Journal of Nucleic Acids / 2012 / Article / Tab 4

Review Article

Dioxaphosphorinane-Constrained Nucleic Acid Dinucleotides as Tools for Structural Tuning of Nucleic Acids

Table 4

Thermal melting temperatures (°C) of CNAgp within hairpin structures.

Entry
Sequence (5′-3′)a (°C)b (°C)

1ATCCTA TTTT TAGGAT
52.0
2ATCCTA TxT TT TAGGAT53.0+1.0
3ATCCTA T TxT T TAGGAT
55.0+3.0
4ATCCTA TT TxT TAGGAT
50.0
5ATCCTA TTT Tx TAGGAT
45.0
6AGGATCC TTTT GGATCCT
74.0
7AGGATCC TxT TT GGATCCT
75.3+1.3
8AGGATCC T TxT T GGATCCT
77.5+3.5
9AGGATCC TT TxT GGATCCT
76.7+2.7

aTxT  denotes an ( ) -D-CNA-modified TT dinucleotide (CNAgp) and italic character denotes loop nucleotide. Underlined bases indicate the loop-closing base pair. bMelting temperatures ( values) were measured as the maximum of the first derivate of the UV melting curve (OD260 versus temperature, 20–90°C, 0.5°C/min) which was recorded at concentration around 5  M in sodium phosphate buffer (10 mM, pH 7.0) containing NaCl (100 mM) and EDTA (1 mM).

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