Smartnotebook: A semi-automated approach to protein sequential NMR resonance assignments

Journal of Biomolecular NMR

Volumn 27, Issue 4, 2003, Pages 313-321

  Slupsky, Carolyn M ^a   Boyko, Robert F ^a   Booth, Valerie K ^a   Sykes, Brian D ^a  

^a UNIVERSITY OF ALBERTA   (Canada)

Author keywords

Assignment; Automated; Chemical shifts; NMR; NMRView; Semi automated

Indexed keywords

ACCURACY; AMINO ACID SEQUENCE; ARTICLE; AUTOMATION; COMPUTER PROGRAM; CONTROLLED STUDY; CORRELATION ANALYSIS; DATA BASE; DECISION MAKING; MANUAL LABOR; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN STRUCTURE; SPECTRAL SENSITIVITY;

AMINO ACID SEQUENCE; AUTOMATIC DATA PROCESSING; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEINS; SOFTWARE; USER-COMPUTER INTERFACE;

EID: 0142211244     PISSN: 09252738     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1025870122182     Document Type: Article

References (48)

1. Andrec, M. and Levy, R.M. (2002) J. Biomol. NMR, 23, 263-270.
2. Bailey-Kellogg, C., Widge, A., Kelley, J.J., Berardi, M.J., Bushweller, J.H. and Donald, B.R. (2000) J. Comput. Biol., 7, 537-558.
3. Bartels, C., Billeter, M., Güntert, P. and Wüthruch, K. (1996) J. Biomol. NMR, 7, 207-213.
4. Bernstein, R., Cieslar, C., Ross, A., Oschkinat, H., Freund, J. and Holak, T.A. (1993) J. Biomol. NMR, 3, 245-251.
5. Bodenhausen, G. and Ruben, D.J. (1980) Chem. Phys. Lett., 69, 185-189.
6. Cieslar, C., Clore, G.M. and Gronenborn, A.M. (1988) J. Magn. Reson., 80, 119-127.
7. Croft, D., Kemmink, J., Neidig, K. and Oschkinat, H. (1997) J. Biomol. NMR, 10, 207-219.
8. Eads, C.D. and Kuntz, I.D. (1989) J. Magn. Reson., 82, 467-482.
9. Eccles, C., Güntert, P., Billeter, M. and Wüthruch, K. (1991) J. Biomol. NMR, 1, 111-130.
10. Friedrichs, M.S., Mueller, L. and Wittekind, M. (1994) J. Biomol. NMR, 4, 703-726.
11. Görler, A., Gronwald, W., Neidig, K. and Kalbitzer, H.R. (1999) J. Magn. Reson., 137, 39-45.
12. Gronwald, W., Boyko, R.F., Sönnichsen, F.D., Wishart, D.S. and Sykes, B.D. (1997) J. Biomol. NMR, 10, 165-179.
13. Gronwald, W., Willard, L., Jellard, T., Boyko, R.F., Rajarathnam, K., Wishart, D.S., Sönnichsen, F.D. and Sykes, B.D. (1998) J. Biomol. NMR, 12, 395-405.
14. Grzesiek, S. and Bax, A. (1992a) J. Am. Chem. Soc., 114, 6291-6293.
15. Grzesiek, S. and Bax, A. (1992b) J. Magn. Reson., 96, 432-440.
16. Hare, B.J. and Prestegard, J.H. (1994) J. Biomol. NMR, 4, 35-46.
17. Herrmann, T., Güntert, P. and Wüthruch, K. (2002) J. Mol. Biol., 319, 209-227.
18. Johnson, B.A. and Blevins, R.A. (1994) J. Biomol. NMR, 4, 603-614.
19. Kjaer, M., Andersen, K.V. and Poulsen, F.M. (1994) Meth. Enzymol., 239, 288-307.
20. Kleywegt, G.J., Boelens, R., Cox, M., Llinás, M. and Kaptein, R. (1991) J. Biomol. NMR, 1, 23-47.
21. Kraulis, P.J. (1989) J. Magn. Reson., 84, 627-633.
22. Kraulis, P.J. (1994) J. Mol. Biol., 243, 696-718.
23. Leutner, M., Gschwind, R.M., Liermann, J., Schwarz, C., Gemmecker, G. and Kessler, H. (1998) J. Biomol. NMR, 11, 31-43.
24. Lukin, J., Gove, A.P., Talukdar, S.N. and Ho, C. (1997) J. Biomol. NMR, 9, 151-166.
25. Meadows, R.P., Olejniczak, E.T. and Fesik, S.W. (1994) J. Biomol. NMR, 4, 79-96.
26. Moseley, H.N.B. and Montelione, G.T. (1999) Curr. Opin. Struct. Biol., 9, 635-642.
27. Oezguen, N., Adamian, L., Xu, Y., Rajarathnam, K. and Braun, W. (2002) J. Biomol. NMR, 22, 249-263.
28. Olson, J.B. and Markley, J.L. (1994) J. Biomol. NMR, 4, 385-410.
29. Oschkinat, H. and Croft, D. (1994) Meth. Enzymol., 239, 308-318.
30. Oschkinat, H., Holak, T.A. and Cieslar, C. (1991) Biopolymers, 31, 699-712.
31. Ousterhout, J.K. (1994) Tcl and the Tk Toolkit, Addison-Wesley Professional Computing Series., Reading, MA.
32. Pons, J.L. and Delsuc, M.A. (1999) J. Biomol. NMR, 15, 15-26.
33. Seavey, B.R., Farr, E.A., Westler, W.M. and Markley, J.L. (1991) J. Biomol. NMR, 1, 217-236.
34. Schubert, M., Oschkinat, H. and Schmieder, P. (2001a) J. Magn. Reson., 148, 61-72.
35. Schubert, M., Oschkinat, H. and Schmieder, P. (2001b) J. Magn. Reson., 153, 186-192.
36. Schubert, M., Smalla, M., Schmieder, P. and Oschkinat, H. (1999) J. Magn. Reson., 141, 31-43.
37. Slupsky, C.M., Desautels, M., Huebert, T., Zhao, R., Hemmingsen, S.M. and McIntosh, L.P. (2001) J. Biol. Chem., 276, 5943-5951.
38. Slupsky, C.M., Gentile, L.N., Donaldson, L.W., Mackereth, C.D., Seidel, J.J., Graves, B.J. and McIntosh, L.P. (1998) Proc. Natl. Acad. Sci., 95, 12129-12134.
39. Szyperski, T., Yeh, D.C., Sukumaran, D.K., Moseley, H.N.B. and Montelione, G.T. (2002) Proc. Natl. Acad. Sci., 99, 8009-8014.
40. van de Ven, F.J.M. (1990) J. Magn. Reson., 86, 633-644.
41. Weber, P.L., Malikayil, J.A. and Mueller, L. (1989) J. Magn. Reson., 82, 419-426.
42. Wittekind, M. and Mueller, L. (1993) J. Magn. Reson., B101, 201-205.
43. Wüthruch, K. (1986) NMR of Proteins and Nucleic Acids, John Wiley & Sons, Inc., New York.
44. Xu, J. and Sanctuary, B.C. (1993) J. Chem. Inf. Comput. Sci., 33, 490-500.
45. Xu, J., Straus, S.K., Sanctuary, B.C. and Trimble, L. (1994) J. Magn. Reson., B103, 53-58.
46. Zimmerman, D.E. and Montelione, G.T. (1995) Curr. Opin. Struct. Biol., 5, 664-673.
47. Zimmerman, D.E., Kulikowski, C.A., Huang, Y., Feng, W., Tashiro, M., Shimotakahara, S., Chien, C., Powers, R. and Montelione, G.T. (1997) J. Mol. Biol., 269, 592-610.
48. Zimmerman, D.E., Kulikowski, C.A., Wang, L., Lyons, B. and Montelione, G.T. (1994) J. Biomol. NMR, 4, 241-256.