The specificity of triplexes relies in the formation of Hoogsteen hydrogen bonds between the third-strand bases and the purine bases of the duplex (Rajagopal and Feigon, 1989b; Soyfer and Potaman, 1996; Thuong and Hélène, 1993). Triplexes can be classified based on the composition and ...
After providing an aqueous solution containing a nucleic acid, heating the aqueous solution to cleave the nucleic acid; cooling the aqueous solution and adding a base-specific labeling molecule having available hydrogen bonds to the aqueous solution, the base-specific labeling molecules bond to the ...
(Supplementary Video6). In the Primer Separation structure, two terminal nucleotides in the 3′ end of the primer are found in the exonuclease channel (Fig.5c, f). The terminal base is inserted into theexosite and stabilized by hydrogen bonds with N270, D274, D198, and D399 residues (...
structure feature. As depicted in Fig.1a, some potent guests generally require the recognition of an amine group or its cation derivatives by the oxygen atoms located in the portal of CB[7] via hydrogen bonding and dipolar interactions41. Given the amine group is also involved with hydrogen ...
Pure Drβ-clamp was mixed with purified Cy5-labeled 4 T oligos in a 1:1.1 protein:DNA ratio. Crystallization in 21% PEG 5000 MME, 0.12 M Tris, 3.6% hexanediol, pH 8.0, using the 4 T oligo containing protein solution yielded blue needles and clusters of small blue crystals. Full size ...
The other carboxyl group forms hydrogen bonds with the amide proton of Lys68 (distance of 1,67 Å) and with the hydroxyl group of Thr67 (distance of 1,94 Å). Obviously, the two carboxyl groups contribute to pamoic acid affinity for the 8 kDa domain. Using one of them to tether ...
models. Stable hydrogen bonds, including model-specific ones, were well consistent across the four runs (Additional file1: Fig. S5B); the 90% cut-off of the mean occurrence identified as stable all Watson–Crick bonds and 79% of the main-chain bonds observed in the 1XC8 crystal structure...
This complementary base pairing is achieved by hydrogen bonding between the nucleobases. Owing to the high molecular recognition ability and programmability, DNA self-assembly has been extensively utilized to nanostructures and nanomaterials [1–3]. Over recent decades, a sustained effort has been ...
Figure 3. DNA has (a) a double helix structure and (b) phosphodiester bonds; the dotted lines between Thymine and Adenine and Guanine and Cytosine represent hydrogen bonds. The (c) major and minor grooves are binding sites for DNA binding proteins during processes such as transcription (the ...
4.PlasticityofSecondaryandTertiaryDNA Structure 1.TheNatureofNucleicAcids Youneedtoknow:1.1Thestructureofthefivebases1.2Thestructureofanucleoside(核苷)andnucleotide(核苷酸)1.3Thenamesofthebases,nucleosidesandnucleotides DNA(deoxyribonucleicacid脱氧核糖核酸)---遗传物质 RNA(RibonucleicAcid核糖核酸)