Probing the affinity and specificity of yeast alcohol dehydrogenase I for coenzymes

Archives of Biochemistry and Biophysics

Volumn 367, Issue 2, 1999, Pages 240-249

  Fan, Fan ^a   Plapp, Bryce V ^a  

^a UNIVERSITY OF IOWA   (United States)

Author keywords

Enzyme kinetics; Mutagenesis; NAD; NADP; Nucleotide binding

Indexed keywords

ALCOHOL DEHYDROGENASE;

AMINO ACID SUBSTITUTION; ARTICLE; BINDING AFFINITY; BINDING SITE; ENZYME BINDING; ENZYME SPECIFICITY; ENZYME SUBSTRATE; NONHUMAN; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; YEAST;

EQUUS; EQUUS CABALLUS; SACCHAROMYCES CEREVISIAE;

EID: 0033566181     PISSN: 00039861     EISSN: None     Source Type: Journal    
DOI: 10.1006/abbi.1999.1242     Document Type: Article

References (98)

1. Jörnvall H., Eklund H., Brändén C.-I. J. Biol. Chem. 253:1978;8414-8419.
2. Sun H. W., Plapp B. V. J. Mol. Evol. 34:1992;522-535.
3. Dalziel K. J. Biol. Chem. 238:1963;2850-2858.
4. Dickenson C. J., Dickinson F. M. Biochem. J. 147:1975;303-311.
5. Rossmann M. G., Liljas A., Brändén C.-I., Banaszak L. J. Boyer P. D. The Enzymes. 1975;62-94 Academic Press, Orlando.
6. Wierenga R. K., Maeyer M. C. H. D., Hol W. G. J. Biochemistry. 24:1985;1346-1357.
7. Wierenga R. K., Terpstra P., Hol W. G. J. J. Mol. Biol. 187:1986;101-107.
8. Hanukoglu I., Gutfinger T. Eur. J. Biochem. 180:1989;479-484.
9. Karplus P. A., Schulz G. E. J. Mol. Biol. 195:1987;701-729.
10. Scrutton N. S., Berry A., Perham R. N. Nature. 343:1990;38-43.
11. Baker P. J., Britton K. L., Rice D. W., Rob A., Stillman T. J. J. Mol. Biol. 228:1992;662-671.
12. Lesk A. R. Curr. Opinion Struct. Biol. 5:1995;775-783.
13. Bellamacina C. R. FASEB J. 10:1996;1257-1269.
14. Fan F., Plapp B. V. Biochemistry. 34:1995;4709-4713.
15. Gould R. M., Plapp B. V. Biochemistry. 29:1990;5463-5468.
16. Fan F., Lorenzen J. A., Plapp B. V. Biochemistry. 30:1991;6397-6401.
17. Bennetzen J. L., Hall B. D. J. Biol. Chem. 257:1982;3018-3025.
18. Ganzhorn A. J., Plapp B. V. J. Biol. Chem. 263:1988;5446-5454.
19. Zoller M. J., Smith M. Methods Enzymol. 154:1987;329-350.
20. Kunkel T. A., Roberts J. D., Zakour R. A. Methods Enzymol. 154:1987;367-382.
21. Taylor J. W., Ott J., Eckstein F. Nucleic Acids Res. 13:1985;8764-8785.
22. Sanger F., Nicklen S., Coulson A. R. Proc. Natl. Acad. Sci. USA. 74:1977;5463-5467.
23. Ito H., Fukada Y., Murata K, Kimura A. J. Bacteriol. 153:1983;163-168.
24. Ganzhorn A. J., Green D. W., Hershey A. D., Gould R. M., Plapp B. V. J. Biol. Chem. 262:1987;3754-3761.
25. Cornell N. W. Pharmacol. Biochem. Behav. 18:1983;215-221.
26. den Hollander J. A., Ugurbil K., Brown T. R., Shulman R. G. Biochemistry. 20:1981;5871-5880.
27. Cleland W. W. Methods Enzymol. 63:1979;103-138.
28. Laemmli U. K. Nature. 227:1970;680-685.
29. Plapp B. V. Methods Enzymol. 249:1995;91-119.
30. Eklund H., Brändén C.-I. Dolphin D., Poulson R., Avramovic J. Pyridine Nucleotide Coenzymes: Chemical, Biochemical and Medical Aspects. 1987;51-98 Wiley Interscience, New York.
31. Wratten C. C., Cleland W. W. Biochemistry. 2:1963;935-941.
32. Eklund H., Samama J.-P., Wallén L., Brändén C.-I., Åkeson Å., Jones T. A. J. Mol. Biol. 146:1981;561-587.
33. Sekhar V. C., Plapp B. V. Biochemistry. 27:1988;5082-5088.
34. Dalziel K., Dickinson F. M. Biochem. J. 100:1966;34-46.
35. Brändén C.-I., Jörnvall H., Eklund H., Furugren B. Boyer P. D. The Enzymes. 1975;125-130 Academic Press, Orlando.
36. Jones T. A., Zou J. Y., Cowan S. W., Kjeldgaard M. Acta Cryst. A47:1991;110-119.
37. Bork P., Grunwald C. Eur. J. Biochem. 191:1990;347-358.
38. Eklund H., Samama J.-P., Jones T. A. Biochemistry. 23:1984;5982-5996.
39. Woenckhaus C., Jeck R. Dolphin D., Poulson R., Avramovic O. Pyridine Nucleotide Coenzymes: Chemical, Biochemical, and Medical Aspects. 1987;450-568 Wiley Interscience, New York.
40. Ramaswamy S., Eklund H., Plapp B. V. Biochemistry. 33:1994;5230-5237.
41. Thatcher D. R. Biochem. J. 187:1980;875-886.
42. Gomi T., Date T., Ogawa H., Fujioka M., Akszmit R. R., Backlund P. S. Jr., Cantoni G. L. J. Biol. Chem. 264:1989;16138-16142.
43. Chen Z., Lu L., Shirley M., Lee W. R., Chang S. H. Biochemistry. 29:1990;1112-1118.
44. Hoop M. D., Asgeirsdottir S., Blaauw M., Veenhuis M., Cregg J., Gleeson M., Ab G. Protein Eng. 4:1991;821-829.
45. Mattevi A., Obmoloua G., Sokatch J. R., Betzel C., Hol W. G. J. Proteins. 13:1992;336-351.
46. Bocanegra J. A., Scrutton N. S., Perham R. N. Biochemistry. 32:1993;2737-2740.
47. Thorn J. M., Barton J. D., Dixon N. E., Ollis D. L., Edwards K. J. J. Mol. Biol. 249:1995;785-799.
48. Reddy S. G., Scapin G., Blanchard J. S. Biochemistry. 35:1996;13294-13302.
49. Korkhin Y., Kalb(Gilboa) A. J., Peretz M., Bogin O., Burstein Y., Frolow F. J. Mol. Biol. 278:1998;967-981.
50. Didierjean C., Rahuel-Clermont S., Vitoux B., Dideberg O., Branlant G., Aubry A. J. Mol. Biol. 268:1997;739-759.
51. Nishiyama M., Birktoft J. J., Beppu T. J. Biol. Chem. 268:1993;4656-4660.
52. Mittl P. R. E., Berry A., Scrutton N. S., Perham R. N., Schulz G. E. Protein Sci. 3:1994;1504-1514.
53. Chen R., Greer A., Dean A. M. Proc. Natl. Acad. Sci. USA. 93:1996;12171-12176.
54. Rane M. J., Calvo K. C. Arch. Biochem. Biophys. 338:1997;83-89.
55. Rees-Milton K. J., Jia Z., Green N. C., Bhatia M., El-Kabbani O., Flynn T. G. Arch. Biochem. Biophys. 355:1998;137-144.
56. Holm L., Sander C. Nucleic Acids Res. 26:1998;316-319.
57. Xie P., Parsons S. H., Speckhard D. C., Bosron W. F., Hurley T. D. J. Biol. Chem. 272:1997;18558-18563.
58. Yang Z.-N., Bosron W. F., Hurley T. D. J. Mol. Biol. 265:1997;330-343.
59. Ramaswamy S., El-Ahmad M., Danielsson Ö., Jörnvall H., Eklund H. Protein Sci. 5:1996;663-671.
60. John J., Crennel S. J., Hough D. W., Danson M. J., Taylor G. L. Structure. 2:1994;385-393.
61. Borrás T., Persson B., Jörnvall H. Biochemistry. 28:1989;6133-6139.
62. Edwards K. J., Barton J. D., Rossjohn J., Thorn J. M., Taylor G. L., Ollis D. L. Arch. Biochem. Biophys. 328:1996;173-183.
63. Baker P. J., Turnbull A. P., Sedelnikova S. E., Stillman T. J., Rice D. W. Structure. 3:1995;693-705.
64. Lamzin V. S., Dauter Z., Popov V. O., Harutyunyan E. H., Wilson K. S. J. Mol. Biol. 236:1994;759-785.
65. Dengler U., Niefind K., Kiess M., Schomburg D. J. Mol. Biol. 267:1997;640-660.
66. Goldberg J. D., Yoshida T., Brick P. J. Mol. Biol. 236:1994;1123-1140.
67. Schuller D. J., Grant G. A., Banaszak L. J. Nature Struct. Biol. 2:1995;69-76.
68. Dunn C. R., Wilks H. M., Halsall D. J., Atkinson T., Clarke A. R., Muirhead H., Holbrook J. J. Philos. Trans. Royal Soc. Lond. 332:1991;177-184.
69. Skarżyński T., Moody P. C. E., Wonacott A. J. J. Mol. Biol. 193:1987;171-187.
70. Lin Z. J., Li J., Zhang F. M., Song S. Y., Yang J., Liang S. J., Tsou C. L. Arch. Biochem. Biophys. 302:1993;161-166.
71. Kim H., Hol W. G. J. J. Mol. Biol. 278:1998;5-11.
72. Kelly C. A., Nishiyama M., Ohnishi Y., Beppu T., Birktoft J. J. Biochemistry. 32:1993;3913-3922.
73. Hall M. D., Banaszak L. J. J. Mol. Biol. 232:1993;213-222.
74. Niefind K., Hecht H.-J., Schomburg D. J. Mol. Biol. 251:1995;256-281.
75. Scapin G., Blanchard J. S., Sacchettini J. C. Biochemistry. 34:1995;3502-3512.
76. Scapin G., Reddy S. G., Blanchard J. S. Biochemistry. 35:1996;13540-13551.
77. Adams M. J., Ellis G. H., Gover S., Naylor C. E., Phillips C. Structure. 2:1994;651-668.
78. Rowland P., Basak A. K., Gover S., Levy H. R., Adams M. J. Structure. 2:1994;1073-1087.
79. Levy H. R., Vought V. E., Yin X., Adams M. J. Arch. Biochem. Biophys. 326:1996;145-151.
80. Kingston R. L., Scopes R. K., Baker E. N. Structure. 4:1996;1413-1428.
81. Biou V., Dumas R., Cohen-Addad C., Douce R., Job D., Pebay-Peyroula E. EMBO J. 16:1997;3405-3415.
82. Tanaka N., Nonaka T., Tanabe T., Yoshimoto T., Tsuru D., Mitsui Y. Biochemistry. 35:1996;7715-7730.
83. Ghosh D., Wawrzak Z., Weeks C. M., Duax W. L., Erman M. Structure. 2:1994;629-640.
84. Breton R., Housset D., Mazza C., Fontecilla-Camps J. C. Structure. 4:1996;905-915.
85. Mazza C., Breton R., Housset D., Fontecilla-Camps J. C. J. Biol. Chem. 273:1998;8145-8152.
86. Varughese K. I., Skinner M. M., Whiteley J. M., Matthews D. A., Xuong N. H. Proc. Natl. Acad. Sci. USA. 89:1992;6080-6084.
87. Tanaka N., Nonaka T., Nakanishi M., Deyashiki Y., Hara A., Mitsui Y. Structure. 4:1996;33-45.
88. Anderson A., Jordan D., Schneider G., Lindqvist Y. Structure. 4:1996;1161-1170.
89. Huelsmeyer, M, Hecht, H.-J, Neifind, K, Hofer, B, Timmis, K. N, and, Schomburg, D. 1997, Unpublished PDB entry 1bdb.
90. Benach J., Atrian S., Gonzàlez-Duarte R., Ladenstein R. J. Mol. Biol. 282:1998;383-399.
91. Thoden J. B., Frey P. A., Holden H. M. Biochemistry. 35:1996;5137-5144.
92. Bailey S., Smith K., Fairlamb A. H., Hunter W. N. Eur. J. Biochem. 213:1993;67-75.
93. Theorell H., Yonetani T. Biochem. Z. 338:1963;537-553.
94. Hayes J. E. Jr., Velick S. F. J. Biol. Chem. 207:1954;225-244.
95. Northrop D. B. Methods Enzymol. 87:1982;607-625.
96. Cook P. F. Cook P. F. Enzyme Mechanism from Isotope Effects. 1991;203-230 CRC Press, Boca Raton.
97. Cho H., Ramaswamy S., Plapp B. V. Biochemistry. 36:1997;382-389.
98. Kraulis P. J. Appl. Crystallogr. 24:1991;946-950.