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Crystal structure of a 7-Aminoactinomycin D complex with non-complementary DNA
DOI:10.2210/pdb1unj/pdb   NDB ID: 1UNJ
1UNJ
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Dna/antibiotic
    Structure Weight: 40261.60
    Molecule: 5'-D(*TP*TP*AP*GP*BRU*TP)-3'
    Polymer: 1 Type: dna Length: 6
    Chains: A, B, C, D, G, H, I, J, M, N, O, P, S, T, U, V
    Molecule: 7-AMINO-ACTINOMYCIN D
    Polymer: 2 Type: protein Length: 11
    Chains: E, F, K, L, Q, R, W, X
    Organism: Streptomyces antibioticus
     
  •   Structure Validation Hide

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  • MolProbity Ramachandran Plot
     

  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Synthetic construct   Taxonomy    
    Polymer: 2
    Scientific Name: Synthetic construct (Streptomyces antibioticus)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    173D  CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 
    1A7Y  CRYSTAL STRUCTURE OF ACTINOMYCIN D 
    1A7Z  CRYSTAL STRUCTURE OF ACTINOMYCIN Z3 
    1DSC  SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 
    1DSD  SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GATGCTTC)2 
    1FJA  SOLUTION STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (AAGCGCTT)2 
    1I3W  CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CGATCGATCG)2 
    1L1V  SOLUTION STRUCTURE OF ACTNIOMYCIN D COMPLEXED WITH MISMATCHED DNA (GTCACCGAC) 
    1MNV  CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (ATGCTGCAT)2 
    1OVF  SOLUTIOM STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (CCGTTTTGTGG)2 
    1QFI  CRYSTAL STRUCTURE OF ACTINOMYCIN X2 
    1UNM  CRYSTAL STRUCTURE OF 7-AMINOACTINOMYCIN D COMPLEXED WITH NON-COMPLEMENTARY DNA 
    209D  CRYSTAL STRUCTURE OF N8-ACTINOMYCIN D COMPLEXED WITH D(GAAGCTTC)2 
    2D55  CRYSTAL STRUCTURE OF ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 
    316D  CRYSTAL STRUCTURE OF F8-ACTINOMYCIN D COMPLEXED WITH DNA (GAAGCTTC)2 
     
  •   Biologically Interesting Molecules (BIRD) Hide
    Identifier Image Name Type Class Chain ID  
    PRD_000010 Search  PRD_000010 7-AminoActinomycin Polypeptide Antibiotic E,F,K,L,Q,R,W,X
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    BRU
    Search 
    BRU C9 H12 Br N2 O8 P DU dnaLinking
    DVA
    Search 
    DVA C5 H11 N O2 dPeptideLinking
    SAR
    Search 
    SAR C3 H7 N O2 GLY glycine
    MVA
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    MVA C6 H13 N O2 VAL lPeptideLinking
    PX1
    Search 
    PX1 C16 H13 N3 O4 nonPolymer
     
  •   Structural Biology Knowledgebase Data Hide
     
  • Nucleic Acid Database Hide
    View the NDB ID associated with this structure: 1UNJ
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly 1       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Alexopoulos, E.C.,  Klement, R.,  Jares-Erijman, E.A.,  Uson, I.,  Jovin, T.M.,  Sheldrick, G.M.

    Deposition:   2003-09-10
    Release:   2004-12-16
    Last Modified (REVDAT):   2011-07-20
     
  •   Revision History    Hide
    Mouse over text for details
    2012-12-12
    Other
    2011-07-20
    Entry title
    2011-07-20
    Other
    2011-07-13
    Atom nomenclature
    2011-07-13
    Binding sites and description
    2011-07-13
    Polymer description
    2011-07-13
    Version format compliance
    2011-07-13
    Linkage
    2011-07-13
    Sequence database correspondence
    2011-07-13
    Function and keywords
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   2.50
    R-Value: 0.276 (obs.)
    R-Free: 0.316
    Space Group: P 32 2 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 71.22 α = 90.00 
    b = 71.22 β = 90.00 
    c = 108.40 γ = 120.00