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[Preprint]. 2022 Jan 4:rs.3.rs-1160075. [Version 1] doi: 10.21203/rs.3.rs-1160075/v1

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Figure 5: — MD 3_6 structures compared to two Cryo-EM structures. (Top, Left) The 88-nt Cryo-EM structure²⁰ in threaded ring conformation is (Middle) aligned with our 87-nt RNAComposer MD structure (Cryo-EM structure in mesh mode, MD in cartoon), with (Right) 2D structural comparisons (Cryo-EM arc plot at top, MD at bottom). The 3D structure alignment is performed by PyMol⁴⁸ for 75 common residues (highlighted in purple in the 2D plot), and the RMSD is computed. (Bottom) Comparison between the 77-nt Cryo-EM structure²¹ and our 77-nt RNAComposer MD structure.