Structural insights into the mechanism of nuclease A, a ββα metal nuclease from Anabaena

Journal of Biological Chemistry

Volumn 280, Issue 30, 2005, Pages 27990-27997

  Ghosh, Mahua ^a   Meiss, Gregor ^b   Pingoud, Alfred ^b   London, Robert E ^a   Pedersen, Lars C ^a  

^a NATIONAL INSTITUTE OF ENVIRONMENTAL HEALTH SCIENCES   (United States)

^b JUSTUS LIEBIG UNIVERSITY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CATALYSIS; DIMERS; DNA; ESCHERICHIA COLI; HYDRATION; MANGANESE; PHASE TRANSITIONS; RNA; TOXICITY; ZINC;

METAL BINDING; NUCELASE A (NUCA); SERRATIA NUCLEASE; STRUCTURAL HOMOLOGY;

ENZYMES;

ARGININE; BACTERIAL ENZYME; DIMER; DOUBLE STRANDED DNA; DOUBLE STRANDED RNA; ENDONUCLEASE; HISTIDINE; MANGANESE; METAL ION; MONOMER; MUTANT PROTEIN; NUCLEASE; NUCLEASE A; RNA; SINGLE STRANDED DNA; SINGLE STRANDED RNA; UNCLASSIFIED DRUG; ZINC ION;

AMINO TERMINAL SEQUENCE; ANABAENA; ARTICLE; COMPARATIVE STUDY; DNA DEGRADATION; ENZYME ACTIVE SITE; ENZYME ACTIVITY; ENZYME MECHANISM; ENZYME STRUCTURE; ESCHERICHIA COLI; GENE SEQUENCE; GENETIC CONSERVATION; MUTATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN FAMILY; PROTEIN MOTIF; SERRATIA;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; ANABAENA; ARGININE; BINDING SITES; CATALYSIS; CATALYTIC DOMAIN; CATIONS; CRYSTALLOGRAPHY, X-RAY; CYSTEINE; DIMERIZATION; DISULFIDES; DNA; DNA MUTATIONAL ANALYSIS; ELECTROSTATICS; ENDONUCLEASES; ESCHERICHIA COLI; HISTIDINE; HYDROLYSIS; IONS; MANGANESE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; OXYGEN; PROTEIN FOLDING; PROTEIN SORTING SIGNALS; PROTEIN STRUCTURE, TERTIARY; RECOMBINANT PROTEINS; RNA; SEQUENCE HOMOLOGY, AMINO ACID; SERRATIA; ZINC;

ANABAENA; ANABAENA SP.; ESCHERICHIA COLI; SERRATIA;

EID: 23044476578     PISSN: 00219258     EISSN: None     Source Type: Journal    
DOI: 10.1074/jbc.M501798200     Document Type: Article

References (54)

1. Muro-Pastor, A. M., Flores, E., Herrero, A., and Wolk, C. P. (1992) Mol. Microbiol. 6, 3021-3030
2. Meiss, G., Franke, I., Gimadutdinow, O., Urbanke, C., and Pingoud, A. (1998) Eur. J. Biochem. 251, 924-934
3. Nestle, M., and Roberts, W. K. (1969) J. Biol. Chem. 244, 5213-5218
4. Vincent, R. D., Hofmann, T. J., and Zassenhaus, H. P. (1988) Nucleic Acids Res. 16, 3297-3312
5. Cote, J., Renaud, J., and Ruiz-Carrillo, A. (1989) J. Biol. Chem. 264, 3301-3310
6. Puyet, A., Greenberg, B., and Lacks, S. A. (1990) J. Mol. Biol. 213, 727-738
7. Benedik, M. J., and Strych, U. (1998) FEMS Microbiol. Lett. 165, 1-13
8. Filimonova, M. N., Baratova, L. A., Vospel'nikova, N. D., Zheltova, A. O., and Leshchinskaia, I. B. (1981) Biokhimiia 46, 1660-1666
9. Friedhoff, P., Gimadutdinow, O., and Pingoud, A. (1994) Nucleic Acids Res. 22, 3280-3287
10. Miller, M. D., and Krause, K. L. (1996) Protein Sci. 5, 24-33
11. Franke, I., Meiss, G., Blecher, D., Gimadutdinow, O., Urbanke, C., and Pingoud, A. (1998) FEBS Lett. 425, 517-522
12. Ball, T. K., Sun, Y., and Benedik, M. J. (1992) Nucleic Acids Res. 20, 4971-4974
13. Miller, M. D., Cai, J., and Krause, K. L. (1999) J. Mol. Biol. 288, 975-987
14. Shlyapnikov, S. V., Lunin, V. V., Perbandt, M., Polyakov, K. M., Lunin, V. Y., Levdikov, V. M., Betzel, C., and Mikhailov, A. M. (2000) Acta Crystallogr. Sect. D Biol. Crystallogr. 56, 567-572
15. Ball, T. K., Saurugger, P. N., and Benedik, M. J. (1987) Gene (Amst.) 57, 183-192
16. James, R., Penfold, C. N., Moore, G. R., and Kleanthous, C. (2002) Biochimie (Paris) 84, 381-389
17. Kleanthous, C., and Walker, D. (2001) Trends Biochem. Sci. 26, 624-631
18. Muro-Pastor, A. M., Herrero, A., and Flores, E. (1997) J. Mol. Biol. 268, 589-598
19. Meiss, G., Gimadutdinow, O., Haberland, B., and Pingoud, A. (2000) J. Mol. Biol. 297, 521-534
20. Kirby, T. W., Mueller, G. A., DeRose, E. F., Lebetkin, M. S., Meiss, G., Pingoud, A., and London, R. E. (2002) J. Mol. Biol. 320, 771-782
21. Doherty, A. J., Worrall, A. F., and Connolly, B. A. (1995) J. Mol. Biol. 251, 366-377
22. Meiss, G., Friedhoff, P., Hahn, M., Gimadutdinow, O., and Pingoud, A. (1995) Biochemistry 34, 11979-11988
23. Meiss, G., Gast, F. U., and Pingoud, A. M. (1999) J. Mol. Biol. 288, 377-390
24. Friedhoff, P., Meiss, G., Kolmes, B., Pieper, U., Gimadutdinow, O., Urbanke, C., and Pingoud, A. (1996) Eur. J. Biochem. 241, 572-580
25. Kuhlmann, U. C., Moore, G. R., James, R., Kleanthous, C., and Hemmings, A. M. (1999) FEBS Lett. 463, 1-2
26. Flick, K. E., Jurica, M. S., Monnat, R. J., Jr., and Stoddard, B. L. (1998) Nature 394, 96-101
27. Friedhoff, P., Franke, I., Meiss, G., Wende, W., Krause, K. L., and Pingoud, A. (1999) Nat. Struct. Biol. 6, 112-113
28. Friedhoff, P., Franke, I., Krause, K. L., and Pingoud, A. (1999) FEBS Lett. 443, 209-214
29. Beifort, M., and Roberts, R. J. (1997) Nucleic Acids Res. 25, 3379-3388
30. Wu, S. I., Lo, S. K., Shao, C. P., Tsai, H. W., and Hor, L. I. (2001) Appl. Environ. Microbiol. 67, 82-88
31. Li, C. L., Hor, L. I., Chang, Z. F., Tsai, L. C., Yang, W. Z., and Yuan, H. S. (2003) EMBO J. 22, 4014-4025
32. Vagin, A., and Teplyakov, A. (1997) J. Appl. Crystallogr. 30, 1022-1025
33. Bailey, S. (1994) Acta Crystallogr. Sect. D 50, 760-763
34. Jones, T. A., Zou, J. Y., Cowan, S. W., and Kjeldgaard, M. (1991) Acta Crystallogr. Sect. A 47, 110-119
35. Brünger, A. T., Adams, P. D., Clore, G. M., DeLano, W. L., Gros, P., Grosse-Kunstleve, R. W., Jiang, J. S., Kuszewski, J., Nilges, M., Pannu, N. S., Read, R. J., Rice, L. M., Simonson, T., and Warren, G. L. (1998) Acta Crystallogr. Sect. D 54, 905-921
36. Laskowski, R. A., MacArthur, M. W., Moss, D. S., and Thornton, J. M. (1993) J. Appl. Crystallogr. 26, 283-291
37. Lovell, S. C., Davis, I. W., Arendall, W. B., III, de Bakker, P. I., Word, J. M., Prisant, M. G., Richardson, J. S., and Richardson, D. C. (2003) Proteins 50, 437-450
38. Galburt, E. A., Chevalier, B., Tang, W., Jurica, M. S., Flick, K. E., Monnat, R. J., Jr., and Stoddard, B. L. (1999) Nat. Struct. Biol. 6, 1096-1099
39. Schäfer, P., Scholz, S. R., Gimadutdinow, O., Cymerman, I. A., Bujnicki, J. M., Ruiz-Carrillo, A., Pingoud, A., and Meiss, G. (2004) J. Mol. Biol. 338, 217-228
40. Hsia, K. C., Chak, K. F., Liang, P. H., Cheng, Y. S., Ku, W. Y., and Yuan, H. S. (2004) Structure (Camb.) 12, 205-214
41. Mate, M. J., and Kleanthous, C. (2004) J. Biol. Chem. 279, 34763-34769
42. Woo, E. J., Kim, Y. G., Kim, M. S., Han, W. D., Shin, S., Robinson, H., Park, S. Y., and Oh, B. H. (2004) Mol. Cell 14, 531-539
43. Raaijmakers, H., Toro, I., Birkenbihl, R., Kemper, B., and Suck, D. (2001) J. Mol. Biol. 308, 311-323
44. Saravanan, M., Bujnicki, J. M., Cymerman, I. A., Rao, D. N., and Nagaraja, V. (2004) Nucleic Acids Res. 32, 6129-6135
45. Shen, B. W., Landthaler, M., Shub, D. A., and Stoddard, B. L. (2004) J. Mol. Biol. 342, 43-56
46. Holm, L., and Sander, C. (1994) Proteins 19, 165-173
47. Franke, I., Meiss, G., and Pingoud, A. (1999) J. Biol. Chem. 274, 825-832
48. Walker, D. C., Georgiou, T., Pommer, A. J., Walker, D., Moore, G. R., Kleanthous, C., and James, R. (2002) Nucleic Acids Res. 30, 3225-3234
49. Golz, S., Christoph, A., Birkenkamp-Demtroder, K., and Kemper, B. (1997) Eur. J. Biochem. 245, 573-580
50. Pommer, A. J., Cal, S., Keeble, A. H., Walker, D., Evans, S. J., Kuhlmann, U. C., Cooper, A., Connolly, B. A., Hemmings, A. M., Moore, G. R., James, R., and Kleanthous, C. (2001) J. Mol. Biol. 314, 735-749
51. Mannino, S. J., Jenkins, C. L., and Raines, R. T. (1999) Biochemistry 38, 16178-16186
52. Giraud-Panis, M. J., and Lilley, D. M. (1996) J. Biol. Chem. 271, 33148-33155
53. Birkenbihl, R. P., and Kemper, B. (1998) EMBO J. 17, 4527-4534
54. Nicholls, A., Sharp, K. A., and Honig, B. (1991) Proteins 11, 281-296