Summary information and primary citation
- PDB-id
-
328d;
SNAP-derived features in text and
JSON formats
- Class
- DNA
- Method
- X-ray (2.6 Å)
- Summary
- Structure of a d(cgcgaattcgcg)2-sn7167 complex
- Reference
-
Squire CJ, Clark GR, Denny WA (1997): "Minor
groove binding of a bis-quaternary ammonium compound: the
crystal structure of SN 7167 bound to
d(CGCGAATTCGCG)2." Nucleic Acids Res.,
25, 4072-4078. doi: 10.1093/nar/25.20.4072.
- Abstract
- The X-ray crystal structure of the complex between the
synthetic antitumour and antiviral DNA binding ligand SN
7167 and the DNA oligonucleotide d(CGCGAATTCGCG)2 has been
determined to an R factor of 18.3% at 2.6 A resolution. The
ligand is located within the minor groove and covers almost
6 bp with the 1-methylpyridinium ring extending as far as
the C9-G16 base pair and the 1-methylquinolinium ring lying
between the G4-C21 and A5-T20 base pairs. The ligand
interacts only weakly with the DNA, as evidenced by long
range contacts and shallow penetration into the groove.
This structure is compared with that of the complex between
the parent compound SN 6999 and the alkylated DNA sequence
d(CGC[e6G]AATTCGCG)2. There are significant differences
between the two structures in the extent of DNA bending,
ligand conformation and groove binding.
