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Base pairings of RNAs

Base pairings of RNAs. Base pairings allow RNA to fold. Watson-Crick base pairs: A-U, C-G Wobble pair G-U called canonical pairs for secondary structure. Note: all 16 (including non-canonical) base pairs are possible for RNA tertiary structure. P. a. H. g. P. N. H. O. c. P. N.

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Base pairings of RNAs

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  1. Base pairings of RNAs • Base pairings allow RNA to fold • Watson-Crick base pairs: A-U, C-G • Wobble pair G-U • called canonical pairs for secondary structure Note: all 16 (including non-canonical) base pairs are possible for RNA tertiary structure

  2. P a H g P N H O c P N N N H N P u N a O H N N P H H N H O N N N H N N N O 5’-u-u-c-c-g-a-a-g-c-u-c-a-a-c-g-g-g-a-a-a-u-g-a-g-c-u-3’ 3’ 5’ CYTOSINE GUANINE URACIL ADENINE

  3. Secondary structure is important to tertiary structure

  4. acc acc Stems in nested or parallel pattern c guu aga aac c ucu cccc gc gca ggg ugc ggu cc stem (double helix): stacked base pairs loop: strand of unpaired bases

  5. Stems in crossing patterns c guu aga aac c ucu cccc acc gc gca ggg ugc acc ggu cc Pseudoknots: crossing patterns of stems

  6. RNA secondary structure elements Pseudoknot Stem Interior Loop Single-Stranded Bulge Loop Junction (Multiloop) Hairpin loop Image– Wuchty

  7. RNA stem-loop (pseudoknot-free) structure example

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