Empirical models: Difference between revisions
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''Empirical models'' of molecules are those obtained by experimental observation of the molecules themselves. They are usually the most reliable structures of macromolecules. The [[Protein Data Bank]] (PDB) is the international archive of empirically | ''Empirical models'' of molecules are those obtained by experimental observation of the molecules themselves. They are usually the most reliable structures of macromolecules. The [[Protein Data Bank]] (PDB) is the international archive of empirically determined models. The most common experimental methods are evident from the numbers of each kind of experimental result in the PDB (data from '''October 19, 2024''', when the total number of entries in the PDB was 226,262): | ||
* [[X-ray crystallography]]: | * [[X-ray crystallography]]: 188,629 (83.4%) | ||
* [[NMR|Solution Nuclear Magnetic Resonance]]: | * [[NMR|Solution Nuclear Magnetic Resonance]]: 14,296 (6.3%) | ||
* [[Cryo-EM|Electron microscopy]]: | * [[Cryo-EM|Electron microscopy]]: 22,762 (10.1%) | ||
* Other methods: | * Other methods: 575 (0.3%) | ||
Empirical models are distinguished from ''[[Theoretical models]]''. | Empirical models are distinguished from ''[[Theoretical models]]''. In the past, theoretial models have been unreliable. However, in 2020 [[AlphaFold]] made a surprising breakthrough, and has been able to predict many structures very reliably. Less reliable non-empirical models from theory are archived in the [[ModelArchive]]. | ||
(To aid searching for this page: structure determination methods, structure methods, NMR, cryo-electron microscopy, cryoelectron microscopy.) | |||
==See Also== | |||
*[[How To Find A Structure]] | |||
Latest revision as of 21:39, 27 October 2024
Empirical models of molecules are those obtained by experimental observation of the molecules themselves. They are usually the most reliable structures of macromolecules. The Protein Data Bank (PDB) is the international archive of empirically determined models. The most common experimental methods are evident from the numbers of each kind of experimental result in the PDB (data from October 19, 2024, when the total number of entries in the PDB was 226,262):
- X-ray crystallography: 188,629 (83.4%)
- Solution Nuclear Magnetic Resonance: 14,296 (6.3%)
- Electron microscopy: 22,762 (10.1%)
- Other methods: 575 (0.3%)
Empirical models are distinguished from Theoretical models. In the past, theoretial models have been unreliable. However, in 2020 AlphaFold made a surprising breakthrough, and has been able to predict many structures very reliably. Less reliable non-empirical models from theory are archived in the ModelArchive.
(To aid searching for this page: structure determination methods, structure methods, NMR, cryo-electron microscopy, cryoelectron microscopy.)