RNAvsDNA - Patterns and principles of RNA structure RNA...

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1 RNA structure can be specific, stable and complex. (As a result, RNA mediates specific recognition and catalytic reactions.) Principles/ideas--RNAs contain characteristic 2° and 3° motifs Secondary structure--stems, bulges & loops Coaxial stacking Metal ion binding Tertiary motifs (Pseudoknots, A-A platform, tetraloop/tetraloop receptor, A-minor motif, ribose zipper) Patterns and principles of RNA structure RNA vs. DNA nucleoside nucleotide glycosidic bond
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2 RNA vs. DNA: who cares? Base-catalyzed RNA cleavage! - OH Stable backbone Unstable backbone RNA transesterification mechanism Base-catalyzed RNA cleavage! transition state + + - OH
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3 Different bases in RNA and DNA RNA only DNA only DNA and RNA RNA chain is made single stranded! Chain is directional. Chemical schematic One-letter code ssDNA can signal DNA damage and promote cell death dsRNA can block protein synthesis and signal viral infections
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4 Six backbone dihedral angles ( α−ζ ) per nucleotide in RNA and DNA Is ssDNA floppy or rigid? Is RNA more or less flexible than ssDNA? Two orientations of the bases: Anti and syn DNA and RNA Absent from undamaged dsDNA
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5 -OH, what a difference an O makes! Different functions of DNA and RNA Stores genetic info Stores genetic info ssDNA signals cell death ssRNA OK E.g. mRNA = gene copy dsDNA OK dsRNA (“A” form) signals infection, mediates editing, RNA interference, . . .
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