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Figure 2
NCS-averaged OMIT maps of the Sm site superposed on the final coordinates of the Sm site. The OMIT maps (green) are calculated (§[link]2.4) following molecular replacement, rigid-body refinement and restrained refinement by repeating the restrained refinement with the occupancies of the Sm-site nonanucleotide set to 0.01 and averaging the mFo − DFc density over the 12 NCS copies. (a) The U1-derived OMIT map contoured at 8.0σ (0.09 e Å−3) shows that at the G→U substitution U123 (marked by *) of U4 snRNA is bound in SmD1. (b) The U4–U1 hybrid-derived OMIT map contoured at 7.5σ (0.08 e Å−3) shows that the first A of the U4 Sm-site nonamer, A118 (marked by *), is bound in SmF. Figs. 2–5 and 7–10 were prepared using PyMOL (v.1.7.2; Schrödinger).

Journal logoSTRUCTURAL
BIOLOGY
ISSN: 2059-7983
Volume 72| Part 1| January 2016| Pages 131-146
https://doi.org/10.1107/S2059798315022111
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