Metalloenzymes of the denitrification pathway

Journal of Inorganic Biochemistry

Volumn 100, Issue 12, 2006, Pages 2087-2100

  Tavares, P ^a   Pereira, A S ^a   Moura, J J G ^a   Moura, I ^a  

^a Faculty of Pharmacy of the University of Porto   (Portugal)

Author keywords

Denitrification; Nitrate reductase; Nitric oxide reductase; Nitrite reductase; Nitrous oxide reductase

Indexed keywords

ENZYME; FERTILIZER; NITRATE; NITRATE REDUCTASE; NITRITE REDUCTASE; NITROGEN; NITROUS OXIDE;

AGRICULTURE; ATMOSPHERE; BACTERIUM; DENITRIFICATION; ENERGY; ENVIRONMENTAL FACTOR; NONHUMAN; REVIEW;

ENZYMES; MODELS, MOLECULAR; NITRATE REDUCTASE; NITRATES; NITRITE REDUCTASES; OXIDOREDUCTASES;

EID: 33750959735     PISSN: 01620134     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jinorgbio.2006.09.003     Document Type: Review

References (135)

1. Rutkoviene V., Kusta A., and Cesoniene L. Polish J. Environ. Studies 14 (2005) 631-637
2. Beaudoin N., Saad J.K., Van Laethem C., Machet J.M., Maucorps J., and Mary B. Agr. Ecosyst. Environ. 111 (2005) 292-310
3. Gayon U., and Dupetit G. Mem. Soc. Sci. Phys. Nat. Bordeaux Ser. 3 2 (1886) 201-307
4. Moreno-Vivian C., Cabello P., Martinez-Luque M., Blasco R., and Castillo F. J. Bacteriol. 181 (1999) 6573-6584
5. Richardson D.J., Berks B.C., Russell D.A., Spiro S., and Taylor C.J. Cell Mol. Life Sci. 58 (2001) 165-178
6. Richardson D.J., and Watmough N.J. Curr. Opin. Chem. Biol. 3 (1999) 207-219
7. Stolz J.F., and Basu P. Chembiochem 3 (2002) 198-206
8. Gonzalez P.J., Correia C., Moura I., Brondino C.D., and Moura J.J. J. Inorg. Biochem. 100 (2006) 1015-1023
9. Grove J., Tanapongpipat S., Thomas G., Griffiths L., and Crooke H. J. Cole. Mol. Microbiol. 19 (1996) 467-481
10. Hille R. Chem. Rev. 96 (1996) 2757-2816
11. Moura J.J., Brondino C.D., Trincao J., and Romao M.J. J. Biol. Inorg. Chem. 9 (2004) 791-799
12. Ballard A.L., and Ferguson S.J. Eur. J. Biochem. 174 (1988) 207-212
13. Bonin P., Gilewicz M., and Bertrand J.C. Ann. Inst. Pasteur. Microbiol. 138 (1987) 371-383
14. Chaudhry G.R., Chaiken I.M., and MacGregor C.H. J. Biol. Chem. 258 (1983) 5828-5833
15. Craske A., and Ferguson S.J. Eur. J. Biochem. 158 (1986) 429-436
16. Godfrey C., Greenwood C., Thomson A.J., Bray R.C., and George G.N. Biochem. J. 224 (1984) 601-608
17. Hettmann T., Anemuller S., Borcherding H., Mathe L., Steinrucke P., and Diekmann S. FEBS Lett. 534 (2003) 143-150
18. Philippot L., and Hojberg O. Biochim. Biophys. Acta 1446 (1999) 1-23
19. Vincent S.P., and Bray R.C. Biochem. J. 171 (1978) 639-647
20. Jormakka M., Byrne B., and Iwata S. FEBS Lett. 545 (2003) 25-30
21. Richardson D., and Sawers G. Science 295 (2002) 1842-1843
22. Bertero M.G., Rothery R.A., Palak M., Hou C., Lim D., Blasco F., Weiner J.H., and Strynadka N.C.J. Nature Struct. Biol. 10 (2003) 681-687
23. Jormakka M., Richardson D., Byrne B., and Iwata S. Structure 12 (2004) 95-104
24. George G.N., Bray R.C., Morpeth F.F., and Boxer D.H. Biochem. J. 227 (1985) 925-931
25. Magalon A., Asso M., Guigliarelli B., Rothery R.A., Bertrand P., Giordano G., and Blasco F. Biochemistry 37 (1998) 7363-7370
26. Rothery R.A., Bertero M.G., Cammack R., Palak M., Blasco F., Strynadka N.C.J., and Weiner J.H. Biochemistry 43 (2004) 5324-5333
27. Besson S., Carneiro C., Moura J.J.G., Moura I., and Fauque G. Anaerobe 1 (1995) 219-226
28. Prudencio M., Pereira A.S., Tavares P., Besson S., Cabrito I., Brown K., Samyn B., Devreese B., Van Beeumen J., Rusnak F., Fauque G., Moura J.J.G., Tegoni M., Cambillau C., and Moura I. Biochemistry 39 (2000) 3899-3907
29. Bursakov S.A., Carneiro C., Almendra M.J., Duarte R.O., Caldeira J., Moura I., and Moura J.J.G. Biochem. Biophys. Res. Commun. 239 (1997) 816-822
30. Bursakov S., Liu M.Y., Payne W.J., Legall J., Moura I., and Moura J.J.G. ANAEROBE 1 (1995) 55-60
31. Gonzalez P.J., Rivas M.G., Brondino C.D., Bursakov S.A., Moura I., and Moura J.J. J. Biol. Inorg. Chem. (2006)
32. Dias J.M., Than M.E., Humm A., Huber R., Bourenkov G.P., Bartunik H.D., Bursakov S., Calvete J., Caldeira J., Carneiro C., Moura J.J.G., Moura I., and Romao M.J. Structure 7 (1999) 65-79
33. Arnoux P., Sabaty M., Alric J., Frangioni B., Guigliarelli B., Adriano J.M., and Pignol D. Nat. Struct. Biol. 10 (2003) 928-934
34. Berks B.C., Richardson D.J., Robinson C., Reilly A., Aplin R.T., and Ferguson S.J. Eur. J. Biochem. 220 (1994) 117-124
35. Butler C.S., Charnock J.M., Bennett B., Sears H.J., Reilly A.J., Ferguson S.J., Garner C.D., Lowe D.J., Thomson A.J., Berks B.C., and Richardson D.J. Biochemistry 38 (1999) 9000-9012
36. Frangioni B., Arnoux P., Sabaty M., Pignol D., Bertrand P., Guigliarelli B., and Leger C. J. Am. Chem. Soc. 126 (2004) 1328-1329
37. Jepson B.J.N., Anderson L.J., Rubio L.M., Taylor C.J., Butler C.S., Flores E., Herrero A., Butt J.N., and Richardson D.J. J. Biol. Chem. 279 (2004) 32212-32218
38. Jiang J.F., and Holm R.H. Inorg. Chem. 44 (2005) 1068-1072
39. Nemykin V.N., Davie S.R., Mondal S., Rubie N., Kirk M.L., Somogyi A., and Basu P. J. Am. Chem. Soc. 124 (2002) 756-757
40. Nemykin V.N., Laskin J., and Basu P. J. Am. Chem. Soc. 126 (2004) 8604-8605
41. Coyne M.S., Arunakumari A., Averill B.A., and Tiedje J.M. Appl. Environ. Microbiol. 55 (1989) 2924-2931
42. Zumft W.G. Microbiol. Mol. Biol. Rev. 61 (1997) 533-616
43. Dodd F.E., Van Beeumen J., Eady R.R., and Hasnain S.S. J. Mol. Biol. 282 (1998) 369-382
44. Godden J.W., Turley S., Teller D.C., Adman E.T., Liu M.Y., Payne W.J., and LeGall J. Science 253 (1991) 438-442
45. Inoue T., Gotowda M., Deligeer K.K., Yamaguchi K., Suzuki S., Watanabe H., Gohow M., and Kai Y. J. Biochem. (Tokyo) 124 (1998) 876-879
46. Kukimoto M., Nishiyama M., Murphy M.E., Turley S., Adman E.T., Horinouchi S., and Beppu T. Biochemistry 33 (1994) 5246-5252
47. Kohzuma T., Takase S., Shidara S., and Suzuki S. Chem. Lett. (1993) 149-152
48. Suzuki S., Kataoka K., Yamaguchi K., Inoue T., and Kai Y. Coord. Chem. Rev. 192 (1999) 245-265
49. Dodd F.E., Hasnain S.S., Hunter W.N., Abraham Z.H.L., Debenham M., Kanzler H., Eldridge M., Eady R.R., Ambler R.P., and Smith B.E. Biochemistry 34 (1995) 10180-10186
50. Deligeer K.K., Yamaguchi K., and Suzuki S. Bull. Chem. Soc. Jpn. 73 (2000) 1839-1840
51. Boulanger M.J., Kukimoto M., Nishiyama M., Horinouchi S., and Murphy M.E.P. J. Biol. Chem. 275 (2000) 23957-23964
52. Kataoka K., Furusawa H., Takagi K., Yamaguchi K., and Suzuki S. J. Biochem. 127 (2000) 345-350
53. Kobayashi K., Tagawa S., Deligeer K.K., and Suzuki S. J. Biochem. 126 (1999) 408-412
54. Adman E.T., Godden J.W., and Turley S. J. Biol. Chem. 270 (1995) 27458-27474
55. Suzuki S., Kataoka K., and Yamaguchi K. Accounts Chem. Res. 33 (2000) 728-735
56. Antonyuk S.V., Strange R.W., Sawers G., Eady R.R., and Hasnain S.S. Proc. Natl. Acad. Sci. USA 102 (2005) 12041-12046
57. Cutruzzola F. Biochim. Biophys. Acta - Bioenergetics 1411 (1999) 231-249
58. Huynh B.H., Lui M.C., Moura J.J.G., Moura I., Ljungdahl P.O., Munck E., Payne W.J., Peck H.D., Vandervartanian D., and Legall J. J. Biol. Chem. 257 (1982) 9576-9581
59. Fulop V., Moir J.W.B., Ferguson S.J., and Hajdu J. Cell 81 (1995) 369-377
60. Nurizzo D., Cutruzzola F., Arese M., Bourgeois D., Brunori M., Cambillau C., and Tegoni M. Biochemistry 37 (1998) 13987-13996
61. Nurizzo D., Silvestrini M.C., Mathieu M., Cutruzzola F., Bourgeois D., Fulop V., Hajdu J., Brunori M., Tegoni M., and Cambillau C. Structure 5 (1997) 1157-1171
62. Williams P.A., Fulop V., Garman E.F., Saunders N.F.W., Ferguson S.J., and Hajdu J. Nature 389 (1997) 406-412
63. Silvestrini M.C., Tordi M.G., Musci G., and Brunori M. J. Biol. Chem. 265 (1990) 11783-11787
64. Richardson D.J. Microbiology 146 Pt 3 (2000) 551-571
65. Lopes H., Besson S., Moura I., and Moura J.J. J. Biol. Inorg. Chem. 6 (2001) 55-62
66. Farver O., Kroneck P.M.H., Zumft W.G., and Pecht I. Proc. Natl. Acad. Sci. USA 100 (2003) 7622-7625
67. Wherland S., Farver O., and Pecht I. Chemphyschem 6 (2005) 805-812
68. Heiss B., Frunzke K., and Zumft W.G. J. Bacteriol. 171 (1989) 3288-3297
69. Kastrau D.H., Heiss B., Kroneck P.M., and Zumft W.G. Eur. J. Biochem. 222 (1994) 293-303
70. Hoglen J., and Hollocher T.C. J. Biol. Chem. 264 (1989) 7556-7563
71. Carr G.J., and Ferguson S.J. Biochem. J. 269 (1990) 423-429
72. Carr G.J., and Ferguson S.J. Biochim. Biophys. Acta 1017 (1990) 57-62
73. Sakurai T., Nakashima S., Kataoka K., Seo D., and Sakurai N. Biochem. Biophys. Res. Commun. 333 (2005) 483-487
74. Sakurai T., Sakurai N., Matsumoto H., Hirota S., and Yamauchi O. Biochem. Biophys. Res. Commun. 251 (1998) 248-251
75. Kumita H., Matsuura K., Hino T., Takahashi S., Hori H., Fukumori Y., Morishima I., and Shiro Y. J. Biol. Chem. 279 (2004) 55247-55254
76. Hendriks J., Warne A., Gohlke U., Haltia T., Ludovici C., Lubben M., and Saraste M. Biochemistry 37 (1998) 13102-13109
77. Girsch P., and de Vries S. Biochim. Biophys. Acta 1318 (1997) 202-216
78. Cheesman M.R., Zumft W.G., and Thomson A.J. Biochemistry 37 (1998) 3994-4000
79. Shoun H., and Tanimoto T. J. Biol. Chem. 266 (1991) 11078-11082
80. Cramm R., Pohlmann A., and Friedrich B. FEBS Lett. 460 (1999) 6-10
81. de Vries S., Strampraad M.J., Lu S., Moenne-Loccoz P., and Schroder I. J. Biol. Chem. 278 (2003) 35861-35868
82. Householder T.C., Fozo E.M., Cardinale J.A., and Clark V.L. Infect. Immun. 68 (2000) 5241-5246
83. Hendriks J., Oubrie A., Castresana J., Urbani A., Gemeinhardt S., and Saraste M. Biochim. Biophys. Acta 1459 (2000) 266-273
84. Suharti S., Strampraad M.J., Schröder I., and de Vries S. Biochemistry 40 (2001) 2632-2639
85. Suharti S., Heering H.A., and de Vries S. Biochemistry 43 (2004) 13487-13495
86. Gronberg K.L., Roldan M.D., Prior L., Butland G., Cheesman M.R., Richardson D.J., Spiro S., Thomson A.J., and Watmough N.J. Biochemistry 38 (1999) 13780-13786
87. Gronberg K.L., Watmough N.J., Thomson A.J., Richardson D.J., and Field S.J. J. Biol. Chem. 279 (2004) 17120-17125
88. Butler C.S., Seward H.E., Greenwood C., and Thomson A.J. Biochemistry 36 (1997) 16259-16266
89. Pinakoulaki E., Gemeinhardt S., Saraste M., and Varotsis C. J. Biol. Chem. 277 (2002) 23407-23413
90. Pinakoulaki E., Ohta T., Soulimane T., Kitagawa T., and Varotsis C. J. Am. Chem. Soc. 127 (2005) 15161-15167
91. Blomberg L.M., Blomberg M.R., and Siegbahn P.E. Biochim. Biophys. Acta 1757 (2006) 31-46
92. Ohta T., Kitagawa T., and Varotsis C. Inorg. Chem. 45 (2006) 3187-3190
93. Hendriks J.H., Jasaitis A., Saraste M., and Verkhovsky M.I. Biochemistry 41 (2002) 2331-2340
94. Shapleigh J.P., and Payne W.J. J. Bacteriol. 163 (1985) 837-840
95. Flock U., Reimann J., and Adelroth P. Biochem. Soc. Trans. 34 (2006) 188-190
96. Zumft W.G. J. Inorg. Biochem. 99 (2005) 194-215
97. Daiber A., Shoun H., and Ullrich V. J. Inorg. Biochem. 99 (2005) 185-193
98. Silaghi-Dumitrescu R., Ng K.Y., Viswanathan R., and Kurtz Jr. D.M. Biochemistry 44 (2005) 3572-3579
99. Upadhyay A.K., Hooper A.B., and Hendrich M.P. J. Am. Chem. Soc. 128 (2006) 4330-4337
100. Teraguchi S., and Hollocher T.C. J. Biol. Chem. 264 (1989) 1972-1979
101. Simon J., Einsle O., Kroneck P.M., and Zumft W.G. FEBS Lett. 569 (2004) 7-12
102. Jones A.M., Hollocher T.C., and Knowles R. FEMS Microbiol. Lett. 92 (1992) 205-209
103. Rasmussen T., Berks B.C., Butt J.N., and Thomson A.J. Biochem. J. 364 (2002) 807-815
104. Farrar J.A., Zumft W.G., and Thomson A.J. Proc. Natl. Acad. Sci. USA 95 (1998) 9891-9896
105. Brown K., Tegoni M., Prudencio M., Pereira A.S., Besson S., Moura J.J., Moura I., and Cambillau C. Nat. Struct. Biol. 7 (2000) 191-195
106. Holm L., Saraste M., and Wikstrom M. EMBO J. 6 (1987) 2819-2823
107. Tsukihara T., Aoyama H., Yamashita E., Tomizaki T., Yamaguchi H., Shinzawa-Itoh K., Nakashima R., Yaono R., and Yoshikawa S. Science 269 (1995) 1069-1074
108. Neese F., Zumft W.G., Antholine W.E., and Kroneck P.M.H. J. Am. Chem. Soc. 118 (1996) 8692-8699
109. Gamelin D.R., Randall D.W., Hay M.T., Houser R.P., Mulder T.C., Canters G.W., de Vries S., Tolman W.B., Lu Y., and Solomon E.I. J. Am. Chem. Soc. 120 (1998) 5246-5263
110. Epel B., Slutter C.S., Neese F., Kroneck P.M.H., Zumft W.G., Pecht I., Farver O., Lu Y., and Goldfarb D. J. Am. Chem. Soc. 124 (2002) 8152-8162
111. Farrar J.A., Neese F., Lappalainen P., Kroneck P.M.H., Saraste M., Zumft W.G., and Thomson A.J. J. Am. Chem. Soc. 118 (1996) 11501-11514
112. Kroneck P.M., Antholine W.A., Riester J., and Zumft W.G. FEBS Lett. 242 (1988) 70-74
113. Boogerd F.C., Verseveld H.W.V., and Stouthamer A.H. FEBS Lett. 113 (1980) 279-284
114. Richardson D.J., Bell L.C., Mcewan A.G., Jackson J.B., and Ferguson S.J. Eur. J. Biochem. 199 (1991) 677-683
115. Itoh M., Matsuura K., and Satoh T. FEBS Lett. 251 (1989) 104-108
116. Berks B.C., Baratta D., Richardson D.J., and Ferguson S.J. Eur. J. Biochem. 212 (1993) 467-476
117. Mattila K., and Haltia T. Proteins - Struct. Funct. Bioinform. 59 (2005) 708-722
118. Rasmussen T., Berks B.C., Sanders-Loehr J., Dooley D.M., Zumft W.G., and Thomson A.J. Biochemistry 39 (2000) 12753-12756
119. Farrar J.A., Thomson A.J., Cheesman M.R., Dooley D.M., and Zumft W.G. FEBS Lett. 294 (1991) 11-15
120. Ferretti S., Grossmann J.G., Hasnain S.S., Eady R.R., and Smith B.E. Eur. J. Biochem. 259 (1999) 651-659
121. Charnock J.M., Dreusch A., Korner H., Neese F., Nelson J., Kannt A., Michel H., Garner C.D., Kroneck P.M., and Zumft W.G. Eur. J. Biochem. 267 (2000) 1368-1381
122. Haltia T., Brown K., Tegoni M., Cambillau C., Saraste M., Mattila K., and Djinovic-Carugo K. Biochem. J. 369 (2003) 77-88
123. Alvarez M.L., Ai J., Zumft W., Sanders-Loehr J., and Dooley D.M. J. Am. Chem. Soc. 123 (2001) 576-587
124. Brown K., Djinovic-Carugo K., Haltia T., Cabrito I., Saraste M., Moura J.J., Moura I., Tegoni M., and Cambillau C. J. Biol. Chem. 275 (2000) 41133-41136
125. Chen P., George S.D., Cabrito I., Antholine W.E., Moura J.J.G., Moura I., Hedman B., Hodgson K.O., and Solomon E.I. J. Am. Chem. Soc. 124 (2002) 744-745
126. Oganesyan V.S., Rasmussen T., Fairhurst S., and Thomson A.J. Dalton Trans. (2004) 996-1002
127. Chen P., Cabrito I., Moura J.J.G., Moura I., and Solomon E.I. J. Am. Chem. Soc. 124 (2002) 10497-10507
128. Dooley D.M., Mcguirl M.A., Rosenzweig A.C., Landin J.A., Scott R.A., Zumft W.G., Devlin F., and Stephens P.J. Inorg. Chem. 30 (1991) 3006-3011
129. Ghosh S., Gorelsky S.I., Chen P., Cabrito I., Moura J.J., Moura I., and Solomon E.I. J. Am. Chem. Soc. 125 (2003) 15708-15709
130. Chan J.M., Bollinger J.A., Grewell C.L., and Dooley D.M. J. Am. Chem. Soc. 126 (2004) 3030-3031
131. Gorelsky S.I., Ghosh S., and Solomon E.I. J. Am. Chem. Soc. 128 (2006) 278-290
132. Rasmussen T., Brittain T., Berks B.C., Watmough N.J., and Thomson A.J. Dalton Trans. (2005) 3501-3506
133. Einsle O., and Kroneck P.M. Biol. Chem. 385 (2004) 875-883
134. Zumft W.G. J. Mol. Microbiol. Biotechnol. 10 (2005) 154-166
135. Cutruzzola F., Rinaldo S., Centola F., and Brunori M. IUBMB Life 55 (2003) 617-621