Clashes: Difference between revisions
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Eric Martz (talk | contribs) New page: ''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 ov... |
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The presence of too many clashes in a model calls into question its reliability. All models submitted to the Protein Data Bank (PDB) are analyzed by MolProbity, which determines a clash score, and ranks it relative to other models of the same resolution. Each PDB entry has an extensive quality report. Here are a couple of examples: | The presence of too many clashes in a model calls into question its reliability. All models submitted to the Protein Data Bank (PDB) are analyzed by MolProbity, which determines a clash score, and ranks it relative to other models of the same resolution. Each PDB entry has an extensive quality report. Here are a couple of examples: | ||
==Visualization of Clashes== | ==Visualization of Clashes== | ||
*MolProbity offers visualization of clashes in | *MolProbity offers visualization of clashes in | ||
*Jmol offers visualization of clashes | *Jmol offers visualization of clashes | ||
==See Also== | |||
*[https://en.wikipedia.org/wiki/Steric_effects Steric Effects in Wikipedia] | |||
