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. Author manuscript; available in PMC: 2019 Nov 1.
Published in final edited form as: DNA Repair (Amst). 2018 Aug 23;71:43–55. doi: 10.1016/j.dnarep.2018.08.006

Figure 5.

Figure 5.

Pol II EC stalled by major groove or minor groove obstructions. a. Pol II EC stalled by a pyriplatin-DNA monofunctional adduct (PDB IDs: 3M4O and 3M3Y). b. Structural modeling of RNA Pol II transcriptional pausing by Py-Im polyamide. Two critical residues (R1386 and H1387) from the conserved Switch 1 region of Rpb1 play a key role in slowing down transcription progress through the polyamide-bound minor groove step by step. c. The Pol II EC adopts the post-translocation state with the modified adenine base (3d-Napht-dA) at +1 position, with 3-deaza-3-methoxynaphtylethyl group contacting the bridge helix in the Pol II active center from underneath (PDB ID: 5OT2). Color codes are the same as Figure 3.