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. Author manuscript; available in PMC: 2010 Feb 10.
Published in final edited form as: Biochemistry. 2009 Feb 10;48(5):839–849. doi: 10.1021/bi801885w

Table 2.

Sequence and recognition information for single base bulge assemblies.

graphic file with name nihms91589f10.jpg
a

Data for the corresponding matched and mismatched strands (e.g.ABI-M and AB1-MM for B1-X) can be found in Table 1.

b

Sequence within variable region of 5’-GACTTATCT AGA/WA/W/WT AAG CTG GTC-3’(top) and complement (bottom). The complementcontains the bulged base.

c

Determined by photocleavage assay employing 5 |iM Rh(bpy)2(chrysi}3+and luM duplex DNAin buffer (50 mM NaCI, 10 mM NaPi.pH 7.1).

d

Determined with UV-Visible spectrophotometry employing 1 (.nVl duplex DNA in buffer. Accurate within 1 °C.

e

X denotes the bulged base.