Generation of novel copper sites by mutation of the axial ligand of amicyanin. Atomic resolution structures and spectroscopic properties

Biochemistry

Volumn 46, Issue 7, 2007, Pages 1900-1912

  Carrell, Christopher J ^a   Ma, John K ^b   Antholine, William E ^c   Hosler, Jonathan P ^b   Mathews, F Scott ^a   Davidson, Victor L ^b  

^a WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF MISSISSIPPI MEDICAL CENTER   (United States)

^c MEDICAL COLLEGE OF WISCONSIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; CRYSTAL STRUCTURE; OXIDATION; PROTEINS; SPECTROSCOPIC ANALYSIS; SULFUR; ZINC;

ACTIVE SITE; ATOMIC RESOLUTION STRUCTURES; LIGANDS; MUTANT PROTEINS;

MUTAGENESIS;

ALANINE; AMICYANIN; CYSTEINE; EDETIC ACID; GLUTAMINE; HISTIDINE; METHIONINE; MUTANT PROTEIN; SULFUR; ZINC;

AMINO ACID SUBSTITUTION; AQUEOUS SOLUTION; ARTICLE; BINDING AFFINITY; CRYSTAL STRUCTURE; ELECTRON SPIN RESONANCE; FREEZING; NONHUMAN; PARACOCCUS DENITRIFICANS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN ASSEMBLY; PROTEIN CONFORMATION; PROTEIN STABILITY; THERMOSTABILITY;

BACTERIAL PROTEINS; BINDING SITES; COPPER; CRYSTALLOGRAPHY, X-RAY; ELECTRON SPIN RESONANCE SPECTROSCOPY; LIGANDS; METALLOPROTEINS; MODELS, MOLECULAR; OXIDATION-REDUCTION; PARACOCCUS DENITRIFICANS; PROTEIN CONFORMATION; SOLUTIONS; SPECTROPHOTOMETRY; TEMPERATURE;

PARACOCCUS DENITRIFICANS;

EID: 33847023097     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi0619674     Document Type: Article

References (37)

1. Adman, E. T. (1991) Copper protein structures, Adv. Protein Chem. 42, 145-197.
2. Baker, E. N. (1988) Structure of azurin from Alcaligenes denitrificans refinement at 1. 8 Å resolution and comparison of the two crystallographically independent molecules, J. Mol. Biol. 203, 1071-1095.
3. Hart, P. J., Nersissian, A. M., Herrmann, R. G., Nalbandyan, R. M., Valentine, J. S., and Eisenberg, D. (1996) A missing link in cupredoxins: crystal structure of cucumber stellacyanin at 1.6 Å resolution, Protein Sci. 5, 2175-2183.
4. Piontek, K., Antorini, M., and Choinowski, T. (2002) Crystal structure of a laccase from the fungus Trametes versicolor at 1.90-Å resolution containing a full complement of coppers, J. Biol. Chem. 277, 37663-37669.
5. Zaitseva, I., Zaitsev, V., Card, G., Moshkov, K., Bax, B., Ralph, A., and Lindley, P. (1996) The X-ray structure of human serum ceruloplasmin at 3.1 Å: nature of the copper centres, J. Biol. Inorg. Chem. 1, 15-23.
6. Cunane, L. M., Chen, Z., Durley, R. C. E., and Mathews, F. S. (1996) X-ray crystal structure of the cupredoxin amicyanin from Paracoccus denitrificans, refined at 1.31 Å resolution, Acta Crystallogr., Sect. D 52, 676-686.
7. Coremans, J., Poluektov, O. G., Groenen, E. J. J., Warmerdam, G. C. M., Canters, G. W., Nar, H., and Messerschmidt, A. (1996) The azurin mutant Met121Gln: A blue-copper proetin with a strong axial ligand, J. Phys. Chem. 100, 19706-19713.
8. Hibino, T., Lee, B. H., and Takabe, T. (1995) Expression and characterization of Met92Gln mutant plastocyanin from Silene pratensis, J. Biochem. 117, 101-106.
9. Nersissian, A. M., Immoos, C., Hill, M. G., Hart, P. J., Williams, G., Herrmann, R. G., and Valentine, J. S. (1998) Uclacyanins, stellacyanins, and plantacyanins are distinct subfamilies of phytocyanins: plant-specific mononuclear blue copper proteins, Protein Sci. 7, 1915-1929.
10. Han, J., Loehr, T. M., Lu, Y., Valentine, J. S., Averill, B. A., and Sanders-Loehr, J. (1993) Resonance Raman excitation profiles indicate multiple Cys-Cu charge transfer transitions in type 1 copper proteins, J. Am. Chem. Soc. 115, 4256-4263.
11. Davidson, V. L. (2001) Pyrroloquinoline quinone (PQQ) from methanol dehydrogenase and tryptophan tryptophylquinone (TTQ) from methylamine dehydrogenase, Adv. Protein Chem. 58, 95-140.
12. Husain, M., and Davidson, V. L. (1985) An inducible periplasmic blue copper protein from Paracoccus denitrificans. Purification, properties, and physiological role, J. Biol. Chem. 260, 14626-14629.
13. Husain, M., and Davidson, V. L. (1986) Characterization of two inducible periplasmic c-type cytochromes from Paracoccus denitrificans, J. Biol. Chem. 261, 8577-8580.
14. Chen, L., Durley, R., Poliks, B. J., Hamada, K., Chen, Z., Mathews, F. S., Davidson, V. L., Satow, Y., Huizinga, E., and Vellieux, F. M. (1992) Crystal structure of an electron-transfer complex between methylamine dehydrogenase and amicyanin, Biochemistry 31, 4959-4964.
15. Chen, L., Durley, R. C., Mathews, F. S., and Davidson, V. L. (1994) Structure of an electron transfer complex: methylamine dehydrogenase, amicyanin, and cytochrome c551i, Science 264, 86-90.
16. Zhu, Z., Cunane, L. M., Chen, Z., Durley, R. C., Mathews, F. S., and Davidson, V. L. (1998) Molecular basis for interprotein complex-dependent effects on the redox properties of amicyanin, Biochemistry 37, 17128-17136.
17. Sun, D., Li, X., Mathews, F. S., and Davidson, V. L. (2005) Site-directed mutagenesis of proline 94 to alanine in amicyanin converts a true electron transfer reaction into one that is kinetically coupled, Biochemistry 44, 7200-7206.
18. Ma, J. K., Carrell, C. J., Mathews, F. S., and Davidson, V. L. (2006) Site-directed mutagenesis of proline 52 to glycine in amicyanin converts a true electron transfer reaction into one that is conformationally gated, Biochemistry 45, 8284-8293.
19. Carrell, C. J., Sun, D., Jiang, S., Davidson, V. L., and Mathews, F. S. (2004) Structural studies of two mutants of amicyanin from Paracoccus denitrificans that stabilize the reduced state of the copper, Biochemistry 43, 9372-9380.
20. Davidson, V. L., Jones, L. H., and Zhu, Z. (1998) Site-directed mutagenesis of Phe 97 to Glu in amicyanin alters the electronic coupling for interprotein electron transfer from quinol methylamine dehydrogenase, Biochemistry 37, 7371-7377.
21. Davidson, V. L., Jones, L. H., Graichen, M. E., Mathews, F. S., and Hosler, J. P. (1997) Factors which stabilize the methylamine dehydrogenase-amicyanin electron transfer protein complex revealed by site-directed mutagenesis, Biochemistry 36, 12733-12738.
22. Chistoserdov, A. Y., Boyd, J., Mathews, F. S., and Lidstrom, M. E. (1992) The genetic organization of the mau gene cluster of the facultative autotroph Paracoccus denitrificans, Biochem. Biophys. Res. Commun. 184, 1181-1189.
23. Diederix, R. E., Canters, G. W., and Dennison, C. (2000) The Met99Gln mutant of amicyanin from Paracoccus versutus, Biochemistry 39, 9551-9560.
24. Lim, L. W., Mathews, F. S., Husain, M., and Davidson, V. L. (1986) Preliminary X-ray crystallographic study of amicyanin from Paracoccus denitrificans, J. Mol. Biol. 189, 257-258.
25. Otwinowski, Z., and Minor, W. (1997) Processing of x-ray diffraction data collected by oscillation methods, Methods Enzymol. 276, 307-326.
26. Sheldrick, G. M., and Schneider, T. R. (1997) SHELXL: High resolution refinement, Methods Enzymol. 277, 319-343.
27. McRee, D. E. (1999) XtalView/Xfit-A versatile program for manipulating atomic coordinates and electron density, J. Struct. Biol. 125, 156-165.
28. Ma, J. K., Bishop, G. R., and Davidson, V. L. (2005) Role of the Type I copper center in determining the stability of amicyanin, Arch. Biochem. Biophys. 444, 27-33.
29. Froncisz, W., and Hyde, J. S. (1982) The loop-gap resonator: A new microwave lumped circuit ESR sample structure, J. Magn. Reson. 47, 515.
30. Hyde, J. S., Newton, M. E., Strangeway, R. A., Camenisch, T. G., and Froncisz, W. (1991) Electron paramagnetic resonance Q-band bridge with GaAS field-effect transistor signal amplifier and low-noise Gunn diode oscillator, Rev. Sci. Instrum. 62, 2969-2975.
31. Husain, M., Davidson, V. L., and Smith, A. J. (1986) Properties of Paracoccus denitrificans amicyanin, Biochemistry 25, 2431-2436.
32. Morris, A. L., MacArthur, M. W., Hutchinson, E. G., and Thornton, J. M. (1992) Stereochemical quality of protein structure coordinates, Proteins 12, 345-364.
33. Roberts, J. E., Brown, T. G., Hoffman, B. M., and Peisach, J. (1980) Electron nuclear double resonance spectra of stellacyanin, a blue copper protein, J. Am. Chem. Soc. 102, 825-829.
34. Romero, A., Hoitink, C. W., Nar, H., Huber, R., Messerschmidt, A., and Canters, G. W. (1993) X-ray analysis and spectroscopic characterization of M121Q azurin. A copper site model for stellacyanin, J. Mol. Biol. 229, 1007-1021.
35. Malmstrom, B. G. (1994) Rack-induced bonding in blue-copper proteins, Eur. J. Biochem. 223, 711-718.
36. Dawson, J. H., Dooley, D. M., and Gray, H. B. (1980) Coordination environment and fluoride binding of type 2 copper in the blue copper protein ascorbate oxidase, Proc. Natl. Acad. Sci. U.S.A. 77, 5028-5031.
37. Brünger, A. T. (1992) Free R-value: a novel statistical quantity for assessing the accuracy of crystal structures, Nature 355, 472-475.