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. Author manuscript; available in PMC: 2019 Apr 18.
Published in final edited form as: J Am Chem Soc. 2018 Apr 6;140(15):5077–5087. doi: 10.1021/jacs.7b11044

Figure 2. All-atom model and force experienced by the reporter cysteine and P-site residue.

Figure 2

(a) A cross-section of the cropped, all-atom ribosome-nascent chain complex along the long-axis of the exit tunnel. The tRNA (green), ribosome (red), nascent chain (black), TIP3P water (blue), and ions (yellow) are shown. (b) The mean force at the Cα atom of the reporter cysteine and P-site residue calculated from each trajectory using Eq. 2 for the 190-residue 3Ala10 nascent chain construct. The distributions are statistically the same at these two sites along the nascent chain (p-value=0.3, Wilcoxon Rank Sum Test), indicating there is no force attenuation.