Table 1.

Sequences of 5′-biotinylated DNA hairpins

Name	Sequence*	Kd, nM dimer
Wild type	5′-ATATAATTAGGATAGCTTTACCTAATTATTTTA-	0.8 ± 0.3, 14 ± 5
Palindrome	5′-TGCAAGGCTAAGGTTAGCCTAACCTTAGCCTTGCA-	0.4 ± 0.1, 16 ± 5
AB1	5′-ATATAATTAGGATCACTTTATCGAATTATTTTA-	No binding
CD1	5′-ATATAATTCTAATAGCAGTACCTAATTATTTTA-	No binding
AB2	5′-ATATAATTAGGATAGCTTTACCUAATTATTTTA-	21 ± 2, 59 ± 12
CD2	5′-ATATAATTAGGATAGCTUTACCTAATTATTTTA-	35 ± 3, 90 ± 26
AB3	5′-ATATAATTAGGATAGCTTTAATCCGTTATTTTA-	No binding
CD3	5′-ATATAAGCCTAATAGCTTTACCTAATTATTTTA-	No binding

^*DNA hairpins are biotinylated at the 5′ end and contain the sequence shown plus a 4-bp loop and the corresponding reverse complement sequence. Underlined bases are changed from wild type. K_d values are given for a model with two independent binding sites.