UMMS Affiliation
Department of Biochemistry and Molecular Pharmacology
Publication Date
1995-01-01
Document Type
Article
Disciplines
Biochemistry, Biophysics, and Structural Biology | Pharmacology, Toxicology and Environmental Health
Abstract
The method of time-averaging crystallographic refinement is assessed using a small molecule, alpha-cyclodextrin, as a test system. A total of 16 refinements are performed on simulated data. Three resolution ranges of the data are used, the memory relaxation time of the averaging is varied, and several overall temperature factors are used. The most critical factor in the reliable application of time-averaging is the resolution of the data. The ratio of data to molecular degrees of freedom should be large enough to avoid overfitting of the data by the time-averaging procedure. The use of a free R-factor can aid in determining whether time-averaging can be reliably applied. Good ensembles of structures are obtained using data up to 1.0 or 2.0 A resolution. Comparison of electron-density maps from time-averaging refinement and anisotropic temperature-factor refinement indicates that the former technique yields a better representation of the exact data than the latter.
DOI of Published Version
10.1107/S0907444994007158
Source
Acta Crystallogr D Biol Crystallogr. 1995 Jan 1;51(Pt 1):85-92. Link to article on publisher's site
Journal/Book/Conference Title
Acta crystallographica. Section D, Biological crystallography
Related Resources
PubMed ID
15299339
Repository Citation
Schiffer, Celia A.; Gros, P.; and van Gunsteren, Wilfred F., "Time-averaging crystallographic refinement: possibilities and limitations using alpha-cyclodextrin as a test system" (1995). Biochemistry and Molecular Pharmacology Publications and Presentations. 99.
https://escholarship.umassmed.edu/bmp_pp/99
Included in
Biochemistry, Biophysics, and Structural Biology Commons, Pharmacology, Toxicology and Environmental Health Commons