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Crystal structure of an intramolecular human telomeric DNA G-quadruplex 21-mer bound by the naphthalene diimide compound BMSG-SH-3
DOI:10.2210/pdb4daq/pdb   NDB ID: NA1556
4DAQ
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: DNA
    Structure Weight: 7644.80
    Molecule: DNA (5'-D(*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*GP*TP*TP*AP*GP*GP*G)-3')
    Polymer: 1 Type: dna Length: 21
    Chains: A
    Organism: synthetic construct
     
  •   Structure Validation Hide

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  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct (synthetic construct)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    3SC8  Same naphthalene diimide compound bound to a 22-mer human telomeric G-quadruplex. 
    3T5E  Similar naphthalene diimide compound bound to a 22-mer human telomeric G-quadruplex. 
    3UYH  Similar naphthalene diimide compound bound to a 22-mer human telomeric G-quadruplex. 
    4DA3  Similar naphthalene diimide compound bound to the same 21-mer human telomeric G-quadruplex. 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    K
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    K K
    POTASSIUM ION
    R8G
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    R8G C46 H72 N12 O4
    2,7-bis[3-(4-methylpiperazin-1-yl)propyl]- 4,9-bis{[3-(4-methylpiperazin-1-yl)propyl]amino}benzo[lmn][3,8]phenanthroline- 1,3,6,8(2H,7H)-tetrone
    R8G:4DAQ
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: NA1556
     
 
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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  •   Deposition Summary Hide
    Authors:   Collie, G.W.,  Neidle, S.

    Deposition:   2012-01-13
    Release:   2013-01-16
    Last Modified (REVDAT):   2013-04-24
     
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    2013-04-24
    Citation
    2013-04-03
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   2.75
    R-Value: 0.216 (obs.)
    R-Free: 0.275
    Space Group: P 31 2 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 50.51 α = 90.00 
    b = 50.51 β = 90.00 
    c = 51.72 γ = 120.00