Understanding the mechanisms underlying the assembly of nucleobases is a great challenge. The ability to deeply understand how nucleobases interact with themselves as well as with other molecules will allow us to gain valuable insights into how we might be able to harness these interesting biological molecules to construct complex nanostructures and materials. Uracil and thymine derivatives have been reported for use in biological applications and in self-assembling triple hydrogen bonded sys- tems. Either uracil or thymine possesses three binding sites (Site 1, Site 2, and Site 3) that can induce strong directional N-H···O=C hydrogen bonding interaction. In this paper, theoretical calculations are carried out on the structural features and binding energies of hydrogen-bonded dimers and trimers formed by uracil and thymine bases. We find that the hydrogen bonds formed through Site 1 are the strongest, those formed through Site 3 are next, while those formed through Site 2 are the weak- est. The atoms in molecules analysis show that the electron densities at the bond critical points and the corresponding Laplaci- ans have greater values for those hydrogen bonds formed through Site 1 than through Site 2. All these results indicate that a uracil (or thymine) would interact with another uracil or thymine most likely through Site 1 and least likely through Site 2. We also find that a simple summation rule roughly exists for the binding energies in these dimers and trimers.
以间苯二甲酸为原料,经过多步合成了1种含偶氮苯和1,3,4-噁二唑基团化合物5-[4-(十六烷氧基)苯基偶氮-]1,3-苯基-二-(1,3,4-噁二唑硫基)乙酸甲酯(8),利用IR、UV-vis、1 H NMR对其结构进行表征.该化合物四氢呋喃溶液紫外光谱中,偶氮苯结构K带的最大吸收波长为360nm,摩尔吸光系数ε为27 476L.mol-1.cm-1.在365nm紫外光照射下,偶氮苯基团发生反-顺异构化,照射5min后达到光稳态,光稳态时偶氮苯基团光致反顺异构化速率常数kp为1.338 9min-1,反式异构体转化效率R为80.95%,顺式异构体比例Y为84.99%,光稳态时偶氮苯K带最大吸收波长由360nm蓝移至326nm,将其置于暗室中,35h后恢复到光照前状态.
Figure S1 shows the optimal structures of the thirty-six hydrogen bonded peptide-base complexes and some selected maininteraction distances. (Plain: MP2/6-311+G(d,p); Italic: MP2/6-311+G(d,p) with BSSE correction; Bold: Eq.(1).) Table S2shows the binding energy curves of the thirty-six hydrogen bonded peptide-base complexes. The asterisk points represent
