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Figure 8
Restraint visualization in Coot. (a) Restraints were generated using ProSMART for an initial model of the mitoribosome (yellow) using the bacterial ribosome (purple) as a reference and were visualized in Coot. There are conformational differences between the two rRNA chains despite the sequence identity in the displayed region. Consequently, the local interatomic distances are conserved along the chain (grey) but are shorter across the chain (blue). Interatomic vectors coloured red indicate that the distances in the target structure are longer than in the reference structure. (b) Visualization of ProSMART hydrogen-bond restraints in Coot. (c) G:U base pair shown in (top) wobble and (bottom) reverse wobble configuration. (d) A G:U base pair with both pairs of LIBG restraints displayed in Coot. Only the distance restraints that best describe the orientation of the bases (grey, G:U wobble) are used as targets during refinement. Restraints for the reverse wobble configuration are shown in red. Parallel-plane restraints are shown in yellow.

Journal logoBIOLOGICAL
ISSN: 1399-0047
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