XANES measurements of the rate of radiation damage to selenomethionine side chains

Journal of Synchrotron Radiation

Volumn 14, Issue 1, 2007, Pages 51-72

  Holton, James M ^a,b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

Author keywords

Mechanism of radiation damage; pH and temperature effects; Protective solutes; Protein crystal structure; X ray dose

Indexed keywords

ABSORPTION; AMINES; CRYSTAL STRUCTURE; DOSIMETRY; ELECTRIC FIELD EFFECTS; ELECTROMAGNETIC WAVE DIFFRACTION; PH EFFECTS; X RAY SCATTERING;

AMORPHOUS SOLIDS; DECAY RATES; PROTECTIVE SOLUTES; X-RAY ABSORBANCE NEAR-EDGE SPECTRUM (XANES);

RADIATION DAMAGE;

SELENOMETHIONINE;

ARTICLE; CHEMICAL MODEL; CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER SIMULATION; CONFORMATION; KINETICS; METHODOLOGY; PROTEIN DENATURATION; RADIATION DOSE; RADIATION EXPOSURE; RADIATION RESPONSE; X RAY; X RAY CRYSTALLOGRAPHY;

COMPUTER SIMULATION; CRYSTALLOGRAPHY, X-RAY; DOSE-RESPONSE RELATIONSHIP, RADIATION; KINETICS; MODELS, CHEMICAL; MODELS, MOLECULAR; MOLECULAR CONFORMATION; PROTEIN DENATURATION; RADIATION DOSAGE; SELENOMETHIONINE; X-RAYS;

EID: 33846112664     PISSN: 09090495     EISSN: 16005775     Source Type: Journal    
DOI: 10.1107/S0909049506048898     Document Type: Conference Paper

References (59)

1. Banumathi, S., Zwart, P. H., Ramagopal, U. A., Dauter, M. & Dauter, Z. (2004). Acta Cryst. D60, 1085-1093.
2. Box, H. R. (1977). Radiation Effects: ESR and ENDOR Analysis. London: Academic Press.
3. Bricogne, G., Capelli, S. C., Evans, G., Mitschler, A., Pattison, P., Roversi, P. & Schütz, M. (2005). J. Appl. Cryst. 38, 168-182.
4. Burmeister, W. P. (2000). Acta Cryst. D56, 328-341.
5. Carugo, O. & Carugo, K. D. (2005). Trends Biochem. Sci. 30, 213-219.
6. Douzou, P. (1977). Cryobiochemistry. New York: Academic Press.
7. Dubnovitsky, A. P., Ravelli, R. B. G., Popov, A. N. & Papageorgiou, A. C. (2005). Protein Sci. 14, 1498-1507.
8. Durham, P. J., Pendry, J. B. & Hodges, C. H. (1981). Solid State Commun. 38, 159-162.
9. Fioravanti, E., Vellieux, F. M. D., Amara, P., Madern, D. & Weik, M. (2007). J. Synchrotron Rad. 14, 84-91.
10. Forziati, A. F., Glasgow, A. R., Willingham, C. B. & Rossini, F. D. (1946). J. Res. Natl. Bur. Stand. 36, 129-136.
11. Fuhrmann, C. N., Kelch, B. A., Ota, N. & Agard, D. A. (2004). J. Mol. Biol. 338, 999-1013.
12. Garman, E. & Nave, C. (2002). J. Synchrotron Rad. 9, 327-328.
13. Garrett, B. C. et al. (2005). Chem. Rev. 105, 355-389.
14. Gonzalez, A., Denny, R. & Nave, C. (1994). Acta Cryst. D50, 276-282.
15. Gonzalez, A., von Delft, F., Liddington, R. C. & Bakolitsa, C. (2005). J. Synchrotron Rad. 12, 285-291.
16. Helliwell, J. R., Ealick, S., Doing, P., Irving, T. & Szebenyi, M. (1993). Acta Cryst. D49, 120-128.
17. Higgins, P. D., Attix, F. H., Hubbell, J. H., Seltzer, S. M., Berger, M. J. & Sibata, C. H. (1992). Internal Report 4812. National Institute of Standards and Technology Physics Laboratory, Gaithersburg, MD, USA.
18. Holton, J. M. (2005). Annual Meeting of the American Crystallographic Association, Orlando, FL, USA. Abstract W0308.
19. Holton, J. M. & Alber, T. (2004). Proc. Natl. Acad. Sci. USA, 101, 1537-1542.
20. Honig, B. & Nicholls, A. (1995). Science, 268, 1144-1149.
21. Howard, F. L., Mears, T. W., Fookson, A., Pomerantz, P. & Brooks, D. B. (1947). J. Res. Natl. Bur. Stand. 38, 365-395.
22. Huang, D. T., Miller, D. W., Mathew, R., Cassell, R., Holton, J. M., Roussel, M. F. & Schulman, B. A. (2004). Nature Struct. Mol. Biol. 11, 927-935.
23. Hubbell, J. H. (1982). Int. J. Appl. Radiat. Isotopes, 33, 1269-1290.
24. Kerr, A. (2000). In CRC Handbook of Chemistry and Physics 1999-2000: A Ready-Reference Book of Chemical and Physical Data (CRC Handbook of Chemistry and Physics), 81st ed., edited by D. R. Lide. Boca Raton, FL: CRC Press.
25. Leiros, H. K. S., McSweeney, S. M. & Smalas, A. O. (2001). Acta Cryst. D57, 488-497.
26. Leiros, H. K. S., Timmins, J., Ravelli, R. B. G. & McSweeney, S. M. (2006). Acta Cryst. D62, 125-132.
27. MacDowell, A. A. et al. (2004). J. Synchrotron Rad. 11, 447-455.
28. McMaster, W. H., Del Grande, N. K., Mallett, J. H, & Hubbell, J. H. (1969). Report UCRL-50174. Lawrence Livermore National Laboratory, USA.
29. Milligan, J. R. & Ward, F. (1994). Radiat. Res. 137, 295-299.
30. Murray, J. W. & Garman, E. F. (2002). J. Synchrotron Rad. 9, 347-354.
31. Murray, J. W., Garman, E. F. & Ravelli, R. B. G. (2004). J. Appl. Cryst. 37, 513-522.
32. Murray, J. W., Rudiño-Piñera, E., Owen, R. L., Grininger, M., Ravelli, R. B. G. & Garman, E. F. (2005). J. Synchrotron Rad. 12, 268-275.
33. Nanao, M. H., Sheldrick, G. M. & Ravelli, R. B. G. (2005). Acta Cryst. D61, 1227-1237.
34. Nave, C. & Garman, E. F. (2005). J. Synchrotron Rad. 12, 257-260.
35. Nave, C. & Hill, M. A. (2005). J. Synchrotron Rad. 12, 299-303.
36. Newton, A. (1963). Radiation Effects on Organic Materials, edited by R. O. Bolt and J. G. Carroll. New York: Academic Press.
37. Nukaga, M., Mayama, K., Hujer, A. M., Bonomo, R. A. & Knox, J. R. (2003). J. Mol. Biol. 328, 289-301.
38. Petrik, N. G. & Kimmel, G. A. (2003). Phys. Rev. Lett. 90, 269-270.
39. Petrik, N. G. & Kimmel, G. A. (2004). J. Chem. Phys. 121, 3736-3744.
40. Pickering, I. J., Brown, G. E. & Tokunaga, T. K. (1995). Environ. Sci. Technol. 29, 2456-2459.
41. Pickering, I. J., George, G. N., Van Fleet-Stalder, V., Chasteen, T. G. & Prince, R. C. (1999). J. Biol. Inorg. Chem. 4, 791-794.
42. Pogocki, D., Ghezzo-Schoneich, E. & Schoneich, C. (2001). J. Phys. Chem. B, 105, 1250-1259.
43. Rauk, A., Armstrong, D. A. & Fairlie, D. P. (2000). J. Am. Chem. Soc. 122, 9761-9767.
44. Ravelli, R. B. G., Leiros, H. K. S., Pan, B. C., Caffrey, M. & McSweeney, S. (2003). Structure, 11, 217-224.
45. Ravelli, R. B. G. & McSweeney, S. M. (2000). Structure, 8, 315-328.
46. Ravelli, R. B. G., McSweeney, S., Aragao, D. & Caffrey, M. (2000). Biophys. J. 78, 484a.
47. Ravelli, R. B. G., Nanao, M. H., Lovering, A., White, S. & McSweeney, S. (2005). J. Synchrotron Rad. 12, 276-284.
48. Roberts, B. R., Wood, Z. A., Jonsson, T. J., Poole, L. B. & Karplus, P. A. (2005). Protein Sci. 14, 2414-2420.
49. Sarret, G., Avoscan, L., Carriere, M., Collins, R., Geoffroy, N., Carrot, F., Coves, J. & Gouget, B. (2005). Appl. Environ. Microbiol. 71, 2331-2337.
50. Soirat, A. J. A., Wong, C. F., Osman, R. & Weinstein, H. (1997). J. Comput. Chem. 18, 888-901.
51. Thomazeau, K., Curien, G., Thompson, A., Dumas, R. & Biou, V. (2001). Acta Cryst. D57, 1337-1340.
52. Van Fleet-Stalder, V., Chasteen, T. G., Pickering, I. J., George, G. N. & Prince, R. C. (2000). Appl. Environ. Microbiol. 66, 4849.
53. Weik, M., Berges, J., Raves, M. L., Gros, P., McSweeney, S., Silman, I., Sussman, J. L., Houee-Levin, C. & Ravelli, R. B. G. (2002). J. Synchrotron Rad. 9, 342-346.
54. Weik, M., Ravelli, R. B. G., Kryger, G., McSweeney, S., Raves, M. L., Harel, M., Gros, P., Silman, I., Kroon, J. & Sussman, J. L. (2000). Proc. Natl. Acad. Sci. USA, 97, 623-628.
55. Weik, M., Ravelli, R. B. G., Silman, I., Sussman, J. L., Gros, P. & Kroon, J. (2001). Protein Sci. 10, 1953-1961.
56. Weik, M., Schreurs, A. M. M., Leiros, H. K. S., Zaccai, G., Ravelli, R. B. G. & Gros, P. (2005). J. Synchrotron Rad. 12, 310-317.
57. Woolfson, M. M. (1970). An Introduction to X-ray Crystallography, 2nd ed. Cambridge University Press.
58. Yano, J., Kern, J., Irrgang, K. D., Latimer, M. J., Bergmann, U., Glatzel, P., Pushkar, Y., Biesiadka, J., Loll, B., Sauer, K., Messinger, J., Zouni, A. & Yachandra, V. K. (2005). Proc. Natl. Acad. Sci. USA, 102, 12047-12052.
59. Zwart, P. H., Banumathi, S., Dauter, M. & Dauter, Z. (2004). Acta Cryst. D60, 1958-1963.