Extended Data Fig. 9: Comparison of JUNV and MACV GPC cryo-EM structures and AlphaFold 3 predictions.
From: Molecular organization of the New World arenavirus spike glycoprotein complex
a,f, AlphaFold 345 models of K33ASSP JUNV GPC (a) and K33ASSP MACV GPC (f), with a single protomer colored according to the pLDDT confidence metrics. Dashed lines represent the relative position of the viral membrane. b,g, Structural superposition of the K33ASSP JUNV GPC AF3 model with the K33ASSP JUNV GPC cryo-EM structure (b) and the K33ASSP MACV GPC AF3 model with the K33ASSP MACV GPC cryo-EM structure (g). c,h, Top views of the JUNV GPC (c) and MACV GPC (h) apex comparing the relative trajectory of the GP1 C terminus between the AF3 predicted model and cryo-EM structures. The yellow and orange spheres indicate the position of the most C-terminal residues. Only the GP1 domains from the cryo-EM structure are shown, and GP1 domains from the AF3 models are omitted for clarity. d,i, Top views of structural superpositions of the SSP subunits of JUNV GPC (d) and MACV GPC (i) derived from AF3 predictions and cryo-EM structures. AF3 models are colored using the pLDDT scheme shown in (a), and cryo-EM structures are shown in gray. e,j, Top views of GP2 TM and cytosolic segments from the superposed JUNV GPC (e) and MACV GPC (j) AF3-predicted models and cryo-EM structures. AF3 models are colored using the pLDDT scheme shown in (a) and cryo-EM structures are shown in gray. Zinc ions are shown as spheres. N: N terminus; C: C terminus; iFL: internal fusion loop.
