Download MendeleyStructure and Biophysics for a Six Letter DNA Alphabet that Includes Imidazo[1,2-a]-1,3,5-triazine-2(8H)-4(3H)-dione (X) and 2,4-Diaminopyrimidine (K).
Singh, I., Kim, M.J., Molt, R.W., Hoshika, S., Benner, S.A., Georgiadis, M.M.(2017) ACS Synth Biol 6: 2118-2129
- PubMed: 28752992
- DOI: https://doi.org/10.1021/acssynbio.7b00150
- Primary Citation of Related Structures:
5VBS - PubMed Abstract:
A goal of synthetic biology is to develop new nucleobases that retain the desirable properties of natural nucleobases at the same time as expanding the genetic alphabet. The nonstandard Watson-Crick pair between imidazo[1,2-a]-1,3,5-triazine-2(8H)-4(3H)-dione (X) and 2,4-diaminopyrimidine (K) does exactly this, pairing via complementary arrangements of hydrogen bonding in these two nucleobases, which do not complement any natural nucleobase. Here, we report the crystal structure of a duplex DNA oligonucleotide in B-form including two consecutive X:K pairs in GATCXK DNA determined as a host-guest complex at 1.75 Å resolution. X:K pairs have significant propeller twist angles, similar to those observed for A:T pairs, and a calculated hydrogen bonding pairing energy that is weaker than that of A:T. Thus, although inclusion of X:K pairs results in a duplex DNA structure that is globally similar to that of an analogous G:C structure, the X:K pairs locally and energetically more closely resemble A:T pairs.
Organizational Affiliation:
Department of Biochemistry & Molecular Biology, Indiana University School of Medicine , Indianapolis, Indiana 46202, United States.
