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 Results for DC.creator="S." AND DC.creator="J." AND DC.creator="Wodak" in section 21.2.2 of volume F
Deviations from standard atomic volumes as a quality measure for protein crystal structures
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2.2.3, pp. 664-665 [ doi:10.1107/97809553602060000880 ]
... of the dividing plane P between two atoms i and j, with van der Waals radii and , respectively, separated by a ... CAD): a robust measure to evaluate accuracy of protein models. J. Mol. Biol. 268, 678-685. Alard, P. (1991). Calcul ... macromolécules. PhD thesis dissertation, Université Libre de Bruxelles, Belgium. Finney, J. L. (1975). Volume occupation, environment and accessibility in ...

Validation using knowledge-based interaction potentials and profiles
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2.2.2, pp. 663-664 [ doi:10.1107/97809553602060000880 ]
... are used to score the structure (for a review, see Wodak & Rooman, 1993). The potentials that consider residue-residue interactions ... volume-based Z scores. References Eisenberg, D., Luthy, R. & Bowie, J. U. (1997). VERIFY3D: assessment of protein models with three ... . Novel knowledge-based mean force potential at atomic level. J. Mol. Biol. 267, 207-222. Melo, F. & Feytmans, E. ( ...

Validation of stereochemical and non-bonded parameters
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2.2.1, p. 663 [ doi:10.1107/97809553602060000880 ]
... factor) value, which measures how normal or unusual a residue's location is in the plot for a given residue type. ... bonded and geometrical features. Biopolymers, 22, 2577-2637. Kleywegt, G. J. & Jones, T. A. (1996). Phi/psi-chology: Ramachandran revisited. ... 1395-1400. Laskowski, R. A., MacArthur, M. W., Moss, D. S. & Thornton, J. M. (1993). PROCHECK: a program to ...

Comparisons against standard values derived from surveys of other macromolecules
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2.2, pp. 663-665 [ doi:10.1107/97809553602060000880 ]
... factor) value, which measures how normal or unusual a residue's location is in the plot for a given residue type. ... are used to score the structure (for a review, see Wodak & Rooman, 1993). The potentials that consider residue-residue interactions ... of the dividing plane P between two atoms i and j, with van der Waals radii and , respectively, separated by ...

Comparisons against standard values derived from crystals of small molecules
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2.1, pp. 662-663 [ doi:10.1107/97809553602060000880 ]
... crystallography. Acta Cryst. D50, 760-763. Allen, F. H., Bellard, S., Brice, M. D., Cartwright, B. A., Doubleday, A., Higgs, H. ... T., Hummelink-Peters, B. G., Kennard, O., Motherwell, W. D. S., Rodgers, J. R. & Watson, D. G. (1979). The Cambridge Crystallographic ...

Validating the geometric and stereochemical parameters of the model
Wodak, S. J., Vagin, A. A., Richelle, J., Das, U., Pontius, J. and Berman, H. M.  International Tables for Crystallography (2012). Vol. F, Section 21.2.2, pp. 662-665 [ doi:10.1107/97809553602060000880 ]
... factor) value, which measures how normal or unusual a residue's location is in the plot for a given residue type. ... are used to score the structure (for a review, see Wodak & Rooman, 1993). The potentials that consider residue-residue interactions ... of the dividing plane P between two atoms i and j, with van der Waals radii and , respectively, separated by ...

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