Difference density quality (DDQ): A method to assess the global and local correctness of macromolecular crystal structures

Acta Crystallographica Section D: Biological Crystallography

Volumn 55, Issue 1, 1999, Pages 206-218

  Van Den Akker, Focco ^a,b,c   Hol, Wim G J ^a,b  

^a UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF WASHINGTON   (United States)

^c LERNER RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ATOMIC FORCE MICROSCOPY; CRYSTAL STRUCTURE; ELECTRON DENSITY MAP; NUCLEIC ACID; STRUCTURE ANALYSIS;

EID: 0032896079     PISSN: 09074449     EISSN: None     Source Type: Journal    
DOI: 10.1107/S0907444998007161     Document Type: Article

References (34)

1. Baker, E. N. & Hubbard, R. E. (1984). Prog. Biophys. Mol. Biol. 44, 97-179.
2. Brändén, C.-I. & Jones, T. A. (1990). Nature (London), 343, 687-689.
3. Brünger, A. T. (1992). Nature (London), 355, 472-475.
4. Brünger, A. T., Kuriyan, J. & Karplus, M. (1987). Science, 235, 458-460.
5. Collaborative Computational Project, Number 4 (1994). Acta Cryst. D50, 760-763.
6. Colovos, C. & Yeates, T. O. (1993). Protein Sci. 2, 1511-1519.
7. Cruickshank, D. W. J. (1996). Refinement of Macromolecular Structures. Proceedings of the CCP4 Study Weekend, edited by E. Dodson, M. Moore & S. Bailey, pp. 11-22. Warrington: Daresbury Laboratory.
8. Goodsell, D. S., Kopka, M. L. & Dickerson, R. E. (1995). Biochemistry, 34, 4983-4993.
9. Gregoret, L. M., Rader, S. D., Fletterick, R. J. & Cohen, F. E. (1991). Proteins, 9, 99-107.
10. Henderson, R. & Moffat, J. K. (1971). Acta Cryst. B27, 1414-1420.
11. Holm, L. & Sander, C. (1992). J. Mol. Biol. 225, 93-105.
12. Hooft, R. W. W., Vriend, G., Sander, C. & Abola, E. E. (1996). Nature (London), 381, 272.
13. Jones, T. A., Kleywegt, G. J. & Brünger, A. T. (1996). Nature (London), 383, 18-19.
14. Jones, T. A., Zou, J.-Y., Cowan, S. W. & Kjeldgaard, M. (1991). Acta Cryst. A47, 110-119.
15. Kleywegt, G. J. & Brünger, A. T. (1996). Structure, 4, 897-904.
16. Kleywegt, G. J. & Jones, T. A. (1996). Structure, 4, 1395-1400.
17. Ladd, M. F. C. & Palmer, R. A. (1993). Structure Determination by X-ray Crystallography, 3rd ed., pp. 433-435. New York & London: Plenum Press.
18. Lawskowski, R. A., MacArthur, M. W., Moss, D. & Thornton, J. M. (1993). J. Appl. Cryst. 26, 283-291.
19. Lüthy, R., Bowie, J. U. & Eisenberg, D. (1992). Nature (London), 356, 83-85.
20. Luzzati, P. V. (1952). Acta Cryst. 5, 802-810.
21. McPhalen, C. A., Strynadka, N. C. J. & James, M. N. G. (1991). Adv. Protein Chem. 42, 77-144.
22. Pitt, W. R. & Goodfellow, J. M. (1991). Protein Eng. 4, 531-537.
23. Pontius, J., Richelle, J., Wodak, S. J. (1996). J. Mol. Biol. 264, 121-136.
24. Ramakrishnan, C. & Ramachandran, G. N. (1965). Biophys. J. 5, 909-933.
25. Read, R. J. (1986). Acta Cryst. A42, 140-149.
26. Read, R. J. (1990). Acta Cryst. A46, 900-912.
27. Roe, S. M. & Teeter, M. M. (1993). J. Mol. Biol. 229, 419-427.
28. Sheldrick, G. M. (1995) SHELXL93. A Program for the Refinement of Crystal Structures from Diffraction Data. Intitute für Anorganische Chemie, Göttingen, Germany.
29. Sippl, M. J. (1993). Proteins, 17, 355-362.
30. Sixma, T. K., Pronk, S. E., Kalk, K. H., van Zanten, B. A. M., Berghuis, A. M. & Hol, W. G. J. (1992). Nature (London), 355, 561-564.
31. Stout, G. H. & Jensen, L. H. (1989). X-ray Structure Determination, 2nd ed., pp. 349-354. New York: John Wiley & Sons.
32. Thanki, N., Thornton, J. M. & Goodfellow, J. M. (1988). J. Mol. Biol. 202, 637-657.
33. Umrania, Y., Nikjoo, H. & Goodfellow, J. M. (1995). Int. J. Radiat. Biol. 67, 145-152.
34. Walshaw, J. & Goodfellow, J. M. (1993). J. Mol. Biol. 231, 392-414.