3N4M

E. coli RNA polymerase alpha subunit C-terminal domain in complex with CAP and DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.199 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

The RNA Polymerase alpha Subunit Recognizes the DNA Shape of the Upstream Promoter Element

Lara-Gonzalez, S.Dantas Machado, A.C.Rao, S.Napoli, A.A.Birktoft, J.Di Felice, R.Rohs, R.Lawson, C.L.

(2020) Biochemistry 


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Catabolite gene activatorA209Escherichia coli K-12Mutation(s): 0 
Gene Names: b3357capcrpcsmJW5702
UniProt
Find proteins for P0ACJ8 (Escherichia coli (strain K12))
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Go to UniProtKB:  P0ACJ8
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit alphaB, C84Escherichia coli K-12Mutation(s): 0 
Gene Names: b3295JW3257pezphsrpoAsez
EC: 2.7.7.6
UniProt
Find proteins for P0A7Z4 (Escherichia coli (strain K12))
Explore P0A7Z4 
Go to UniProtKB:  P0A7Z4
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 3
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*CP*TP*TP*TP*TP*TP*TP*CP*CP*TP*AP*AP*AP*AP*TP*GP*TP*GP*AP*T)-3')D20N/A
    Protein Feature View
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    • Reference Sequence
    Find similar nucleic acids by:  (by identity cutoff)  |  Structure
    Entity ID: 4
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*TP*TP*TP*AP*GP*GP*AP*AP*AP*AP*AP*AP*G)-3')E24N/A
    Protein Feature View
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    • Reference Sequence
    Small Molecules
    Ligands 2 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    CMP (Subject of Investigation/LOI)
    Query on CMP

    Download Ideal Coordinates CCD File 
    F [auth A], I [auth D]ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
    C10 H12 N5 O6 P
    IVOMOUWHDPKRLL-KQYNXXCUSA-N
     Ligand Interaction
    PEG
    Query on PEG

    Download Ideal Coordinates CCD File 
    G [auth A], H [auth A]DI(HYDROXYETHYL)ETHER
    C4 H10 O3
    MTHSVFCYNBDYFN-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.99 Å
    • R-Value Free: 0.224 
    • R-Value Work: 0.198 
    • R-Value Observed: 0.199 
    • Space Group: P 62 2 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 175.73α = 90
    b = 175.73β = 90
    c = 160.1γ = 120
    Software Package:
    Software NamePurpose
    MOSFLMdata reduction
    SCALAdata scaling
    PHENIXrefinement
    PDB_EXTRACTdata extraction
    CBASSdata collection
    AMoREphasing

    Structure Validation

    View Full Validation Report



    Ligand Structure Quality Assessment  



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2011-05-25
      Type: Initial release
    • Version 1.1: 2011-07-13
      Changes: Version format compliance
    • Version 1.2: 2020-11-25
      Changes: Database references, Derived calculations