From cyclohydrolase to oxidoreductase: Discovery of nitrile reductase activity in a common fold

Proceedings of the National Academy of Sciences of the United States of America

Volumn 102, Issue 12, 2005, Pages 4264-4269

  Van Lanen, Steven G ^a   Reader, John S ^b   Swairjo, Manal A ^b   De Crécy Lagard, Valérie ^b,c   Lee, Bobby ^a   Iwata Reuyl, Dirk ^a  

^a PORTLAND STATE UNIVERSITY   (United States)

^b SCRIPPS RESEARCH INSTITUTE   (United States)

^c UNIVERSITY OF FLORIDA   (United States)

Author keywords

Modified base; tRNA

Indexed keywords

7 AMINOMETHYL 7 DEAZAGUANINE; 7 CYANO 7 DEAZAGUANINE; CYCLOHYDROLASE; GUANINE DERIVATIVE; HYDROLASE; NUCLEOSIDE DERIVATIVE; OXIDOREDUCTASE; QUEUOSINE; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE; TRANSFER RNA; UNCLASSIFIED DRUG;

ARTICLE; BACILLUS SUBTILIS; BACTERIUM MUTANT; BIOCHEMISTRY; BIOINFORMATICS; CATALYSIS; ENZYME ACTIVITY; ENZYME ANALYSIS; ESCHERICHIA COLI; GENE SEQUENCE; GENETIC ANALYSIS; MOLECULAR CLONING; NONHUMAN; PREDICTION; PRIORITY JOURNAL; REDUCTION; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY;

ACINETOBACTER; AMINO ACID SEQUENCE; BACILLUS SUBTILIS; BASE SEQUENCE; DNA, BACTERIAL; ESCHERICHIA COLI; GENES, BACTERIAL; GTP CYCLOHYDROLASE; MOLECULAR SEQUENCE DATA; NUCLEOSIDE Q; OXIDOREDUCTASES; PROTEIN FOLDING; RECOMBINANT FUSION PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID;

ACINETOBACTER; BACILLUS SUBTILIS; ESCHERICHIA COLI; EUKARYOTA;

EID: 15444381025     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.0408056102     Document Type: Article

References (49)

1. Coulson, A. F. & Moult, J. (2002) Proteins 46, 61-71.
2. Babbitt, P. C. & Gerlt, J. A. (1997) J. Biol. Chem. 272, 30591-30594.
3. Chothia, C., Gough, J., Vogel, C. & Teichmann, S. A. (2003) Science 300, 1701-1703.
4. Teichmann, S. A., Rison, S. C., Thornton, J. M., Riley, M., Gough, J. & Chothia, C. (2001) J. Mol. Biol. 311, 693-708.
5. Copley, R. R. & Bork, P. (2000) J. Mol. Biol. 303, 627-641.
6. Meng, E. C., Polacco, B. J. & Babbitt, P. C. (2004) Proteins 55, 962-976.
7. Babbitt, P. C. (2003) Curr. Opin. Chem. Biol. 7, 230-237.
8. Kinch, L. N. & Grishin, N. V. (2002) Curr. Opin. Struct. Biol. 12, 400-408.
9. Osterman, A. & Overbeek, R. (2003) Curr. Opin. Chem. Biol. 7, 238-251.
10. Reader, J. S., Metzgar, D., Schimmel, P. & de Crecy-Lagard, V. (2004) J. Biol. Chem. 279, 6280-6285.
11. Yokoyama, S., Miyazawa, T., Iitaka, Y., Yamaizumi, Z., Kasai, H. & Nishimura, S. (1979) Nature 282, 107-109.
12. Kersten, H. & Kersten, W. (1990) in Chromatography and Modification of Nucleosides Part B, eds. Gehrke, C. W. & Kuo, K. C. T. (Elsevier, Amsterdam), pp. B69-B108.
13. Gregson, J. M., Crain, P. F., Edmonds, C. G., Gupta, R., Hashizume, T., Phillipson, D. W. & McCloskey, J. A. (1993) J. Biol. Chem. 268, 10076-10086.
14. Kuchino, Y., Kasai, H., Nihei, K. & Nishimura, S. (1976) Nucleic Acids Res. 3, 393-398.
15. Noguchi, S., Yamaizumi, Z., Ohgi, T., Goto, T., Nishimura, Y., Hirota, Y. & Nishimura, S. (1978) Nucleic Acids Res. 5, 4215-4223.
16. Okada, N., Noguchi, S., Nishimura, S., Ohgi, T., Goto, T., Crain, P. F. & McCloskey, J. A. (1978) Nucleic Acids Res. 5, 2289-2296.
17. Uematsu, T. & Suhadolnik, R. J. (1970) Biochemistry 9, 1260-1266.
18. Suhadolnik, R. J. & Uematsu, T. (1970) J. Biol. Chem. 245, 4365-4371.
19. Smulson, M. E. & Suhadolnik, R. J. (1967) J. Biol. Chem. 242, 2872-2876.
20. Krumdieck, C. L., Shaw, E. & Baugh, C. M. (1966) J. Biol. Chem. 241, 383-387.
21. Iwata-Reuyl, D. (2003) Bioorg. Chem. 31, 24-43.
22. Graham, D. E., Xu, H. & White, R. H. (2002) Biochemistry 41, 15074-15084.
23. Migawa, M. T., Hinkley, J. M., Hoops, G. C. & Townsend, L. B. (1996) Synth. Commun. 26, 3317-3322.
24. Ziegenhorn, J., Senn, M. & Bucher, T. (1976) Clin. Chem. 22, 151-160.
25. Van Lanen, S. G., Kinzie, S. D., Matthieu, S., Link, T., Culp, J. & Iwata-Reuyl, D. (2003) J. Biol. Chem. 278, 10491-10499.
26. Crain, P. F. (1990) Methods Enzymol. 193, 782-790.
27. Metzgar, D., Bacher, J. M., Pezo, V., Reader, J., Doring, V., Schimmel, P., Marliere, P. & Crecy-Lagard, V. d. (2004) Nucleic Acids Res. 32, 5780-5790.
28. Pomerantz, S. C. & McCloskey, J. A. (1990) Methods Enzymol. 193, 796-824.
29. Yim, J. J. & Brown, G. M. (1976) J. Biol. Chem. 251, 5087-5094.
30. Hatakeyama, K. & Yoneyama, T. (1998) Methods Mol. Biol. 100, 265-272.
31. Nar, H., Huber, R., Auerbach, G., Fischer, M., Hosl, C., Ritz, H., Bracher, A., Meining, W., Eberhardt, S. & Bacher, A. (1995) Proc. Natl. Acad. Sci. USA 92, 12120-12125.
32. Foor, F. & Brown, G. M. (1975) J. Biol. Chem. 250, 3545-3551.
33. Frey, B., McCloskey, J. A., Kersten, W. & Kersten, H. (1988) J. Bacteriol. 170, 2078-2082.
34. Akimoto, H., Imaniya, E., Hitaka, T., Nomura, H. & Nishimura, S. (1988) J. Chem. Soc. Perkin Trans. 1, 1637-1644.
35. Smith, E. L., Austen, B. M., Blumenthal, K. M. & Nye, J. F. (1975) in The Enzymes, ed. Boyer, P. D. (Academic, New York), Vol. XI, pp. 293-367.
36. Hoops, G. C., Townsend, L. B. & Garcia, G. A. (1995) Biochemistry 34, 15381-15387.
37. Nar, H., Huber, R., Meining, W., Schmid, C., Weinkauf, S. & Bacher, A. (1995) Structure 3, 459-466.
38. Maier, J., Witter, K., Gutlich, M., Ziegler, I., Werner, T. & Ninnemann, H. (1995) Biochem. Biophys. Res. Commun. 212, 705-711.
39. Basset, G., Quinlivan, E. P., Ziemak, M. J., Diaz De La Garza, R., Fischer, M., Schiffmann, S., Bacher, A., Gregory, J. F., 3rd, & Hanson, A. D. (2002) Proc. Natl. Acad. Sci. USA 99, 12489-12494.
40. Chenna, R., Sugawara, H., Koike, T., Lopez, R., Gibson, T. J., Higgins, D. G. & Thompson, J. D. (2003) Nucleic Acids Res. 31, 3497-3500.
41. Rebelo, J., Auerbach, G., Bader, G., Bracher, A., Nar, H., Hosl, C., Schramek, N., Kaiser, J., Bacher, A., Huber, R. & Fischer, M. (2003) J. Mol. Biol. 326, 503-516.
42. Auerbach, G., Herrmann, A., Bracher, A., Bader, G., Gutlich, M., Fischer, M., Neukamm, M., Garrido-Franco, M., Richardson, J., Nar, H., et al. (2000) Proc. Natl. Acad. Sci. USA 97, 13567-13572.
43. Colloc'h, N., Poupon, A. & Mornon, J. P. (2000) Proteins 39, 142-154.
44. Nar, H., Huber, R., Heizmann, C. W., Thony, B. & Burgisser, D. (1994) EMBO J. 13, 1255-1262.
45. Colloc'h, N., el Hajji, M., Bachet, B., L'Hermite, G., Schiltz, M., Prange, T., Castro, B. & Mornon, J. P. (1997) Nat. Struct. Biol. 4, 947-952.
46. Hennig, M., D'Arcy, A., Hampele, I. C., Page, M. G., Oefner, C. & Dale, G. E. (1998) Nat. Struct. Biol. 5, 357-362.
47. Hofmann, K. & Stoffel, W. (1992) Comput. Appl. Biosci. 8, 331-337.
48. Banerjee, A., Sharma, R. & Banerjee, U. C. (2002) Appl. Microbiol. Biotechnol. 60, 33-44.
49. Gerlt, J. A. & Babbitt, P. C. (2000) Genome Biol. 1, 1-10.