Three-dimensional EM structure of an intact activator-dependent transcription initiation complex
3IYD
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Transcription/dna
    Structure Weight: 568641.71
    Molecule: DNA-directed RNA polymerase subunit alpha
    Polymer: 1 Type: protein Length: 329
    Chains: A, B
    EC#: 2.7.7.6   
    Fragment: RNAP polymerase (sigma70 holoenzyme)
    Organism: Escherichia coli K-12
    Gene Names: rpoA pez phs sez b3295 JW3257
    UniProtKB: Protein Feature View | Search PDB | P0A7Z4  
    Molecule: DNA-directed RNA polymerase subunit beta
    Polymer: 2 Type: protein Length: 1342
    Chains: C
    EC#: 2.7.7.6   
    Fragment: Catabolite activator protein
    Organism: Escherichia coli K-12
    Gene Names: rpoB groN nitB rif ron stl stv tabD b3987 JW3950
    UniProtKB: Protein Feature View | Search PDB | P0A8V2  
    Molecule: DNA-directed RNA polymerase subunit beta
    Polymer: 3 Type: protein Length: 1413
    Chains: D
    EC#: 2.7.7.6   
    Fragment: Lac(ICAP)UP-UV5-BUBBLE
    Organism: Escherichia coli K-12
    Gene Names: rpoC tabB b3988 JW3951
    UniProtKB: Protein Feature View | Search PDB | P0A8T7  
    Molecule: DNA-directed RNA polymerase subunit omega
    Polymer: 4 Type: protein Length: 90
    Chains: E
    EC#: 2.7.7.6   
    Organism: Escherichia coli K-12
    Gene Names: rpoZ b3649 JW3624
    UniProtKB: Protein Feature View | Search PDB | P0A800  
    Molecule: RNA polymerase sigma factor rpoD
    Polymer: 5 Type: protein Length: 613
    Chains: F
    Organism: Escherichia coli K-12
    Gene Names: rpoD alt b3067 JW3039
    UniProtKB: Protein Feature View | Search PDB | P00579  
    Molecule: Catabolite gene activator
    Polymer: 6 Type: protein Length: 209
    Chains: G, H
    Organism: Escherichia coli K-12
    Gene Names: crp cap csm b3357 JW5702
    UniProtKB: Protein Feature View | Search PDB | P0ACJ8  
    Molecule: DNA (98-MER)
    Polymer: 7 Type: dna Length: 98
    Chains: I
    Molecule: DNA (98-MER)
    Polymer: 8 Type: dna Length: 98
    Chains: J
     

  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 2
    Scientific Name: Escherichia coli   Taxonomy   Expression System: Escherichia coli  
    Polymer: 3
    Scientific Name: Synthetic construct (Escherichia coli K-12)   Taxonomy    
    Polymer: 4
    Scientific Name: Escherichia coli k-12   Taxonomy   Expression System: Escherichia coli  
    Polymer: 5
    Scientific Name: Escherichia coli k-12   Taxonomy   Expression System: Escherichia coli  
    Polymer: 6
    Scientific Name: Escherichia coli k-12   Taxonomy   Expression System: Escherichia coli  
    Polymer: 7
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 8
    Scientific Name: Synthetic construct   Taxonomy    
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    CMP
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    CMP C10 H12 N5 O6 P
    ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
     
  •   External Ligand Annotations Hide
    Identifier   Binding Affinity (Sequence Identity %)
    CMP
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    CMP
    IC50: 129690 nM (95) - data from BindingDB  
    N/Ain BindingMoad
    N/Ain PDBbind
     
  •   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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