A cysteine-rich CCG domain contains a novel [4Fe-4S] cluster binding motif as deduced from studies with subunit B of heterodisulfide reductase from Methanothermobacter marburgensis

Biochemistry

Volumn 46, Issue 44, 2007, Pages 12875-12885

  Hamann, Nils ^a   Mander, Gerd J ^a   Shokes, Jacob E ^b   Scott, Robert A ^b   Bennati, Marina ^c   Hedderich, Reiner ^a  

^a MAX PLANCK INSTITUTE FOR TERRESTRIAL MICROBIOLOGY   (Germany)

^b UNIVERSITY OF GEORGIA   (United States)

^c GOETHE UNIVERSITY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CLUSTER BINDING MOTIF; HETERODISULFIDE; HETERODISULFIDE REDUCTASE; METHANOTHERMOBACTER MARBURGENSIS;

ENZYME ACTIVITY; ESCHERICHIA COLI; LIGANDS; PARAMAGNETIC RESONANCE; PROTEINS; X RAY ABSORPTION SPECTROSCOPY;

AMINO ACIDS;

COENZYME B; CYSTEINE; ENZYME; HETERODISULFIDE REDUCTASE; HOLOENZYME; IRON SULFUR PROTEIN; MESNA; OXIDOREDUCTASE; UNCLASSIFIED DRUG; ZINC;

ARCHAEBACTERIUM; ARTICLE; CARBOXY TERMINAL SEQUENCE; CATALYSIS; ELECTRON NUCLEAR DOUBLE RESONANCE; ELECTRON SPIN RESONANCE; ENZYME ACTIVE SITE; ENZYME SUBUNIT; ESCHERICHIA COLI; METHANOTHERMOBACTER MARBURGENSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DOMAIN; SITE DIRECTED MUTAGENESIS;

AMINO ACID MOTIFS; BINDING SITES; CYSTEINE; ESCHERICHIA COLI; IRON; METHANOBACTERIACEAE; MUTAGENESIS, SITE-DIRECTED; MUTANT PROTEINS; OXIDATION-REDUCTION; OXIDOREDUCTASES; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; PROTEIN SUBUNITS; SPECTRUM ANALYSIS; SULFUR; ZINC;

ESCHERICHIA COLI; METHANOTHERMOBACTER MARBURGENSIS;

EID: 35848942614     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi700679u     Document Type: Article

References (42)

1. Hedderich, R., Klimmek, O., Kröger, A., Dirmeier, R., Keller, M., and Stetter, K. O. (1998) Anaerobic respiration with elemental sulfur and with disulfides, FEMS Microbiol. Rev. 22, 353-381.
2. Thauer, R. K. (1998) Biochemistry of methanogenesis: a tribute to Marjory Stephenson, Microbiology 144, 2377-2406.
3. Hedderich, R., Berkessel, A., and Thauer, R. K. (1990) Purification and properties of heterodisulfide reductase from Methanobacterium thermoautotrophicum (strain Marburg), Eur. J. Biochem. 193, 255-261.
4. Künkel, A., Vaupel, M., Heim, S., Thauer, R. K., and Hedderich, R. (1997) Heterodisulfide reductase from methanol-grown cells of Methanosarcina barkeri is not a flavoenzyme, Eur. J. Biochem. 244, 226-234.
5. Simianu, M., Murakami, E., Brewer, J. M., and Ragsdale, S. W. (1998) Purification and properties of the heme- and iron-sulfur-containing heterodisulfide reductase from Methanosarcina thermophila, Biochemistry 37, 10027-10039.
6. Hedderich, R., Hamann, N., and Bennati, M. (2005) Heterodisulfide reductase from methanogenic archaea: a new catalytic role for an iron-sulfur cluster, Biol. Chem. 386, 961-970.
7. Argyrou, A., and Blanchard, J. S. (2004) Flavoprotein disulfide reductases: advances in chemistry and function, Prog. Nucleic Acid Res. Mol Biol. 78, 89-142.
8. Bateman, A., Coin, L., Durbin, R., Finn, R. D., Hollich, V., Griffiths-Jones, S., Khanna, A., Marshall, M., Moxon, S., Sonnhammer, E. L., Studholme, D. J., Yeats, C., and Eddy, S. R. (2004) The Pfam protein families database, Nucleic Acids Res. 32, D138-141.
9. Hedderich, R., Koch, J., Linder, D., and Thauer, R. K. (1994) The heterodisulfide reductase from Methanobacterium thermoautotrophicum contains sequence motifs characteristic of pyridine nucleotide-dependent thioredoxin reductases, Eur. J. Biochem. 225, 253-261.
10. Heim, S., Künkel, A., Thauer, R. K., and Hedderich, R. (1998) Thiol:fumarate reductase (Tfr) from Methanobacterium thermoautotrophicum. Identification of the catalytic sites for fumarate reduction and thiol oxidation, Eur. J. Biochem. 253, 292-299.
11. Meyerdierks, A., Kube, M., Lombardot, T., Knittel, K., Bauer, M., Glockner, F. O., Reinhardt, R., and Amann, R. (2005) Insights into the genomes of archaea mediating the anaerobic oxidation of methane, Environ. Microbiol. 7, 1937-1951.
12. Madadi-Kahkesh, S., Duin, E. C., Heim, S., Albracht, S. P. J., Johnson, M. K., and Hedderich, R. (2001) A paramagnetic species with unique EPR characteristics in the active site of heterodisulfide reductase from methanogenic archaea, Eur. J. Biochem. 268, 2566-2577.
13. Duin, E. C., Madadi-Kahkesh, S., Hedderich, R., Clay, M. D., and Johnson, M. K. (2002) Heterodisulfide reductase from Methanothermobacter marburgensis contains an active-site [4Fe-4S] cluster that is directly involved in mediating heterodisulfide reduction, FEBS Lett. 512, 263-268.
14. 33S]coenzyme M-treated enzyme, FEBS Lett. 538, 81-84.
15. 57Fe ENDOR spectroscopy on the iron-sulfur cluster involved in substrate reduction of heterodisulfide reductase, J. Am. Chem. Soc. 126, 8378-8379.
16. Walters, E. M., and Johnson, M. K. (2004) Ferredoxin:thioredoxin reductase: disulfide reduction catalyzed via novel site-specific [4Fe-4S] cluster chemistry, Photosynth. Res. 79, 249-264.
17. Walters, E. M., Garcia-Serres, R., Jameson, G. N., Glauser, D. A., Bourquin, F., Manieri, W., Schurmann, P., Johnson, M. K., and Huynh, B. H. (2005) Spectroscopic characterization of site-specific [4Fe-4S] cluster chemistry in ferredoximthioredoxin reductase: implications for the catalytic mechanism, J. Am. Chem. Soc. 127, 9612-9624.
18. Ellermann, J., Hedderich, R., Böcher, R., and Thauer, R. K. (1988) The final step in methane formation. Investigations with highly purified methyl-CoM reductase (component C) from Methanobacterium thermoautotrophicum (strain Marburg), Eur. J. Biochem. 172, 669-677.
19. Takahashi, Y., and Nakamura, M. (1999) Functional assignment of the ORF2-iscS-iscU-iscA-hscB-hscA-fdx-ORF3 gene cluster involved in the assembly of Fe-S clusters in Escherichia coli, J. Biochem. 126, 917-926.
20. Nakamura, M., Saeki, K., and Takahashi, Y. (1999) Hyperproduction of recombinant ferredoxins in Escherichia coli by coexpression of the ORF1-ORF2-iscS-iscU-iscA-hscB-hscA-fdx-ORF3 gene cluster, J. Biochem. 126, 10-18.
21. Tong, W. H., Jameson, G. N., Huynh, B. H., and Rouault, T. A. (2003) Subcellular compartmentalization of human Nfu, an iron-sulfur cluster scaffold protein, and its ability to assemble a [4Fe-4S] cluster, Proc. Natl. Acad. Sci. U.S.A. 100, 9762-9767.
22. Sambrook, J., and Russell, D. W. (2001) Molecular cloning: a laboratory manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor.
23. Beinert, H., and Albracht, S. P. J. (1982) New insights, ideas and unanswered questions concerning iron-sulfur clusters in mitochondria, Biochim. Biophys. Acta 683, 245-277.
24. Fish, W. W. (1988) in Methods in Enzymology (Riordan, J. F., and Vallee, B. L., Eds.) pp 357-364, Academic Press Inc., New York.
25. Cline, J. D. (1969) Spectrophotometric determination of hydrogen sulfide in natural waters, Limnol Oceanogr. 14, 454-458.
26. Bradford, M. M. (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding, Anal. Biochem. 72, 248-254.
27. Kriek, M., Peters, L., Takahashi, Y., and Roach, P. L. (2003) Effect of iron-sulfur cluster assembly proteins on the expression of Escherichia coli lipoic acid synthase, Protein Expr. Purif. 28, 241-245.
28. 1+ centers in molybdenum enzymes of the xanthine oxidase family: assignment of signals I and II, Biochemistry 39, 2700-2707.
29. + cluster of pyruvate formate-lyase activating enzyme, J. Am. Chem. Soc. 124, 3143-3151.
30. Beinert, H., and Thomson, A. J. (1983) Three-iron clusters in iron-sulfur proteins, Arch. Biochem. Biophys. 222, 333-361.
31. Brereton, P. S., Duderstadt, R. E., Staples, C. R., Johnson, M. K., and Adams, M. W. (1999) Effect of serinate ligation at each of the iron sites of the [4Fe-4S] cluster of Pyrococcus furiosus ferredoxin on the redox, spectroscopic, and biological properties, Biochemistry 38, 10594-10605.
32. Iwasaki, T., Wakagi, T., and Oshima, T. (1995) Resolution of the aerobic respiratory system of the thermoacidophilic archaeon, Sulfolobus sp. strain 7. III. The archaeal novel respiratory complex II (succinate: caldariellaquinone oxidoreductase complex) inherently lacks heme group, J. Biol. Chem. 270, 30902-30908.
33. Sazanov, L. A., and Hinchliffe, P. (2006) Structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus, Science 311, 1430-1436.
34. Chartron, J., Carroll, K. S., Shiau, C., Gao, H., Leary, J. A., Bertozzi, C. R., and Stout, C. D. (2006) Substrate recognition, protein dynamics, and iron-sulfur cluster in Pseudomonas aeruginosa adenosine 5′-phosphosulfate reductase, J. Mol. Biol. 364, 152-169.
35. Iwasaki, T., Kounosu, A., Aoshima, M., Ohmori, D., Imai, T., Urushiyama, A., Cosper, N. J., and Scott, R. A. (2002) Novel [2Fe-2S]-type redox center C in SdhC of archaeal respiratory complex II from Sulfolobus tokodaii strain 7, J. Biol. Chem. 277, 39642-39648.
36. Gencic, S., LeClerc, G. M., Gorlatova, N., Peariso, K., Penner-Hahn, J. E., and Grahame, D. A. (2001) Zinc-thiolate intermediate in catalysis of methyl group transfer in Methanosarcina barkeri, Biochemistry 40, 13068-13078.
37. Kruer, M., Haumann, M., Meyer-Klaucke, W., Thauer, R. K., and Dau, H. (2002) The role of zinc in the methylation of the coenzyme M thiol group in methanolxoenzyme M methyl-transferase from Methanosarcina barkeri, Eur. J. Biochem. 269, 2117-2123.
38. Boyd, J. M., and Ensign, S. A. (2005) Evidence for a metal-thiolate intermediate in alkyl group transfer from epoxypropane to coenzyme M and cooperative metal ion binding in epoxyalkane: CoM transferase, Biochemistry 44, 13151-13162.
39. Mander, G. J., Duin, E. C., Linder, D., Stetter, K. O., and Hedderich, R. (2002) Purification and characterization of a membrane-bound enzyme complex from the sulfate-reducing archaeon Archaeoglobus fulgidus related to heterodisulfide reductase from methanogenic archaea, Eur. J. Biochem. 269, 1895-1904.
40. Pires, R. H., Venceslau, S. S., Morais, F., Teixeira, M., Xavier, A. V., and Pereira, I. A. (2006) Characterization of the Desulfovibrio desulfuricans ATCC 27774 DsrMKJOP complex - a membrane-bound redox complex involved in the sulfate respiratory pathway, Biochemistry 45, 249-262.
41. Pereira, P. M., Teixeira, M., Xavier, A. V., Louro, R. O., and Pereira, I. A. (2006) The Tmc complex from Desulfovibrio vulgaris hildenborough is involved in transmembrane electron transfer from periplasmic hydrogen oxidation, Biochemistry 45, 10359-10367.
42. Lemos, R. S., Femandes, A. S., Pereira, M. M., Gomes, C. M., and Teixeira, M. (2002) Quinol:fumarate oxidoreductases and succinate:quinone oxidoreductases: phylogenetic relationships, metal centres and membrane attachment, Biochim. Biophys. Acta 1553, 158-170.