Temperature value: Difference between revisions
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While the temperature colors of two separate models cannot be rigorously compared (since the temperature values themselves are relative, not absolute), high [[Resolution|resolution]] models tend to have fewer red atoms than do models with modest resolution. For example, a <scene name='Temperature_value/1kzk/1'>small HIV protease at 1.1 Angstroms resolution</scene> ([[1kzk]]) has <scene name='Temperature_value/1kzk/2'>few red atoms</scene>, while the <scene name='Temperature_value/1uwb/2'>larger, less compact HIV reverse transcriptase at 3.2 Angstroms resolution</scene> ([[1uwb]]) has <scene name='Temperature_value/1uwb/1'>many red atoms</scene>. Also, many of the surface sidechains are missing (due to disorder) in [[1uwb]]. Missing sidechains are labeled '''S-''' in ''FirstGlance in Jmol'' (linked under the molecule on all [[PDB code]]-titled pages in Proteopedia). | While the temperature colors of two separate models cannot be rigorously compared (since the temperature values themselves are relative, not absolute), high [[Resolution|resolution]] models tend to have fewer red atoms than do models with modest resolution. For example, a <scene name='Temperature_value/1kzk/1'>small HIV protease at 1.1 Angstroms resolution</scene> ([[1kzk]]) has <scene name='Temperature_value/1kzk/2'>few red atoms</scene>, while the <scene name='Temperature_value/1uwb/2'>larger, less compact HIV reverse transcriptase at 3.2 Angstroms resolution</scene> ([[1uwb]]) has <scene name='Temperature_value/1uwb/1'>many red atoms</scene>. Also, many of the surface sidechains are missing (due to disorder) in [[1uwb]]. Missing sidechains are labeled '''S-''' in ''FirstGlance in Jmol'' (linked under the molecule on all [[PDB code]]-titled pages in Proteopedia). | ||
Most [[molecular modeling and visualization software]] packages have an option to color by temperature, including [[FirstGlance in Jmol]], which is linked on every page in Proteopedia that is titled with a [[PDB code]]. In [[FirstGlance in Jmol]] (version 1), this option will be found under ''More Views..'' in the section on ''Quality'' as ''Color by Uncertainty''. | Most [[molecular modeling and visualization software]] packages have an option to color by temperature, including [[FirstGlance in Jmol]], which is linked on every page in Proteopedia that is titled with a [[PDB code]]. In [[FirstGlance in Jmol]] (version 1), this option will be found under ''More Views..'', in the section on ''Quality'', as ''Color by Uncertainty''. | ||
==Missing Residues== | ==Missing Residues== | ||
