365D

STRUCTURAL BASIS FOR G C RECOGNITION IN THE DNA MINOR GROOVE

Summary for 365D

• Entry DOI: 10.2210/pdb365d/pdb
• Descriptor: DNA (5'-D(*CP*CP*AP*GP*GP*(CBR)P*CP*TP*GP*G)-3'), IMIDAZOLE-PYRROLE POLYAMIDE (3 entities in total)
• Functional Keywords: b-dna, double helix, modified, dna
• Total number of polymer chains: 2
• Total formula weight: 7549.22

Authors

Kielkopf, C.L.,Baird, E.E.,Dervan, P.B.,Rees, D.C. (deposition date: 1997-12-17, release date: 1998-02-05, Last modification date: 2024-02-21)

Primary citation

Kielkopf, C.L.,Baird, E.E.,Dervan, P.B.,Rees, D.C.
Structural basis for G.C recognition in the DNA minor groove.
Nat.Struct.Biol., 5:104-109, 1998

PubMed Abstract: Small molecules that target specific DNA sequences offer a potentially general approach for the regulation of gene expression. Pyrrole-imidazole polyamides represent the only class of synthetic small molecules that can bind predetermined DNA sequences with affinities and specificities comparable to DNA binding proteins. Antiparallel side-by-side pairings of two aromatic amino acids, imidazole (Im) and pyrrole (Py), distinguish G.C from C.G, and both from A.T/T.A base pairs. A high resolution X-ray crystal structure of a four-ring pyrrole-imidazole polyamide specifically bound as a dimer to a six-base pair predetermined DNA site reveals a structural framework of hydrogen bonds and interactions with the walls of the minor groove that underlies the pairing rules for DNA recognition.

PubMed: 9461074
DOI: 10.1038/nsb0298-104

Experimental method

X-RAY DIFFRACTION (2 Å)