Abstract
Pseudomonas putida L-methionine γ-lyase (PpMGL) has been recognized as an efficient anticancer agent, however, its antigenicity and stability remain as critical challenges for its clinical use. From our studies, Aspergillus flavipes L-methionine γ-lyase (AfMGL) displayed more affordable biochemical properties than PpMGL. Thus, the objective of this work was to comparatively assess the functional properties of AfMGL and PpMGL via stability of their internal aldimine linkage, tautomerism of pyridoxal 5′-phosphate (PLP) and structural stability responsive to physicochemical factors. The internal Schiff base of AfMGL and PpMGL have the same stability to hydroxylamine and human serum albumin. Acidic pHs resulted in strong cleavage of the internal Schiff base, inducing the unfolding of MGLs, compared to neutral-alkaline pHs. At λ 280 nm excitation, both AfMGL and PpMGL have identical fluorescence emission spectra at λ 335 nm for the intrinsic tryptophan and λ 560 nm for the internal Schiff base. The maximum PLP tautomeric shift of ketoenamine to enolimine was detected at acidic pH causing complete enzyme unfolding, subunits dissociation and tautomeric shift of intrinsic PLP, rather than neutral-alkaline ones. The T m of AfMGL and PpMGL in presence of thermal stabilizer/ destabilizer was assayed by DSF. The T m of AfMGL and PpMGL was 73.1 °C and 74.4 °C, respectively, suggesting the higher proximity to the tertiary structure of both enzymes. The T m of AfMGL and PpMGL was slightly increased by trehalose and EDTA in contrast to guanidine HCl and urea. The active site and PLP-binding domains are identically conserved in both AfMGL and PpMGL.
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References
Inoue, H., et al. (1995). Structural analysis of the L-methionine gamma-lyase gene from pseudomonas putida. Journal of Biochemistry, 117(5), 1120–1125.
Hoffman, R. M. (1984). Altered methionine metabolism, DNA methylation and oncogene expression in carcinogenesis. A review and synthesis. Biochimica et Biophysica Acta, 738(1–2), 49–87.
El-Sayed, A. S. (2010). Microbial L-methioninase: production, molecular characterization, and therapeutic applications. Applied Microbiology and Biotechnology, 86(2), 445–467.
Guo, H., et al. (1993). Therapeutic tumor-specific cell cycle block induced by methionine starvation in vivo. Cancer Research, 53(23), 5676–5679.
Yang, Z., et al. (2004). Pharmacokinetics, methionine depletion, and antigenicity of recombinant methioninase in primates. Clinical Cancer Research, 10(6), 2131–2138.
Breillout, F., Antoine, E., & Poupon, M. F. (1990). Methionine dependency of malignant tumors: a possible approach for therapy. Journal of the National Cancer Institute, 82(20), 1628–1632.
Kokkinakis, D. M., et al. (1997). Effect of long-term depletion of plasma methionine on the growth and survival of human brain tumor xenografts in athymic mice. Nutrition and Cancer, 29(3), 195–204.
Kokkinakis, D. M. (2006). Methionine-stress: a pleiotropic approach in enhancing the efficacy of chemotherapy. Cancer Letters, 233(2), 195–207.
Goyer, A., et al. (2007). Functional characterization of a methionine gamma-lyase in Arabidopsis and its implication in an alternative to the reverse trans-sulfuration pathway. Plant & Cell Physiology, 48(2), 232–242.
Hori, H., et al. (1996). Gene cloning and characterization of pseudomonas putida L-methionine-alpha-deamino-gamma-mercaptomethane-lyase. Cancer Research, 56(9), 2116–2122.
Tan, Y., et al. (1996). Anticancer efficacy of methioninase in vivo. Anticancer Research, 16(6c), 3931–3936.
Tan, Y., et al. (1998). Polyethylene glycol conjugation of recombinant methioninase for cancer therapy. Protein Expression and Purification, 12(1), 45–52.
Motoshima, H., et al. (2000). Crystal structure of the pyridoxal 5′-phosphate dependent L-methionine gamma-lyase from pseudomonas putida. Journal of Biochemistry, 128(3), 349–354.
Kudou, D., et al. (2007). Structure of the antitumour enzyme L-methionine gamma-lyase from pseudomonas putida at 1.8 a resolution. Journal of Biochemistry, 141(4), 535–544.
Revtovich, S. V., et al. (2014). Crystal structure of the external aldimine of Citrobacter freundii methionine gamma-lyase with glycine provides insight in mechanisms of two stages of physiological reaction and isotope exchange of alpha- and beta-protons of competitive inhibitors. Biochimie, 101, 161–167.
Takakura, T., et al. (2006). High-level expression and bulk crystallization of recombinant L-methionine gamma-lyase, an anticancer agent. Applied Microbiology and Biotechnology, 70(2), 183–192.
Tan, Y., Xu, M., & Hoffman, R. M. (2010). Broad selective efficacy of recombinant methioninase and polyethylene glycol-modified recombinant methioninase on cancer cells in vitro. Anticancer Research, 30(4), 1041–1046.
Sun, X., et al. (2003). In vivo efficacy of recombinant methioninase is enhanced by the combination of polyethylene glycol conjugation and pyridoxal 5′-phosphate supplementation. Cancer Research, 63(23), 8377–8383.
Calloni, G., et al. (2012). DnaK functions as a central hub in the E. coli chaperone network. Cell Reports, 1(3), 251–264.
Karamitros, C. S., & Konrad, M. (2014). Human 60-kDa lysophospholipase contains an N-terminal L-asparaginase domain that is allosterically regulated by L-asparagine. The Journal of Biological Chemistry, 289(19), 12962–12975.
El-Sayed, A. S. (2011). Purification and characterization of a new L-methioninase from solid cultures of Aspergillus flavipes. Journal of Microbiology, 49(1), 130–140.
El-Sayed, A. S., Shouman, S. A., & Nassrat, H. M. (2012). Pharmacokinetics, immunogenicity and anticancer efficiency of Aspergillus flavipes L-methioninase. Enzyme and Microbial Technology, 51(4), 200–210.
El-Sayed, A. S., Ibrahim, H., & Sitohy, M. Z. (2014). Co-immobilization of PEGylated Aspergillus flavipes L-methioninase with glutamate dehydrogenase: a novel catalytically stable anticancer consortium. Enzyme and Microbial Technology, 54, 59–69.
Ruiz-Herrera, J., & Starkey, R. L. (1969). Dissimilation of methionine by fungi. Journal of Bacteriology, 99(2), 544–551.
Ruiz-Herrera, J., & Starkey, R. L. (1969). Dissimilation of methionine by a demethiolase of Aspergillus species. Journal of Bacteriology, 99(3), 764–770.
Khalaf, S. A., & El-Sayed, A. S. (2009). L-methioninase production by filamentous fungi: I-screening and optimization under submerged conditions. Current Microbiology, 58(3), 219–226.
Han, Q., et al. (1998). High expression, purification, and properties of recombinant homocysteine alpha, gamma-lyase. Protein Expression and Purification, 14(2), 267–274.
Laemmli, U. K. (1970). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature, 227(5259), 680–685.
Nakashima, Y., et al. (2009). Crystallization and preliminary crystallographic analysis of bifunctional gamma-glutamylcysteine synthetase-glutatione synthetase from Streptococcus agalactiae. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications, 65(Pt 7), 678–680.
Matte, A., et al. (2010). Structural analysis of Bacillus Pumilus phenolic acid decarboxylase, a lipocalin-fold enzyme. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications, 66(Pt 11), 1407–1414.
Claesson, R., et al. (1990). Production of volatile sulfur compounds by various Fusobacterium species. Oral Microbiology and Immunology, 5(3), 137–142.
Barrett, J. F., & Curtiss 3rd, R. (1986). Renaturation of dextranase activity from culture supernatant fluids of Streptococcus Sobrinus after sodium dodecylsulfate polyacrylamide gel electrophoresis. Analytical Biochemistry, 158(2), 365–370.
Yoshida, Y., et al. (2010). Production of hydrogen sulfide by two enzymes associated with biosynthesis of homocysteine and lanthionine in Fusobacterium nucleatum subsp. Nucleatum ATCC 25586. Microbiology, 156(Pt 7), 2260–2269.
Yoshida, Y., et al. (2010). Use of a novel assay to evaluate enzymes that produce hydrogen sulfide in Fusobacterium nucleatum. Journal of Microbiological Methods, 80(3), 313–315.
Bettati, S., et al. (2000). Role of pyridoxal 5′-phosphate in the structural stabilization of O-acetylserine sulfhydrylase. The Journal of Biological Chemistry, 275(51), 40244–40251.
Yadav, P. K., Xie, P., & Banerjee, R. (2012). Allosteric communication between the pyridoxal 5′-phosphate (PLP) and heme sites in the H2S generator human cystathionine beta-synthase. The Journal of Biological Chemistry, 287(45), 37611–37620.
Dias, B., & Weimer, B. (1998). Purification and characterization of L-methionine gamma-lyase from brevibacterium linens BL2. Applied and Environmental Microbiology, 64(9), 3327–3331.
Soda, K., et al. (1969). Spectrophotometric determination of pyridoxal and pyridoxal 5′-phosphate with 3-methyl-2-benzothiazolone hydrazone hydrochloride, and their selective assay. The Biochemical Journal, 114(3), 629–633.
McClure Jr., G. D., & Cook, P. F. (1994). Product binding to the alpha-carboxyl subsite results in a conformational change at the active site of O-acetylserine sulfhydrylase-a: evidence from fluorescence spectroscopy. Biochemistry, 33(7), 1674–1683.
Marabotti, A., et al. (2001). Allosteric communication of tryptophan synthase. Functional and regulatory properties of the beta S178P mutant. The Journal of Biological Chemistry, 276(21), 17747–17753.
Zhou, X., & Toney, M. D. (1999). pH studies on the mechanism of the pyridoxal phosphate-dependent dialkylglycine decarboxylase. Biochemistry, 38(1), 311–320.
Vedadi, M., et al. (2006). Chemical screening methods to identify ligands that promote protein stability, protein crystallization, and structure determination. Proceedings of the National Academy of Sciences of the United States of America, 103(43), 15835–15840.
Niesen, F. H., Berglund, H., & Vedadi, M. (2007). The use of differential scanning fluorimetry to detect ligand interactions that promote protein stability. Nature Protocols, 2(9), 2212–2221.
Lea, W. A., & Simeonov, A. (2012). Differential scanning fluorometry signatures as indicators of enzyme inhibitor mode of action: case study of glutathione S-transferase. PloS One, 7(4), e36219.
Grimsley, G.R., et al. (2013). Determining the conformational stability of a protein from urea and thermal unfolding curves. Current Protocols in Protein Science, Chapter 28: p. Unit28.4.
Bansal, S., et al. (2012). Hyperthermophilic asparaginase mutants with enhanced substrate affinity and antineoplastic activity: structural insights on their mechanism of action. The FASEB Journal, 26(3), 1161–1171.
Tie, J. K., et al. (2004). Chemical modification of cysteine residues is a misleading indicator of their status as active site residues in the vitamin K-dependent gamma-glutamyl carboxylation reaction. The Journal of Biological Chemistry, 279(52), 54079–54087.
Reddy, Y. V., & Rao, D. N. (1998). Probing the role of cysteine residues in the EcoP15I DNA methyltransferase. The Journal of Biological Chemistry, 273(37), 23866–23876.
Singh, A. R., et al. (2010). Guanidine hydrochloride and urea-induced unfolding of Brugia malayi hexokinase. European Biophysics Journal, 39(2), 289–297.
Duran, R. M., et al. (2014). The role of Aspergillus flavus veA in the production of extracellular proteins during growth on starch substrates. Applied Microbiology and Biotechnology, 98(11), 5081–5094.
Shevchenko, A., et al. (2006). In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nature Protocols, 1(6), 2856–2860.
Stalder, D., et al. (2013). Phosphorylation of the Rab exchange factor Sec2p directs a switch in regulatory binding partners. Proceedings of the National Academy of Sciences of the United States of America, 110(50), 19995–20002.
Karmodiya, K., et al. (2007). Conformational stability and thermodynamic characterization of homotetrameric plasmodium falciparum beta-ketoacyl-ACP reductase. IUBMB Life, 59(7), 441–449.
Kaushik, J. K., & Bhat, R. (2003). Why is trehalose an exceptional protein stabilizer? An analysis of the thermal stability of proteins in the presence of the compatible osmolyte trehalose. The Journal of Biological Chemistry, 278(29), 26458–26465.
Hayashi, S., & Nakamura, S. (1981). Multiple forms of glucose oxidase with different carbohydrate compositions. Biochimica et Biophysica Acta, 657(1), 40–51.
Kudou, D., et al. (2008). The role of cysteine 116 in the active site of the antitumor enzyme L-methionine gamma-lyase from pseudomonas putida. Bioscience, Biotechnology, and Biochemistry, 72(7), 1722–1730.
Pieters, R., et al. (2011). L-asparaginase treatment in acute lymphoblastic leukemia: a focus on Erwinia asparaginase. Cancer, 117(2), 238–249.
Borkovich, K. A., & Weiss, R. L. (1987). Purification and characterization of arginase from Neurospora crassa. The Journal of Biological Chemistry, 262(15), 7081–7086.
Yamagata, S., Akamatsu, T., & Iwama, T. (2004). Immobilization of Saccharomyces cerevisiae cystathionine gamma-lyase and application of the product to cystathionine synthesis. Applied and Environmental Microbiology, 70(6), 3766–3768.
Suwabe, K., et al. (2011). Identification of an L-methionine gamma-lyase involved in the production of hydrogen sulfide from L-cysteine in Fusobacterium nucleatum subsp. Nucleatum ATCC 25586. Microbiology, 157(Pt 10), 2992–3000.
Burstein, E. A., Vedenkina, N. S., & Ivkova, M. N. (1973). Fluorescence and the location of tryptophan residues in protein molecules. Photochemistry and Photobiology, 18(4), 263–279.
York, S. S. (1972). Kinetic spectroscopic studies of substrate and subunit interactions of tryptophan synthetase. Biochemistry, 11(14), 2733–2740.
Strambini, G. B., et al. (1992). Conformational changes and subunit communication in tryptophan synthase: effect of substrates and substrate analogs. Biochemistry, 31(33), 7535–7542.
Fonda, M. L., Trauss, C., & Guempel, U. M. (1991). The binding of pyridoxal 5′-phosphate to human serum albumin. Archives of Biochemistry and Biophysics, 288(1), 79–86.
Bohney, J. P., Fonda, M. L., & Feldhoff, R. C. (1992). Identification of Lys190 as the primary binding site for pyridoxal 5′-phosphate in human serum albumin. FEBS Letters, 298(2–3), 266–268.
Benci, S., et al. (1999). Time-resolved fluorescence of O-acetylserine sulfhydrylase. Biochimica et Biophysica Acta, 1429(2), 317–330.
Pazicni, S., et al. (2004). The redox behavior of the heme in cystathionine beta-synthase is sensitive to pH. Biochemistry, 43(46), 14684–14695.
Weeks, C. L., et al. (2009). Heme regulation of human cystathionine beta-synthase activity: insights from fluorescence and Raman spectroscopy. Journal of the American Chemical Society, 131(35), 12809–12816.
Amarita, F., et al. (2004). Identification and functional analysis of the gene encoding methionine-gamma-lyase in brevibacterium linens. Applied and Environmental Microbiology, 70(12), 7348–7354.
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El-Sayed, A.S.A., Ruff, L.E., Ghany, S.E.A. et al. Molecular and Spectroscopic Characterization of Aspergillus flavipes and Pseudomonas putida L-Methionine γ-Lyase in Vitro. Appl Biochem Biotechnol 181, 1513–1532 (2017). https://doi.org/10.1007/s12010-016-2299-x
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DOI: https://doi.org/10.1007/s12010-016-2299-x