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Crystal structure of the Mg2+-(chromomycin A3)2-d(TTGGCCAA)2 complex reveals GGCC binding specificity of the drug dimer chelated by metal ion
 
 
DOI:10.2210/pdb1vaq/pdb   NDB ID: DD0063
1VAQ
 
Primary Citation
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  •  
    Move Section Molecular Description Hide
    Classification: DNA
    Structure Weight: 14312.34
     
    Molecule:5'-D(*TP*TP*GP*GP*CP*CP*AP*A)-3'
    Polymer:1Type:polydeoxyribonucleotideLength:8
    Chains:A, B, C, D
     
     
  •  
    Move Section Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
    Polymer: 2
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
    Polymer: 3
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    1GL     4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE C7 H14 O4 3DLigand Explorer Link out to Ligand Expos:1GL Link out to SuperLigands:1GL Link out to SuperHapten:1GL
    ARI     [O4]-ACETOXY-2,3-DIDEOXYFUCOSE C8 H14 O4 3DLigand Explorer Link out to Ligand Expos:ARI Link out to SuperLigands:ARI Link out to SuperHapten:ARI
    CDR     2,3-DIDEOXYFUCOSE C6 H12 O3 3DLigand Explorer Link out to Ligand Expos:CDR Link out to SuperLigands:CDR Link out to SuperHapten:CDR
    CPH     1,8-DIHYDROXY-7-METHYL-3-(1,3,4-TRIHYDROXY- 2-OXO-PENTYL)-3,10-DIHYDRO-2H
    -ANTHRACEN-9- ONE     		C21 H24 O7 3DLigand Explorer Link out to Ligand Expos:CPH Link out to SuperLigands:CPH Link out to SuperHapten:CPH
    ERI     4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L- ARABINO-HEXOPYRANOSE C9 H16 O5 3DLigand Explorer Link out to Ligand Expos:ERI Link out to SuperLigands:ERI Link out to SuperHapten:ERI
    MG     MAGNESIUM ION Mg 3DLigand Explorer Link out to Ligand Expos:MG Link out to SuperLigands:MG Link out to SuperHapten:MG
     
     
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Biological assembly 1 assigned by authors
 
 
 
  •  
    Move Section Deposition Summary Hide
    Authors:   Hou, M.H.,   Robinson, H.,   Gao, Y.G.,   Wang, A.H.-J.

    Deposition:   2004-02-19
    Release:   2004-06-22
    Last Modified (REVDAT):   2009-02-24
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors  [ EDS External Link to EDS ]
    View a histogram of Resolution Resolution[Å]: 2.00
    R-Value: 0.235 (obs.)
    R-Free: 0.278
    Space Group: P 65 2 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 42.23 α = 90.00 
    b = 42.23 β = 90.00 
    c = 246.11 γ = 120.00