The solution structure of DNA duplex-decamer containing the (6-4) photoproduct of thymidylyl(3'-->5')thymidine by NMR and relaxation matrix refinement.
The DNA duplex-decamer containing a site-specific (6-4) photoadduct of thymidylyl(3'-->5')thymidine was generated by direct photolytic ultraviolet C irradiation of d(CGCATTACGC). The three-dimensional structure of the duplex (6-4) decamer, d(CGCAT[6-4]TACGC).d(GCGTAATGCG), has been determined by two-dimensional NMR spectroscopy and a relaxation matrix refinement method. NMR data and structural calculations established that the formation of the (6-4) adduct in the B-DNA duplex retains Watson-Crick-type hydrogen bonding throughout the duplex except at the 3'-side of the (6-4) lesion where the T-->C transition mutation is predominantly targeted [LeClerc, J. E., Borden, A. & Lawrence, C. W. (1991) Proc. Natl Acad. Sci. USA 88, 9685-9689], but leads to a 44 degrees bending in the overall DNA helix. Perpendicular base orientation of the (6-4) lesion provides a structural basis where potential hydrogen bonding at the 3' sides of the (6-4) adduct with substituted nucleotide is improbable during replication under stringent conditions.
Kim
J K
JK
Department of Chemistry, Korea Advanced Institute of Science and Technology, Taejon.
Choi
B S
BS
D001483:Base Sequence; D004247:DNA / Q000737:chemistry*; D015226:Dinucleoside Phosphates / Q000737:chemistry* / Q000528:radiation effects; D009682:Magnetic Resonance Spectroscopy; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D014466:Ultraviolet Rays
D015226:Dinucleoside Phosphates; C017758:thymidylyl-(3'-5')-thymidine; D004247:DNA