› 1g3x

X-ray diffraction
2.7Å resolution

INTERCALATION OF AN 9ACRIDINE-PEPTIDE DRUG IN A DNA DODECAMER

Released:
DOI: 10.2210/pdb1g3x/pdb
PDB entry 1g3x coloured by chain, front view.
PDB entry 1g3x coloured by chain, side view.
PDB entry 1g3x coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Intercalation of an acridine-peptide drug in an AA/TT base step in the crystal structure of [d(CGCGAATTCGCG)](2) with six duplexes and seven Mg(2+) ions in the asymmetric unit.
Malinina L, Soler-López M, Aymamí J, Subirana JA
Biochemistry 41 9341-8 (2002)
PMID: 12135355

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
homo dimer
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-113844 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
N(ALPHA)-(9-ACRIDINOYL)-TETRAARGININE-AMIDE Chain: M
Molecule details ›
Chain: M
Length: 5 amino acids
Theoretical weight: 836 Da
Source organism: Synthetic construct
Expression system: Not provided
5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3' Chains: A, B, C, D, E, F, G, H, I, J, K, L
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L
Length: 12 nucleotides
Theoretical weight: 3.66 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 7 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P212121
Unit cell:
a: 66.471Å b: 68.365Å c: 77.362Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.22 0.266
Expression system: Not provided

Quick links

Citations

11 citation in other articles

Preferred RNA binding sites for a threading intercalator revealed by in vitro evolution.
Carlson et al. (2003)
10 more

5 mentions without citation

BENA435, a new cell-permeant photoactivated green fluorescent DNA probe.
Erve et al. (2006)
4 more