Experimental phasing: Best practice and pitfalls

Acta Crystallographica Section D: Biological Crystallography

Volumn 66, Issue 4, 2010, Pages 458-469

  McCoy, Airlie J ^a   Read, Randy J ^a  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

Absolute configuration; Chirality; Enantiomers; Experimental phasing; Handedness; Twinning

Indexed keywords

PROTEIN;

ARTICLE; COMPUTER PROGRAM; METHODOLOGY; PROBABILITY; X RAY CRYSTALLOGRAPHY;

CRYSTALLOGRAPHY, X-RAY; PROBABILITY; PROTEINS; SOFTWARE;

EID: 77950814993     PISSN: 09074449     EISSN: 13990047     Source Type: Journal    
DOI: 10.1107/S0907444910006335     Document Type: Article

References (54)

1. Abrahams, J. P. & Leslie, A. G. W. (1996). Acta Cryst. D52, 30-42.
2. Adams, P. D., Gopal, K., Grosse-Kunstleve, R. W., Hung, L.-W., Ioerger, T. R., McCoy, A. J., Moriarty, N.W., Pai, R. K., Read, R. J., Romo, T. D., Sacchettini, J. C., Sauter, N. K., Storoni, L. C. & Terwilliger, T. C. (2004). J. Synchrotron Rad. 11, 53-55.
3. Adams, P. D., Grosse-Kunstleve, R. W., Hung, L.-W., Ioerger, T. R., McCoy, A. J., Moriarty, N. W., Read, R. J., Sacchettini, J. C., Sauter, N. K. & Terwilliger, T. C. (2002). Acta Cryst. D58, 1948-1954.
4. Ban, N., Nissen, P., Hansen, J., Capel, M., Moore, P. B. & Steitz, T. A. (2000). Nature (London), 400, 841-847.
5. Barends, T. R. M., de Jong, R. M., van Straaten, K. E., Thunnissen, A.-M. W. H. & Dijkstra, B. W. (2005). Acta Cryst. D61, 613-621.
6. Bertero,M. G., Rothery, R. A., Palak, M., Hou, C., Lim, D., Blasco, F., Weiner, J. H. & Strynadka, N. C. J. (2003). Nature Struct. Biol. 10, 681-687.
7. Bijvoet, J. M. (1949). Proc. K. Ned. Akad. Wet. Ser. B, 52, 313-314.
8. Bijvoet, J. M. (1954). Nature (London), 173, 888-891.
9. Blow, D. M. (2002). Protein Crystallography for Biologists. Oxford University Press.
10. Blow, D. M. & Crick, F. H. C. (1959). Acta Cryst. 12, 794-802.
11. Blow, D. M. & Rossmann, M. G. (1961). Acta Cryst. 14, 1195-1202.
12. Blundell, T., Dodson, G., Hodgkin, D. & Mercola, D. (1972). Adv. Protein Chem. 26, 279-402.
13. Blundell, T. L. & Johnson, L. N. (1976). Protein Crystallography. London: Academic Press.
14. Brunzelle, J. S., Shafaee, P., Yang, X., Weigand, S., Ren, Z. & Anderson, W. F. (2003). Acta Cryst. D59, 1138-1144.
15. Chang, G., Roth, C. B., Reyes, C. L., Pornillos, O., Chen, Y. J. & Chen, A. P. (2006). Science, 314, 1875.
16. Cochran, W. (1948). Acta Cryst. 1, 138-142.
17. Cohen, S. X., Morris, R. J., Fernandez, F. J., Ben Jelloul, M., Kakaris, M., Parthasarathy, V., Lamzin, V. S., Kleywegt, G. J. & Perrakis, A. (2004). Acta Cryst. D60, 2222-2229.
18. Cullis, A. F., Muirhead, H., Peruta, M. F., Rossmann, M. G. & North, A. C. T. (1961). Proc. R. Soc. London Ser. A, 265, 15.
19. Dauter, Z. (2003). Acta Cryst. D59, 2004-2016.
20. Declercq, J.-P. & Evrard, C. (2001). Acta Cryst. D57, 1829-1835.
21. Drenth, J. (1994). Principles of Protein X-ray Crystallography. Berlin: Springer-Verlag.
22. Evans, P. (2003). Acta Cryst. D59, 2039-2043.
23. Evans, G. & Pettifer, R. F. (2001). J. Appl. Cryst. 34, 82-86.
24. Grosse-Kunstleve, R. W. & Adams, P. D. (2003a). Acta Cryst. D59, 1966-1973.
25. Grosse-Kunstleve, R. W. & Adams, P. D. (2003b). Acta Cryst. D59, 1974-1977.
26. Hendrickson, W. A. & Lattman, E. E. (1970). Acta Cryst. B26, 136-143.
27. International Tables for Crystallography (2002). Vol.A, Space Group Symmetry, 5th ed., edited by T. Hahn. Dordrecht: Kluwer Academic Publishers.
28. James, R. W. (1957). The Optical Principles of the Diffraction of X-rays, Vol.II. London: Bell.
29. La Fortelle, E. de & Bricogne, G. (1997). Methods Enzymol. 276, 472-494.
30. Lamzin, V. S. & Perrakis, A. (2000). Nature Struct. Biol. 7, 978-981.
31. Lamzin, V. S., Perrakis, A., Bricogne, G., Jiang, J., Swaminathan, S. & Sussman, J. L. (2000). Acta Cryst. D56, 1510-1511.
32. McCoy, A. J. (2004). Acta Cryst. D60, 2169-2183.
33. McCoy, A. J., Grosse-Kunstleve, R. W., Adams, P. D., Winn, M. D., Storoni, L. C. & Read, R. J. (2007). J. Appl. Cryst. 40, 658-674.
34. Miller, R., Gallo, S. M., Khalak, H. G. &Weeks, C. M. (1994). J. Appl. Cryst. 27, 613-621.
35. Panjikar, S., Parthasarathy, V., Lamzin, V. S., Weiss, M. S. & Tucker, P. A. (2005). Acta Cryst. D61, 449-457.
36. Pape, T. & Schneider, T. R. (2004). J. Appl. Cryst. 37, 843-844.
37. Parsons, S. (2003). Acta Cryst. D59, 1995-2003.
38. Pentelute, B. L., Gates, Z. P., Tereshko, V., Dashnau, J. L, Vanderkooi, J. M., Kossiakoff, A. A. & Kent, S. B. H. (2008). J. Am. Chem. Soc. 130, 9695-9701.
39. Read, R. J. (1986). Acta Cryst. A42, 140-149.
40. Rossmann, M. G. & Blow, D. M. (1963). Acta Cryst. 16, 39-45.
41. Rossmann, M. G. & Blow, D. M. (1964). Acta Cryst. 17, 1474-1475.
42. Rudolph, M. G., Kelker, M. S., Schneider, T. R., Yeates, T. O., Oseroff, V., Heidary, D. K., Jennings, P. A. &Wilson, I. A. (2003). Acta Cryst. D59, 290-298.
43. Sasaki, S. (1989). Numerical Tables of Anomalous Scattering Factors Calculated by the Cromer and Liberman Method, KEK Report 88-14, pp. 1-136. Tsukuba, Japan: KEK.
44. Sheldrick, G. M. (2008). Acta Cryst. A64, 112-122.
45. Snell, G., Cork, C., Nordmeyer, R., Cornell, E., Meigs, G., Yegian, D., Jaklevic, J., Jin, J., Stevens, R. C. & Earnest, T. (2004). Structure, 12, 537-545.
46. Stryer, L., Kendrew, J. C. & Watson, H. C. (1964). J. Mol. Biol. 8, 96-104.
47. Taylor, G. (2010). Acta Cryst. D66, 325-338.
48. Terwilliger, T. C., Grosse-Kunstleve, R. W., Afonine, P. V., Moriarty, N. W., Zwart, P. H., Hung, L.-W., Read, R. J. & Adams, P. D. (2008). Acta Cryst. D64, 61-69.
49. Terwisscha van Scheltinga, A. C., Valegå rd, K., Ramaswamy, S., Hajdu, J. & Andersson, I. (2001). Acta Cryst. D57, 1776-1785.
50. Vonrhein, C., Blanc, E., Roversi, P. & Bricogne, G. (2007). Methods Mol. Biol. 364, 215-230.
51. Wang, B.-C. (1985). Methods Enzymol. 115, 90-112.
52. Wang, J., Wlodawer, A. & Dauter, Z. (2007). Acta Cryst. D63, 751-758.
53. Yeates, T. O. & Rees, D. C. (1987). Acta Cryst. A43, 30-36.
54. Zhang, K. Y. J. & Main, P. (1990). Acta Cryst. A46, 41-46.