3GNK

Calcium bound to the Holliday junction sequence d(TCGGCGCCGA)4

  • Classification: DNA
  • Mutation(s): No 

  • Deposited: 2009-03-17 Released: 2009-03-31 
  • Deposition Author(s): Naseer, A., Cardin, C.J.

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.306 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.218 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Calcium bound to the Holliday junction sequence d(TCGGCGCCGA)4

Naseer, A.Cardin, C.J.

To be published.

Macromolecules
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'A, B, C, D10N/A
    Protein Feature View
    Expand
    • Reference Sequence
    Small Molecules
    Ligands 2 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    CA
    Query on CA

    Download Ideal Coordinates CCD File 
    E [auth A], H [auth D]CALCIUM ION
    Ca
    BHPQYMZQTOCNFJ-UHFFFAOYSA-N
     Ligand Interaction
    NA
    Query on NA

    Download Ideal Coordinates CCD File 
    F [auth B], G [auth D]SODIUM ION
    Na
    FKNQFGJONOIPTF-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.10 Å
    • R-Value Free: 0.306 
    • R-Value Work: 0.214 
    • R-Value Observed: 0.218 
    • Space Group: C 1 2 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 65.97α = 90
    b = 24.17β = 110.37
    c = 73.89γ = 90
    Software Package:
    Software NamePurpose
    CNSrefinement
    PDB_EXTRACTdata extraction
    CrysalisProdata collection
    CrysalisProdata reduction
    MOLREPphasing
    REFMACrefinement

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2009-03-31
      Type: Initial release
    • Version 1.1: 2011-07-13
      Changes: Version format compliance
    • Version 1.2: 2017-11-01
      Changes: Refinement description
    • Version 1.3: 2018-04-04
      Changes: Data collection