› 209d

X-ray diffraction
3Å resolution

Structural, physical and biological characteristics of RNA:DNA binding agent N8-actinomycin D

Released:
DOI: 10.2210/pdb209d/pdb
PDB entry 209d coloured by chain, front view.
PDB entry 209d coloured by chain, side view.
PDB entry 209d coloured by chain, top view.
Source organism: Streptomyces antibioticus
Primary publication:
Structural, physical, and biological characteristics of RNA.DNA binding agent N8-actinomycin D.
Shinomiya M, Chu W, Carlson RG, Weaver RF, Takusagawa F
Biochemistry 34 8481-91 (1995)
PMID: 7541244

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-114978 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
N8-ACTINOMYCIN D Chain: C
Molecule details ›
Chain: C
Length: 11 amino acids
Theoretical weight: 1.26 KDa
Source organism: Streptomyces antibioticus
Expression system: Not provided
DNA (5'-D(*GP*AP*AP*GP*CP*TP*TP*C)-3') Chains: A, B
Molecule details ›
Chains: A, B
Length: 8 nucleotides
Theoretical weight: 2.43 KDa
Source organism: Streptomyces antibioticus
Expression system: Not provided

Ligands and Environments

No bound ligands
3 modified residues:
Ligand DVA 2 x DVA
Ligand SAR 2 x SAR
Ligand MVA 2 x MVA

Experiments and Validation Details

Entry percentile scores
Spacegroup: P3121
Unit cell:
a: 62.3Å b: 62.3Å c: 42.97Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.173 0.173 not available
Expression system: Not provided

Quick links

Citations

2 review citations

Energetics of drug-DNA interactions.
Chaires JB. (1997)
1 more

2 mentions without citation

Structural basis of aquaporin inhibition by mercury.
Savage et al. (2007)
1 more