Fig. 6: Structure of Pol I stalled by an Ap site at i–1. | Nature Communications

Fig. 6: Structure of Pol I stalled by an Ap site at i–1.

From: Cryo-EM uncovers a sequential mechanism for RNA polymerase I pausing and stalling at abasic DNA lesions

Fig. 6

a Schematic diagram of the nucleic acid scaffold with an Ap site at i–1. Filled squares denote nucleotides visible in the cryo-EM map that were modelled. b Overall view of Pol I stalled at an Ap site (Ap-SEC) indicating the different subunits and close-up view of the active center. Canonical Watson-Crick H-bonds and other H-bonds between bases are shown as black and green dotted lines, respectively. c–f Close-up views comparing the position of nucleotides in the DNA/RNA hybrid between Ap-SEC (colors) and Closed Ap-PEC (grey, (c)), Ap-NAC (grey, (d)), Pol I EC with undamaged DNA (PDB code 5M3F, grey, (e)), paused bacterial RNA polymerase (PDB code 6ASX, pink; (f)), or paused human Pol II (PDB code 8UHA, grey; (f)).

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