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. 2009 Feb 3;37(6):1886–1896. doi: 10.1093/nar/gkp036

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© 2009 The Author(s)

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 6. — Hydroxyl radical footprinting on 5′ domain and 5WJ RNAs with S4. Representative footprinting gels covering nucleotides 480–544. The RNAs were probed under different buffer conditions at 42°C (lanes 4–6, HKM4; lanes 7–9, HKM20), with Bst (lanes 5 and 8) and Eco (lanes 6 and 9) S4. UCGA, dideoxy sequence ladders; P, reverse transcriptase pausing control; NT, untreated RNA. The vertical bars next to the lanes represent regions of protection from hydroxyl radical cleavage. Black bars, RNA–RNA interactions, black circles, S4–RNA interactions.