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International
Tables for Crystallography Volume F Crystallography of biological macromolecules Edited by M. G. Rossmann and E. Arnold © International Union of Crystallography 2006 |
International Tables for Crystallography (2006). Vol. F. ch. 25.2, p. 725
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PROCHECK
is merely one of a number of validation tools that are freely available, some of which are mentioned elsewhere in this volume. The best known are WHATCHECK (Hooft et al., 1996![[link]](/graphics/greenarr.gif)
), PROVE (Pontius et al., 1996), SQUID (Oldfield, 1992) and VERIFY3D (Eisenberg et al., 1997). Tools such as OOPS (Kleywegt & Jones, 1996b) or the X-build validation in QUANTA (MSI, 1997) provide standard tests on the geometry of a structure and provide lists of residues with unexpected features, which make it easy to check electron-density maps at suspect points.
References
MSI (1997). QUANTA. MSI, 9685 Scranton Road, San Diego, CA 92121–3752, USA. Google Scholar
Eisenberg, D., Lüthy, R. & Bowie, J. U. (1997). VERIFY3D: assessment of protein models with three-dimensional profiles. Methods Enzymol. 277, 396–404.Google Scholar
Hooft, R. W. W., Sander, C., Vriend, G. & Abola, E. E. (1996). Errors in protein structures. Nature (London), 381, 272.Google Scholar
Kleywegt, G. J. & Jones, T. A. (1996b). Efficient rebuilding of protein structures. Acta Cryst. D52, 829–832.Google Scholar
Oldfield, T. J. (1992). SQUID: a program for the analysis and display of data from crystallography and molecular dynamics. J. Mol. Graphics, 10, 247–252.Google Scholar
Pontius, J., Richelle, J. & Wodak, S. (1996). Deviations from standard atomic volumes as a quality measure for protein crystal structures. J. Mol. Biol. 264, 121–136.Google Scholar
