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> The question that could be asked here is what is the model supposed to
> reflect?
>
> Should the model be our best guess as to the structure, or what we can
> and have observed in our electron density maps. In general I think it
> is better to be conservative and follow the latter.
To give a semi-philosophical argument, the best model is the one that
maximises the product (likelihood * prior). A model for which all surface
exposed lysines, arginines, etc, have all atoms after Cbeta missing should
be given an extremely low prior probability (based purely on chemical-
biological grounds :-)
--
Dr Nicholas M. Glykos, Department of Molecular
Biology and Genetics, Democritus University of Thrace,
Dimitras 19, 68100 Alexandroupolis, Greece, Fax ++302551030613
Tel ++302551030620 (77620), http://www.mbg.duth.gr/~glykos/
