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. Author manuscript; available in PMC: 2010 Feb 22.
Published in final edited form as: J Biol Chem. 2005 Jan 5;280(10):9745–9751. doi: 10.1074/jbc.M409350200

Fig. 4. The in vivo LM-PCR footprinting experiment revealed that a DNA element containing a 21-bp sequence was sensitive to in vivo DMS-mediated piperidine digestion after hedamycin treatment.

Fig. 4

A, positions of primers used in the LM-PCR experiment are shown, and the 21-bp DNA sequence is in bold letters and underlined. B, in vivo footprinting by LM-PCR. Lane 1, arrows denote bands sensitized by hedamycin in the range of the 21-bp DNA element in the in vivo footprinting. HeLa cells were treated overnight with (lane 1) or without (lane 2) 0.2 μM hedamycin and processed by in vivo DMS-mediated piperidine digestion as described under “Experimental Procedures.” Lane 3 shows in vitro controls from direct DMS-mediated piperidine digestion of isolated untreated HeLa genomic DNA. Positions of the 21-bp sequence region and the sensitized bands from forward (gcFP3) and reverse (hsRP3) directions in the LM-PCR are indicated.