Exercise 1

The year is 1964 and Robert Holley has had you thrown into an American jail on fabricated charges. You're not getting out until you've proposed a realistic secondary structure for one of the following sequence. Try folding one of the following 'A' sequences by hand (use nothing but a pencil, ruler and compass). If you're fast then try one of the 'B' and 'C' sequences:

>A1

AAAAAAGGCGACAGAGUAAUCUGUCGCCUUUUUUCUUUGCUUGC

>A2

AAGAAAAACGGGUCGCCAGAAGGUGACCCGUUUUUUUUAUUCUUUUA

>A3

AAAAAAGCCCGCACCUGACAGUGCGGGCUUUUUUUUUC

>A4

AAAGCCCGUGAGUAUUCACGGGCUUUUUUAUUAUUUAAU

>B1

UGGGAGGGACGGCCCUCCUAUCCACCAGCAUAUCAGCCGCGGGGACGACCCUG

>B2

GCCCGGGGACGGCCCCGGGCCGUUCGCUUCAACGGGGACGACCCC

>B3

CCUCGGGGACGACCUCGAGGCCUCCUGAUACGCAGGGACGACCCUG

>B4

GAAGCGGGACGACCCGUUUUCCUUCUUUCAUUGCGCGGGGACGACCCUG

>C1

CCAGCCGCUGACGACGGGGCUGGACUUGCUGGGAGCGCCGCCUUUCGGCGCUUCCGUACCCAUGUUGCUUCAAGGAGGAUAUGGCUAUGGCAA

>C2

GCCGAUGCCAAUUGGGUCGGCAUGGUCAGGGAGCGCCACGCUUCUUGGCGCUUCCUCGUAUCUAUGUUGCUCUACGGAGGAUGUAGCUAUGAGAA

>C3

AGAGCCGCCUGUAAGGGGCUCGCAGUCGAGGAGCUCCGUUCUCUUCGGCGCUCCUCAUCGUCCAUGUUGCUCAAGGAGGAUAUGGCUAUGAGAA

>C4

UCGGUCGCCGCAUAAGGGGCCGAUGUGUCAGGGAGCGCCAUGCUUCUUGGCGUUCCCUCGUAUCUAUGUUGCUCCAAGGAGGAUGUAGUUAUGAGAA