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- Major groove triples in the group II intron in Oceanobacillus Iheyensis. Each stacked layer is formed by one triplex with a different color scheme. Hydrogen bonds between triplexes are shown in black dashed lines. "N" atoms are colored in blue and "O" atoms in red. From top to bottom, the residues on the left side are G288, C289, and C377. (en)
- Type I A-minor interaction: Type I interactions are the most common, strongest A-minor interactions, as they involve numerous hydrogen bonds, and bury the incoming A base in the minor groove. (en)
- Above: Quadruplex seen in crystal structure of Malachite Green RNA aptamer. G29 involved in major groove, minor groove, and Watson-Crick hydrogen-bonding with three other bases. (en)
- Type II A-minor interaction: Type II interactions involve the 2'-OH group and N3 of the adenosine. The adenosine interacts with the cytosine's 2'-OH group in the minor groove. The strength of this interaction is on the order of the Type I interaction. (en)
- PDB rendering of Group 1 intron P5c binding pocket demonstrating outer sphere coordination. Here, the six amines of osmium hexamine fulfill the role generally served by water molecules and mediate the ion’s interaction with the major groove. Coordination via hydrogen bonds is indicated by dashed lines and osmium is rendered in pink, all other colors are as above. (en)
- Above:Typical Ring Structure of a Hoogsteen paired G-quartet. (en)
- Close-up rendering of the U114:A175-U101 major groove triplex formed within the wild type pseudoknot of Human Telomerase RNA. Hydrogen bonds are shown in black dashed lines. "N" atoms are colored in blue and "o" atoms in red. (en)
- PDB rendering of Group I intron inner sphere magnesium coordination. The two red balls indicate magnesium ions and dashed lines coming from the ions indicate coordination with the respective groups on nucleotides. The color-coding scheme is as follows: green=carbon, orange=phosphate, pink=oxygen, blue=nitrogen. (en)
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