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International
Tables for Crystallography Volume F Crystallography of biological macromolecules Edited by M. G. Rossmann and E. Arnold © International Union of Crystallography 2006 |
International Tables for Crystallography (2006). Vol. F. ch. 25.2, p. 725
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The output of the program consists of a number of PostScript plots, together with a full listing of the individual parameter values for each residue, with any unusual geometrical properties highlighted. The listing also provides summaries for the protein as a whole. Figs. 25.2.6.2![[link]](/graphics/greenarr.gif)
and 25.2.6.3 show parts of one of the PostScript plots generated, showing the variation of various residue properties along the length of the protein chain. Unusual regions, which are highlighted on these plots, may require further investigation by the crystallographer.
![[Figure 25.2.6.2]](/figures/Fafig25o2o6o2thm.gif) | Two of the residue-property plots generated by PROCHECK. The plots shown here are (a) the absolute deviation from the mean of the χ1 torsion angle (excluding prolines) and (b) the absolute deviation from the mean of the ω torsion angle. Usually, three such plots are shown per page and can be selected from a set of 14 possible plots. On each graph, unusual values (usually those more than 2.0 standard deviations away from the `ideal' mean value) are highlighted. |
![[Figure 25.2.6.3]](/figures/Fafig25o2o6o3thm.gif) | Schematic plots of various residue-by-residue properties, showing (d) the protein secondary structure, with the shading behind it giving an approximation to each residue's accessibility, the darker the shading the more buried the residue; (e) the protein sequence plus markers identifying the region of the Ramachandran plot in which the residue is located; (f) a histogram of asterisks and plus signs showing each residue's maximum deviation from one of the ideal values, as shown on the residue-by-residue listing; and (g) the residue `G factor' values for various properties, where the darker the square the more `unusual' the property. |
