111D

CRYSTAL STRUCTURE AND STABILITY OF A DNA DUPLEX CONTAINING A(ANTI).G(SYN) BASE-PAIRS

Summary for 111D

• Entry DOI: 10.2210/pdb111d/pdb
• Descriptor: DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*GP*GP*CP*G)-3') (2 entities in total)
• Functional Keywords: b-dna, double helix, mismatched, dna
• Total number of polymer chains: 2
• Total formula weight: 7374.83

Authors

Brown, T.,Leonard, G.A.,Booth, E.D.,Chambers, J. (deposition date: 1993-01-04, release date: 1993-07-15, Last modification date: 2024-02-07)

Primary citation

Brown, T.,Leonard, G.A.,Booth, E.D.,Chambers, J.
Crystal structure and stability of a DNA duplex containing A(anti).G(syn) base-pairs.
J.Mol.Biol., 207:455-457, 1989

PubMed Abstract: The synthetic dodecanucleotide d(CGCAAATTGGCG) has been analysed by single-crystal X-ray diffraction techniques and the structure refined to R = 0.16 and 2.25 A resolution, with the location of 94 solvent molecules. The sequence crystallizes as a full turn of a B-DNA helix with ten Watson-Crick base-pairs and two adenine-guanine mispairs. The analysis clearly shows that the mismatches are of the form A(anti).G(syn). Thermal denaturation studies indicate that the stability of the duplex is strongly pH dependent, with a maximum at pH 5.0, suggesting that the base-pair is stabilized by protonation. Three different arrangements have been observed for base-pairs between guanine and adenine and it is likely that A.G mismatch conformation is strongly influenced by dipole-dipole interactions with adjacent base-pairs.

PubMed: 2754734
DOI: 10.1016/0022-2836(89)90268-4

Experimental method

X-RAY DIFFRACTION (2.25 Å)