Backtracked RNA polymerase II complex with 18mer RNA
DOI:10.2210/pdb3gtk/pdb   NDB ID: PH0055
3GTK
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transcription , Transferase/dna RNA Hybrid
    Structure Weight: 489144.42
    Molecule: DNA-directed RNA polymerase II subunit RPB1
    Polymer: 1 Type: protein Length: 1733
    Chains: A
    EC#: 2.7.7.6   
    Fragment: DNA-directed RNA polymerase II largest subunit
    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   
    Fragment: DNA-directed RNA polymerase II 140 kDa polypeptide
    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
    Fragment: DNA-directed RNA polymerase II 45 kDa polypeptide
    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
    Fragment: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide
    Organism: Saccharomyces cerevisiae
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC2
    Polymer: 5 Type: protein Length: 155
    Chains: F
    Fragment: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide
    Organism: Saccharomyces cerevisiae
    Molecule: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    Polymer: 6 Type: protein Length: 146
    Chains: H
    Fragment: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide
    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
    Fragment: DNA-directed RNA polymerase II subunit 9
    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
    Fragment: DNA-directed RNA polymerases I/II/III subunit 10
    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
    Fragment: DNA-directed RNA polymerase II 13.6 kDa polypeptide
    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
    Fragment: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide
    Organism: Saccharomyces cerevisiae
    Gene Names: RPC10 RPB12 YHR143W-A YHR143BW
    UniProtKB: Protein Feature View | Search PDB | P40422  
    Molecule: DNA/RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*C)-D(P*AP*GP*AP*CP*G)-3')
    Polymer: 11 Type: hybrid Length: 18
    Chains: R
    Fragment: RNA strand
    Details: RNA strand
    Molecule: DNA (29-MER)
    Polymer: 12 Type: dna Length: 29
    Chains: T
    Fragment: DNA template strand
    Details: DNA template strand
    Molecule: DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3')
    Polymer: 13 Type: dna Length: 14
    Chains: N
    Fragment: DNA non-template strand
    Details: DNA non-template strand
     
  •   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  
    Polymer: 2
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 3
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 4
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 5
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 6
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 7
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 8
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 9
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 10
    Scientific Name: Saccharomyces cerevisiae   Taxonomy   Common Name: Yeast  
    Polymer: 11
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 12
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 13
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    3GTG   Backtracked RNA polymerase II complex with 12mer RNA 
    3GTJ   Backtracked RNA polymerase II complex with 13mer RNA 
    3GTL   Backtracked RNA polymerase II complex with 13mer with G<>U mismatch 
    3GTM   Co-complex of Backtracked RNA polymerase II with TFIIS 
    3GTO   Backtracked RNA polymerase II complex with 15mer RNA 
    3GTP   Backtracked RNA polymerase II complex with 24mer RNA 
    3GTQ   Backtracked RNA polymerase II complex induced by damage 
     
  •   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
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure:PH0055
     
 
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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