-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 B factors are parameters which are our attempt to represent the amount of "disorder" for that atom. When compared to the average of the B factors a large B factor indicates that that atom has more motion, on either a long time scale (partial occupancy) or a short time scale (vibration) than the rest of the protein. To ask if there is a refinement strategy that would lower the B factors is the same as asking for a strategy that would move the atom to the left. The goal is to get the correct B factor, not the lowest B factor. When you have a region with high B factors you can sometimes make the map more understandable to the human eye by "sharpening" the map. This is an artificial lowering of the B factors just to make the map easier for the user to comprehend, when they have been trained with higher resolution maps. This can be done inside Coot when you calculate your map from the Fourier coefficients in your mtz file. Dale Tronrud On 7/25/2015 7:40 AM, Smith Liu wrote:

Suppose a 500-aa protein crystal structure has a flexible loop of 30 aas, and the loop fragment has a relatively high b-factor (above 100) in comparison with the whole protein b-factor. Is any refine strategy we can refine so that the b-factor of that loop fragment will be decreased?

Smith

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