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Structural, physical and biological characteristics of RNA.DNA binding agent N8-actinomycin D
 
 
DOI:10.2210/pdb2d55/pdb   NDB ID: DDH037
2D55
 
Primary Citation
spinning wheel
 
 
  •  
    Move Section Molecular Description Hide
    Classification: DNA
    Structure Weight: 5149.56
     
    Molecule:DNA (5'-D(*GP*AP*AP*GP*CP*TP*TP*C)-3')
    Polymer:1Type:polydeoxyribonucleotideLength:8
    Chains:A, B
     
     
  •  
    Move Section Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct Go to NCBI Taxonomy entry  
     
     
  •  
    Move Section Ligand Chemical Component Hide
    Identifier Name Formula Interaction View Links
    DPR     D-PROLINE C5 H9 N O2 3DLigand Explorer Link out to Ligand Expos:DPR Link out to SuperLigands:DPR Link out to SuperHapten:DPR
    DTH     D-THREONINE C4 H9 N O3 3DLigand Explorer Link out to Ligand Expos:DTH Link out to SuperLigands:DTH Link out to SuperHapten:DTH
    DVA     D-VALINE C5 H11 N O2 3DLigand Explorer Link out to Ligand Expos:DVA Link out to SuperLigands:DVA Link out to SuperHapten:DVA
    MVA     N-METHYLVALINE C6 H13 N O2 3DLigand Explorer Link out to Ligand Expos:MVA Link out to SuperLigands:MVA Link out to SuperHapten:MVA
    PXZ     2-AMINO-1,9-DICARBONYL-4,6-DIMETHYL-10-DEHYDRO- PHENOXAZIN-3-ONE C16 H12 N2 O4 3DLigand Explorer Link out to Ligand Expos:PXZ Link out to SuperLigands:PXZ Link out to SuperHapten:PXZ
    SAR     SARCOSINE C3 H7 N O2 3DLigand Explorer Link out to Ligand Expos:SAR Link out to SuperLigands:SAR Link out to SuperHapten:SAR
     
     
  •  
    Move Section Modified Residues Hide
    Identifier Name Formula Interaction View Links
    DVA D-VALINE(type: dPeptideLinking) C5 H11 N O2 Link out to Ligand Expos:DVA Link out to SuperLigands:DVA Link out to SuperHapten:DVA 2D
    DTH D-THREONINE(type: dPeptideLinking) C4 H9 N O3 Link out to Ligand Expos:DTH Link out to SuperLigands:DTH Link out to SuperHapten:DTH 2D
    DPR D-PROLINE(type: dPeptideLinking) C5 H9 N O2 Link out to Ligand Expos:DPR Link out to SuperLigands:DPR Link out to SuperHapten:DPR 2D
    MVA N-METHYLVALINE (parent: VAL)(type: lPeptideLinking) C6 H13 N O2 Link out to Ligand Expos:MVA Link out to SuperLigands:MVA Link out to SuperHapten:MVA 2D
    SAR SARCOSINE (parent: GLY)(type: glycine) C3 H7 N O2 Link out to Ligand Expos:SAR Link out to SuperLigands:SAR Link out to SuperHapten:SAR 2D
     
     
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  •  
    Move Section Deposition Summary Hide
    Authors:   Shinomiya, M.,   Chu, W.,   Carlson, R.G.,   Weaver, R.F.,   Takusagawa, F.

    Deposition:   1995-05-01
    Release:   1995-10-15
    Last Modified (REVDAT):   2009-02-24

    Previous versions: 1D55
     
     
  •  
    Move Section Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Experimental Data:   Download Structure Factors
    View a histogram of Resolution Resolution[Å]: 3.00
    R-Value: 0.190 (obs.)
    R-Free: n/a
    Space Group: C 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 51.37 α = 90.00 
    b = 62.09 β = 113.80 
    c = 25.04 γ = 90.00