Clashes: Difference between revisions

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default [[Tutorial:Ramachandran principle and phi psi angles]]

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''Clashes'' in protein models, also called ''steric clashes'', occur when two non-bonded atoms are impossibly close to each other. This happens when the [[van der Waals radii]] of the atoms overlap; that is, when two atoms are occupying the same space. Clashes typically occur in lower [[resolution]] models due to the difficulties of obeying all chemical constraints while optimizing the fit of the model to the experimental data. Clashes are more common in [[X-ray crystallography|X-ray crystallographic]] models with resolutions of 3.0 Å or worse, or in [[cryo-EM]] models. ([[NMR]] models generally lack clashes because they are forced to obey chemical constraints.)

''Clashes'' in protein models, also called ''steric clashes'', occur when two non-bonded atoms are impossibly close to each other. This happens when the [[van der Waals radii]] of the atoms overlap; that is, when two atoms are occupying the same space. Clashes typically occur in lower [[resolution]] models due to the difficulties of obeying all chemical constraints while optimizing the fit of the model to the experimental data. Clashes are more common in [[X-ray crystallography|X-ray crystallographic]] models with [[resolution|resolutions]] of 3.0 Å or worse, or in [[cryo-EM]] models. ([[NMR]] models generally lack clashes because they are forced to obey chemical constraints.)

==Clashes Dictate Protein Secondary Structure==

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 default [[Tutorial:Ramachandran principle and phi psi angles]]
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-''Clashes'' in protein models, also called ''steric clashes'', occur when two non-bonded atoms are impossibly close to each other. This happens when the [[van der Waals radii]] of the atoms overlap; that is, when two atoms are occupying the same space. Clashes typically occur in lower [[resolution]] models due to the difficulties of obeying all chemical constraints while optimizing the fit of the model to the experimental data. Clashes are more common in [[X-ray crystallography|X-ray crystallographic]] models with resolutions of 3.0 Å or worse, or in [[cryo-EM]] models. ([[NMR]] models generally lack clashes because they are forced to obey chemical constraints.)
+''Clashes'' in protein models, also called ''steric clashes'', occur when two non-bonded atoms are impossibly close to each other. This happens when the [[van der Waals radii]] of the atoms overlap; that is, when two atoms are occupying the same space. Clashes typically occur in lower [[resolution]] models due to the difficulties of obeying all chemical constraints while optimizing the fit of the model to the experimental data. Clashes are more common in [[X-ray crystallography|X-ray crystallographic]] models with [[resolution|resolutions]] of 3.0 Å or worse, or in [[cryo-EM]] models. ([[NMR]] models generally lack clashes because they are forced to obey chemical constraints.)
 ==Clashes Dictate Protein Secondary Structure==