Abstract
We designed two mutants of photoprotein Mnemiopsin 2 (Mn2) including M52I and V144I, where the mutations were applied in the EF-hand loops I and III. Far-UV CD measurements demonstrated that the stability of the helices in the wild-type (WT) protein is greater compared with the mutants. Heat-induced denaturation experiments in the apo-form of photoproteins showed that WT Mn2 has higher value of the enthalpy change for the unfolding process, indicating that it has more stabilizing interaction compared with mutants. According to the activity measurement data, both mutants, particularly V144I have lower initial intensity as well as slower decay rate as compared with the WT photoprotein. Importantly, it was found that V144I variant shows 25 nm of red shift in the characteristic wavelengths as compared with the WT photoprotein. This finding can be considered as an advantage for in vivo application of photoprotein for imaging purposes. It concluded that this position on loop III of Mn2 is a hotspot point for characteristic wavelength determination. However, further research on this mutant is needed for making stable variants of Mn2 with novel optical features.
Graphical Abstract
Similar content being viewed by others
References
Haddock, S. H. D., Moline, M. A., & Case, J. F. (2010). Bioluminescence in the sea. Annual Review of Marine Science, 2, 443–493.
Prendergast, F. G. (2000). Bioluminescence illuminated. Nature, 405, 291–292.
Kaskova, Z. M., Tsarkova, A. S., & Yampolsky, I. V. (2016). 1001 lights: Luciferins, luciferases, their mechanisms of action and applications in chemical analysis, biology and medicine. Chemical Society Reviews, 45, 6048–6077.
Rees, J. F., & Thompson, E. M. (1994). Photophores: The analysis of bioluminescent systems. Biochemistry Molecular Biology of Fishes, 3, 215–229.
Burakova, L. P., & Vysotski, E. S. (2019). Recombinant Ca2+-regulated photoproteins of ctenophores: Current knowledge and application prospects. Applied Microbiology and Biotechnology, 103, 5929–5946.
Deng, L., Markova, S. V., Vysotski, E. S., Liu, Z. J., Lee, J., Rose, J., & Wang, B. C. (2004). Crystal structure of a Ca2+-discharged photoprotein. Implications for mechanisms of the calcium trigger and bioluminescence. Journal of Biological Chemistry, 279, 33647–33652.
Dikici, E., Qu, X., Rowe, L., Millner, L., Logue, C., Deo, S. K., Ensor, M., & Daunert, S. (2009). Aequorin variants with improved bioluminescence properties. Protein Engineering, Design & Selection, 22, 243–248.
Blinks, J. R. (1990). Use of photoproteins as intracellular calcium indicators. Environment Health Perspectives, 84, 75–81.
Stepanyuk, G. A., Liu, Z. J., Burakova, L. P., Lee, J., Rose, J., Vysotski, E. S., & Wang, B. C. (2013). Spatial structure of the novel light-sensitive photoprotein berovin from the ctenophore Beroe abyssicola in the Ca2 +-loaded apoprotein conformation state. Biochimica et Biophysica Acta (BBA) Proteins and Proteomics, 1834, 2139–2146.
Burakova, L. P., Natashin, P. V., Malikova, N. P., Niu, F., Pu, M., Vysotski, E. S., & Liu, Z. J. (2016). All Ca2+-binding loops of light-sensitive ctenophore photoprotein berovin bind magnesium ions: The spatial structure of Mg2 +-loaded apo-berovin. Journal of Photochemistry and Photobiology, B: Biology, 154, 57–66.
Head, J. F., Inouye, S., Teranishi, K., & Shimomura, O. (2000). The crystal structure of the photoprotein aequorin at 2.3 A resolution. Nature, 405, 372–376.
Kawasaki, H., Nakayama, S., & Kretsinger, R. H. (1998). Classification and evolution of EF-hand proteins. BioMetals, 11, 277–295.
Nelson, M. R., & Chazin, W. J. (1998). Structures of EF-hand Ca2+-binding proteins: Diversity in the organization, packing and response to Ca2+ binding. BioMetals, 11, 297–318.
Grabarek, Z. (2006). Structural basis for diversity of the EF-hand calcium-binding proteins. Journal of Molecular Biology, 359, 509–525.
Tricoire, L., Tsuzuki, K., Courjean, O., Gibelin, N., Bourout, G., Rossier, J., & Lambolez, B. (2006). Calcium dependence of aequorin bioluminescence dissected by random mutagenesis. Proceedings of the National Academy of Science U. S. A., 103, 9500–9505.
Brini, M. (2008). Calcium-sensitive photoproteins. Methods, 46, 160–166.
Ward, W. W., & Seliger, H. H. (1974). Properties of mnemiopsin and berovin, calcium-activated photoproteins from the ctenophores mnemiopsis species and beroe ovata. Biochemistry, 13, 1500–1510.
Mao, D., Wu, W., Ji, S., Chen, C., Hu, F., Kong, D., Ding, D., & Liu, B. (2017). Chemiluminescence-guided cancer therapy using a chemiexcited photosensitizer. Chem, 3, 991–1007.
Frank, L. A., Borisova, V. V., Markova, S. V., Malikova, N. P., Stepanyuk, G. A., & Vysotski, E. S. (2008). Violet and greenish photoprotein obelin mutants for reporter applications in dual-color assay. Analytical and Bioanalytical Chemistry, 391, 2223–2225.
Rowe, L., Ensor, M., Mehl, R., & Daunert, S. (2010). Modulating the bioluminescence emission of photoproteins by in vivo site-directed incorporation of non-natural amino acids. ACS Chemical Biology, 5, 455–460.
Rowe, L., Dikici, E., & Daunert, S. (2009). Engineering bioluminescent proteins: Expanding their analytical potential. Analytical Chemistry, 81, 8662–8668.
Aghamaali, M. R., Jafarian, V., Sariri, R., Molakarimi, M., Rasti, B., Taghdir, M., Sajedi, R. H., & Hosseinkhani, S. (2011). Cloning, sequencing, expression and structural investigation of mnemiopsin from mnemiopsis leidyi: an attempt toward understanding Ca 2+- regulated photoproteins. Protein Journal, 30, 566–574.
Ward, W. W., & Seliger, H. H. (1974). Extraction and purification of calcium-activated photoproteins from the ctenophores mnemiopsis species and beroe ovata. Biochemistry, 13, 1491–1499.
Ghanbarlou, R. M., Shirdel, S. A., Jafarian, V., & Khalifeh, K. (2018). Molecular mechanisms governing the evolutionary conservation of Glycine in the 6th position of loops ΙΙΙ and ΙV in photoprotein mnemiopsin 2. Journal of Photochemistry Photobiology B Biology, 187, 18–24.
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990). Basic local alignment search tool. Journal of Molecular Biology, 215, 403–410.
Rice, P., Longden, L., & Bleasby, A. (2000). EMBOSS: The European molecular biology open software suite. Trends in Genetics, 16, 276–277.
Higgins, D. G., Thompson, J. D., & Gibson, T. J. (1996). Using CLUSTAL for multiple sequence alignments. Methods in Enzymology, 266, 383–402.
Gouet, P., Courcelle, E., Stuart, D. I., & Métoz, F. (1999). ESPript: Analysis of multiple sequence alignments in PostScript. Bioinformatics, 15, 305–308.
Fiser, A., & Šali, A. (2003). MODELLER: generation and refinement of homology-based protein structure models. Methods in Enzymology, 374, 461–491.
Head, J. F., Inouye, S., Teranishi, K., & Shimomura, O. (2000). The crystal structure of the photoprotein aequorin at 2.3 Å resolution. Nature, 405, 372–376.
Shen, M.-Y., & Sali, A. (2006). Statistical potential for assessment and prediction of protein structures. Protein Science, 15, 2507–2524.
Pettersen, E. F., Goddard, T. D., Huang, C. C., Couch, G. S., Greenblatt, D. M., Meng, E. C., & Ferrin, T. E. (2004). UCSF Chimera—a visualization system for exploratory research and analysis. Journal of Computational Chemistry, 25, 1605–1612.
Jafarian, V., Sariri, R., Hosseinkhani, S., Aghamaali, M. R., Sajedi, R. H., Taghdir, M., & Hassannia, S. (2011). A unique EF-hand motif in mnemiopsin photoprotein from Mnemiopsis leidyi: Implication for its low calcium sensitivity. Biochemical and Biophysical Research Communications, 413, 164–170.
Bradford, M. M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Analytical Biochemistry, 72, 248–254.
Inouye, S., & Sahara-miura, Y. (2016). Expression and characterization of EF-hand I loop mutants of aequorin replaced with other loop sequences of Ca2+-binding proteins: An approach to studying the EF-hand motif of proteins. Journal of Biochemistry, 160, 59–68.
Inouye, S., & Sahara, Y. (2007). Expression, purification and characterization of a photoprotein, clytin, from Clytia gregarium. Protein Expression and Purification, 53, 384–389.
Shirdel, S. A., & Khalifeh, K. (2019). Thermodynamics of protein folding: Methodology, data analysis and interpretation of data. European Biophysics Journal, 48, 305–316.
Calcium dependence of aequorin bioluminescence dissected by random mutagenesis, Herring PJ. Some Featur. Biolumin. Radiol. Thalass. sp. Mar. (1979). Biol. 53213–16.
Jafarian, V., Sajedi, R. H., Hosseinkhani, S., Sariri, R., Taghdir, M., Khalifeh, K., Vafa, M., & Aghamaali, M. R. (2018). Structural and functional consequences of EF-hand I recovery in mnemiopsin 2. International Journal of Biological Macromolecules, 118, 2006–2013.
Vafa, M., Khalifeh, K., & Jafarian, V. (2018). Negative net charge of EF-hand loop I can affect both calcium sensitivity and substrate binding pattern in mnemiopsin 2. Photochemical & Photobiological Sciences, 17, 807–814.
Acknowledgements
We acknowledge the research council of the University of Zanjan.
Author information
Authors and Affiliations
Corresponding authors
Ethics declarations
Statements and declarations
Partial financial support was received from the research council of the University of Zanjan. The authors declare they have no financial interests, and they have no relevant financial or non-financial interests to disclose.
Supplementary Information
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Hematyar, M., Jafarian, V. & Shirdel, A. Longer characteristic wavelength in a novel engineered photoprotein Mnemiopsin 2. Photochem Photobiol Sci 21, 1031–1040 (2022). https://doi.org/10.1007/s43630-022-00191-6
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s43630-022-00191-6