Fig. 2: Analysis of charge distribution on the AUD helical scaffolds. | Nature Communications

Fig. 2: Analysis of charge distribution on the AUD helical scaffolds.

From: Alphavirus nsP3 organizes into tubular scaffolds essential for infection and the cytoplasmic granule architecture

Fig. 2

a Surface charges representation of two sides of the AUD monomer. The monomer on the left has the same orientation than the monomer in Fig. 1e. The O-loop displays negative surface charges while the axial O-module, partly including the Zn finger, displays positive charges. b A section through the diameter of the scaffold shows the charge distribution of the interior which is rather neutral, equally combining positive and negative charges. The right panel shows the surface of the positively charged surface of the tubes. The positively charged interstitial pores of the helices connect with the external positive charged surface suggesting that naked RNA could transit the pores and bind the scaffold surface. c Same representation of the bottom and top of the HSs with positively and negatively charges, respectively, showing the electrostatic nature of the AUD oligomerization and helix formation. The surface electrostatics were calculated using APBS (https://www.poissonboltzmann.org/) on the ranges indicated by the scale-bars for panel (a) and (b, c) respectively.

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