Fig. 3: Structural dynamics of NMD3 in human pre-60S particles.
From: Structural snapshots of human pre-60S ribosomal particles before and after nuclear export
a, Conformational changes of NMD3 on its N-terminal domain in the map of state A, B and C. b Domain organization of human NMD3. c Superimposition of one loop at the OB domain between the human (red) and yeast (cyan) NMD3 (PDB 5H4P)33. Domains of human NMD3 are separately colored. The segmented density map of NMD3 in state A is also shown. The lengthened loop in human NMD3 is capable of interacting with H68 of the 28S rRNA. d Zoom-in view on a mammal-specific disulfide bond in human NMD3 (yellow). Local density of the disulphide bond is also shown. e Sequence alignment of NMD3. The lengthened loop is labeled by a dash-lined square and residues of disulfide bond are highlighted in yellow. f Superimposition of the β4-β5 loop from NMD3 (state B) with the immature H89-H92 (state A), showing that this PTC-interacting motif clashes with the immature H89. g Interaction of the β4-β5 loop with the mature-like PTC components (H92 and C4519 of H90 in state B. h Superimposition of uL16 from the 80S ribosome (PDB 6EK0)62 with NMD3 (state C), indicating a conflict between the P-loop of uL16 and the β4-β5 loop of NMD3.
