lecture3 - H DNA triple helix spontaneously forms produces...

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pu 1/2 mirror repeat Triple Helix H DNA • triple helix spontaneously forms • produces sharp bend Draw your own triple helix sequence! Other 1/2 mirror repeat
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Triple Base Pairs
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Triple Base Pairs --one pair uses standard Watson-Crick pairing --other pair uses Hoogsteen pairing --the third strand lies in the major groove of the duplex
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RNA Helical Structure • stabilized by base stacking • stacking forces are stronger between 2 pu than 2 pyr or alternating pu/pyr Fig.10-25 Lehninger et al.
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Complex Folding Patterns for RNA • G:U base pairs frequently occur • Hairpins are most common type of secondary structure • Can be predicted by computer programs Single Strands Bulge Internal Loop Hairpin • symmetric internal loops have the same number of unpaired bases on each side of the loop • asymmetric internal loops have different numbers of unpaired bases on each side of the loop • mismatch has base on each side that is unpaired
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GAAAACUAAACCAUACACCACCAACACAACCAAACCCACCACGCCCAAUUG UACACACCCGCUUGAAAAAGCAAGUCUGACAAAUGGCCAAAGUGCGCGAG UUUACCAAUCCUUUACAGACUCCACCACAAAAACUCUCAUCCAAGAUGAG CUUAUAGAAAUAUUCGUCCCAUCAUGGAAAAACAUAAACUAGCUAACCCG RNA folding web site Extra Credit Assignment: Due 1/25/08 Login to Zuker’s web site. Michael Zuker’s site: http://mfold.bioinfo.rpi.edu/cgi-bin/rna-form1.cgi Insert sequence below. Print out the following (can use jpg format):
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lecture3 - H DNA triple helix spontaneously forms produces...

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