: 5 Type: protein Length: 215
    Chains: E
    EC#: 2.7.7.6   
    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: 6 Type: protein Length: 155
    Chains: F
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPO26 RPB6 YPR187W P9677.8
    UniProtKB:   Protein Feature View | Search PDB | P20435  
    Molecule: DNA-directed RNA polymerase II subunit RPB7
    Polymer: 7 Type: protein Length: 171
    Chains: G
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPB7 YDR404C D9509.22
    UniProtKB:   Protein Feature View | Search PDB | P34087  
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    Polymer: 8 Type: protein Length: 146
    Chains: H
    EC#: 2.7.7.6   
    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: 9 Type: protein Length: 122
    Chains: I
    EC#: 2.7.7.6   
    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: 10 Type: protein Length: 70
    Chains: J
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPB10 YOR210W
    UniProtKB:   Protein Feature View | Search PDB | P22139  
    Molecule: DNA-directed RNA polymerase II subunit RPB11
    Polymer: 11 Type: protein Length: 120
    Chains: K
    EC#: 2.7.7.6   
    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: 12 Type: protein Length: 70
    Chains: L
    EC#: 2.7.7.6   
    Organism Saccharomyces cerevisiae
    Gene Names RPC10 RPB12 YHR143W-A YHR143BW
    UniProtKB:   Protein Feature View | Search PDB | P40422  
    Molecule: DNA non-template strand
    Polymer: 13 Type: dna Length: 14
    Chains: N
    Molecule: RNA product strand
    Polymer: 14 Type: rna Length: 15
    Chains: P
    Molecule: DNA template strand
    Polymer: 15 Type: dna Length: 27
    Chains: T
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 2
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 3
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 4
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 5
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 6
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 7
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 8
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 9
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 10
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 11
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 12
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Brewer's yeast,lager beer yeast,yeast  
    Polymer: 13
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 14
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 15
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    ACT
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    ACT C2 H3 O2
    ACETATE ION
    EPE
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    EPE C8 H18 N2 O4 S
    4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
    MG
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    MG Mg
    MAGNESIUM ION
    PEG
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    PEG C4 H10 O3
    DI(HYDROXYETHYL)ETHER
    ZN
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    ZN Zn
    ZINC ION
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    BRU
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    BRU C9 H12 Br N2 O8 P DU dnaLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA0842
     
 
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:   Cheung, A.C.M.,  Cramer, P.

    Deposition:   2010-11-21
    Release:   2011-03-02
    Last Modified (REVDAT):   2011-03-16
     
  •   Revision History    Hide
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    2011-07-13
    Version format compliance
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   3.30
    R-Value: 0.154 (obs.)
    R-Free: 0.178
    Space Group: C 2 2 21
    Unit Cell:
      Length [Å] Angles [°]
    a = 224.57 α = 90.00 
    b = 394.55 β = 90.00 
    c = 282.14 γ = 90.00