› 258d

X-ray diffraction
1.58Å resolution

FACTORS AFFECTING SEQUENCE SELECTIVITY ON NOGALAMYCIN INTERCALATION: THE CRYSTAL STRUCTURE OF D(TGTACA)-NOGALAMYCIN

Released:
DOI: 10.2210/pdb258d/pdb
PDB entry 258d coloured by chain, front view.
PDB entry 258d coloured by chain, side view.
PDB entry 258d coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Factors affecting DNA sequence selectivity of nogalamycin intercalation: the crystal structure of d(TGTACA)2-nogalamycin2.
Smith CK, Brannigan JA, Moore MH
J Mol Biol 263 237-58 (1996)
PMID: 8913304

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115019 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
DNA (5'-D(*TP*GP*TP*AP*CP*A)-3') Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 6 nucleotides
Theoretical weight: 1.81 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

4 bound ligands:
Ligand NGM 4 x NGM
Ligand SPM 1 x SPM
Ligand NA 1 x NA
Ligand ACT 2 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X31
Spacegroup: P212121
Unit cell:
a: 26.3Å b: 51.98Å c: 67.08Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.188 0.237
Expression system: Not provided

Quick links

Citations

2 review citations

Structure and function of "metalloantibiotics".
Ming LJ. (2003)
1 more

2 mentions without citation

DNA conformations and their sequence preferences.
Svozil et al. (2008)
1 more