Water molecules were identified automatically in Coot (2Fobs − Fcalc map, above 1.8σ, and greater than 2.4 Å and less than 3.2 Å from hydrogen bond donors or acceptors) and by manual inspection of electron density maps.
Manual rebuilds against electron-density maps were performed using Coot (Emsley et al., 2010) and Molprobity (Davis et al., 2007; Chen et al., 2010).
The buttons and on-screen text are both tiny, though, and the manual practically requires an electron microscope.
But when you slip the instruction manual under the nearest electron microscope and begin reading the six-point type, the fun begins.
Manual TIG welding and electron beam welding was carried out with Zircaloy-4 pipes of 5 mm thick and 120 mm diameter, and radiography was made for choosing defect-free regions for making samples for corrosion investigations.
Each cycle of refinement was followed by manual inspection of the electron density maps using the program O (21).
We are also happy to acknowledge the importance of complementary investigative techniques such as manual dissection, histology and electron microscopy, and the additional opportunities afforded by employing these in combination with MRI, as in our recent publication [ 10].
Model errors were corrected manually based on the electron density map followed by manual building of the rest of the model.
Hence, the "electron" in "electronics".
This electron density guided manual rebuilding, allowed to trace these loops with confidence in main chain position.
To facilitate the tracing of complex bundles of axons we enhanced the Reconstruct software [6], which was initially developed for manual segmentation of serial section electron microscopy.
