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Ultrafast nonlinear absorption in hemoprotein cytochrome-c and its application to computing

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Abstract

Ultrafast saturable and reverse saturable absorption has been theoretically analyzed in hemoprotein cytochrome-c (cyt-c). The effect of laser pulse intensity and pulse width, absorption cross-section, pulse frequency and lifetime of the excited states has been studied in detail to optimize saturable and reverse saturable absorption. The results have been used to design all-optical femtosecond AND, OR NOT and the universal NOR and NAND logic gates, at 530 and 460 nm respectively. Theoretical simulations are in good agreement with reported experimental results. The designs are the first application of cyt-c based all-optical logic gates with sub-picosecond switch off/on time. The advantages of simple design, ultrafast operation, high nonlinear optical coefficients and stability of cyt-c in a broad spectral range, make it prospective for photonic computing applications.

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References

  • Alwarappan, S., Joshi, R.K., Ram, M.K., Kumar, A.: Electron transfer mechanism of cytochrome c at graphene electrode. Appl. Phys. Lett. 96, 263702 (2010). doi:10.1063/1.3458698

    Article  ADS  Google Scholar 

  • Andrade, A.A., Misoguti, L., Neto, N.M.B., Zilio, S.C., Mendonca, C.R.: Excited state absorption properties in cytochrome c at pico and femtosecond regime. Ann. Opt. XXVI ENFMC 5, 1–4 (2003)

    Google Scholar 

  • Andrade, A.A., Neto, N.M.B., Misoguti, L., De Boni, L., Zilio, S.C., Mendonca, C.R.: Two-photon absorption investigation in reduced and oxidized cyt c solutions. Chem. Phys. Lett. 390, 506–510 (2004)

    Article  ADS  Google Scholar 

  • Badran, H.A., AL-Ahmad, A.Y., AL-Mudhaffer, M.F., Emshary, C.A.: Nonlinear optical responses and limiting behavior of sulfadiazine-chromotropic acid azo dye. Opt. Quant. Electron. 47, 1859–1867 (2015)

    Article  Google Scholar 

  • Bhalla, V., Vij, V., Dhir, A., Kumar, M.: Hetero-oligophenylene-based AIEE material as a multiple probe for biomolecules and metal ions to construct logic circuits: application in bioelectronics and chemionics. Chem. Eur. J. 18, 3765–3772 (2012)

    Article  Google Scholar 

  • Caulfield, H.J., Dolev, S.: Why future supercomputing requires optics. Nat. Photon. 4, 261–263 (2010)

    Article  Google Scholar 

  • Choi, J.-W., Fujihira, M.: Molecular-scale biophotodiode consisting of green fluorescent protein/cytochrome c self-assembled heterolayer. Appl. Phys. Lett. 84, 2187–2189 (2004)

    Article  ADS  Google Scholar 

  • Choi, J.-W., Yoo, C.-J., Nam, Y.-S., Lee, W.H., Oh, S.-Y., Fujihira, M.: Optimal- fabrication conditions of cytochrome c LB Films. Mol. Cryst. Liq. Cryst. 370, 317–320 (2001a)

    Article  Google Scholar 

  • Choi, J.-W., Nam, Y.-S., Park, S.-J., Lee, W.-H., Kim, D., Fujihira, M.: Rectified photocurrent of molecular photodiode consisting of cytochrome c/GFP hetero thin films. Biosens. Bioelectron. 16, 819–825 (2001b)

    Article  Google Scholar 

  • Choi, J.-W., Nam, Y.-S., Kong, B.-S., Lee, W.-H., Park, K.M., Fujihira, M.: Bioelectronics device consisting of cytochrome c/poly-l-aspartic acid adsorbed hetero-Langmuir–Blodgett films. J. Biotech. 94, 225–233 (2002)

    Article  Google Scholar 

  • Clark, J., Lanzani, G.: Organic photonics for communications. Nat. Photon. 4, 438–446 (2010)

    Article  ADS  Google Scholar 

  • De Boni, L., Andrade, A.A., Misoguti, L., Zilio, S.C., Mendonca, C.R.: Excited-state absorption spectroscopy in oxidized cytochrome-c. Opt. Mater. 32, 526–529 (2010)

    Article  ADS  Google Scholar 

  • Deonarine, A.S., Clark, S.M., Konermann, L.: Implementation of multifunctional logic gate based on folding/unfolding transitions of a protein. Future Gener. Comput. Syst. 19, 87–97 (2003)

    Article  MATH  Google Scholar 

  • Fabian, L., Wolff, E.K., Oroszi, L., Ormos, P., Der, A.: Fast integrated optical switching by the protein bacteriorhodopsin. Appl. Phys. Lett. 97, 023305 (2010). doi:10.1063/1.3462940

    Article  ADS  Google Scholar 

  • Fabian, L., Heiner, Z., Mero, M., Kiss, M., Wolff, E.K., Ormos, P., Osvay, K., Der, A.: Protein-based ultrafast photonic switching. Opt. Express 19, 18861–18870 (2011)

    Article  ADS  Google Scholar 

  • Fujita, K., MacFarlane, D.R., Forsyth, M., Fujita, M.Y., Murata, K., Nakamura, N., Ohno, H.: Solubility and stability of cytochrome c in hydrated ionic liquids: effect of oxo acid residues and kosmotropicity. Biomacromolecules 8, 2080–2086 (2007)

    Article  Google Scholar 

  • Hales, J.M., Matichak, J., Barlow, S., Ohira, S., Yesudas, K., Bredas, J.-L., Perry, J.W., Marder, S.R.: Design of polymethine dyes with large third-order optical nonlinearities and loss figures of merit. Science 327, 1485–1488 (2010)

    Article  ADS  Google Scholar 

  • Hampp, N.: Bacteriorhodopsin as a photochromic retinal protein for optical memories. Chem. Rev. 100, 1755–1776 (2000)

    Article  Google Scholar 

  • Han, J., Yao, B., Gao, P., Chen, L., Huang, M.: All-optical logic gates based on photoinduced anisotropy of bacteriorhodopsin film. J. Mod. Opt. 59, 636–642 (2012)

    Article  ADS  Google Scholar 

  • Haque, S.A., Nelson, J.: Toward organic all-optical switching. Science 327, 1466–1467 (2010)

    Article  ADS  Google Scholar 

  • Kim, S.T., Lee, Y.-J., Hwang, Y.-S., Lee, S.: Study on aggregation behavior of cytochrome c-conjugated silver nanoparticles using asymmetrical flow field-flow fractionation. Talanta 132, 939–944 (2015)

    Article  Google Scholar 

  • Lee, B.T., Kim, S.-U., Min, J., Choi, J.-W.: Multilevel biomemory device consisting of recombinant azurin/cytochrome c. Adv. Mater. 22, 510–514 (2010a)

    Article  Google Scholar 

  • Lee, T., Kim, S.-U., Min, J., Choi, J.-W.: Biomolecular memory device composed of cytochrome c on a self-assembled 11-mercaptoundecanoic acid layer. Jpn. J. Appl. Phys. 49, 01AG01 (2010b)

    Google Scholar 

  • Lee, T., Chung, Y.-H., Chen, Q., Min, J., Choi, J.-W.: Fatigue test of cytochrome c self-assembled on a 11-MUA layer based on electrochemical analysis for bioelectronic device. J. Nanosci. Nanotechnol. 15, 5537–5542 (2015)

    Article  Google Scholar 

  • Li, D.-W., Qin, L.-X., Li, Y., Nia, R.P., Long, Y.-T., Chen, H.-Y.: CdSe/ZnS quantum dot-cytochrome c bioconjugates for selective intracellular O2 sensing. Chem. Commun. 47, 8539–8541 (2011)

    Article  Google Scholar 

  • Loh, K.P., Bao, Q., Eda, G., Chhowalla, M.: Graphene oxide as a chemically tunable platform for optical applications. Nat. Chem. 2, 1015–1024 (2010)

    Article  Google Scholar 

  • Lowenich, D., Kleinermanns, K., Karunakaran, V., Kovalenko, S.A.: Transient and Stationary spectroscopic of cytochrome c: ultrafast internal conversion controls photoreduction. Photochem. Photobiol. 84, 193–201 (2008)

    Google Scholar 

  • Mathesz, A., Fabian, L., Valkai, S., Alexandre, D., Marques, P.V.S., Ormos, P., Wolff, E.K., Der, A.: High-speed integrated optical logic based on the protein bacteriorhodopsin. Biosens. Bioelectron. 46, 48–52 (2013)

    Article  Google Scholar 

  • Nam, S., Kim, H., Degenaar, P., Ha, C.-S., Kim, Y.: Extremely slow photocurrent response from hemoprotein films in planar diode geometry. Appl. Phys. Lett. 101, 223701 (2012). doi:10.1063/1.4764948

    Article  ADS  Google Scholar 

  • Ogawa, J., Sulistyaningdyah, W.T., Li, Q.-S., Tanaka, H., Xie, S.-X., Kano, K., Ikeda, T., Shimizu, S.: Two extracellular proteins with alkaline for oxidase activity, a novel cytochrome c and a catalase-peroxidase, from Bacillus sp. No. 13. BioChim. Biophys. Acta Proteins Proteom. 1699, 65–75 (2004)

    Article  Google Scholar 

  • Patila, M., Pavlidis, I.V., Kouloumpis, A., Dimos, K., Spyrou, K., Katapodis, P., Stamatis, H.: Graphene oxide derivatives with variable alkyl chain length and terminal functional groups as supports for stabilization of cytochrome c. Intl. J. Biol. Macromol. 84, 227–235 (2016)

    Article  Google Scholar 

  • Roy, S., Kulshrestha, K.: All-optical switching in plant blue light photoreceptor phototropin. IEEE Trans. Nanobiosci. 5, 281–287 (2006)

    Article  Google Scholar 

  • Roy, S., Kulshrestha, K.: Controlling light with light in blue light plant photoreceptor phototropin. Curr. Sci. 92, 1275–1280 (2007)

    Google Scholar 

  • Roy, S., Sharma, P.: Analysis of all-optical light modulation in proteorhodopsin protein molecules. Optik 119, 192–202 (2008)

    Article  ADS  Google Scholar 

  • Roy, S., Yadav, C.: All-optical ultrafast logic gates based on saturable to reverse saturable absorption transition in CuPc-doped PMMA thin films. Opt. Commun. 284, 4435–4440 (2011)

    Article  ADS  Google Scholar 

  • Roy, S., Yadav, C.: Femtosecond all-optical parallel logic gates based on tunable saturable to reverse saturable absorption in graphene-oxide thin films. Appl. Phys. Lett. 103, 241113 (2013). doi:10.1063/1.4846535

    Article  ADS  Google Scholar 

  • Roy, S., Yadav, C.: All-optical sub-ps switching and parallel logic gates with bacteriorhodopsin (BR) protein and BR-gold nanoparticles. Laser Phys. Lett. 11, 125901 (2014). doi:10.1088/1612-2011/11/12/125901

    Article  ADS  Google Scholar 

  • Roy, S., Kikukawa, T., Sharma, P., Kamo, N.: All-optical switching in pharaonis phoborhodopsin protein molecules. IEEE Trans. Nanobiosci. 5, 178–187 (2006)

    Article  Google Scholar 

  • Roy, S., Prasad, M., Topolancik, J., Vollmer, F.: All-optical switching with bacteriorhodopsin protein coated microcavities and its application to low-power computing circuits. J. Appl. Phys. 107, 053115 (2010). doi:10.1063/1.3310385

    Article  ADS  Google Scholar 

  • Sahoo, D., Bhattacharya, P., Patra, H.K., Mandal, P., Chakravorti, S.: Gold nanoparticle induced conformational changes in heme protein. J. Nanopart. Res. 13, 6755–6760 (2011)

    Article  Google Scholar 

  • Sharma, P., Roy, S., Singh, C.P.: Low power spatial light modulator with pharaonis phoborhodopsin. Thin Solid Films 477, 227–232 (2005)

    Article  ADS  Google Scholar 

  • Simsikova, M., Antalik, M., Kanuchova, M., Skvarla, J.: Cytochrome c conjugated to ZnO–MAA nanoparticles: the study of interaction and influence on protein structure. Int. J. Biol. Macromol. 59, 235–241 (2013)

    Article  Google Scholar 

  • Singh, C.P., Bindra, K.S.: Saturation and reverse saturable absorption in semiconductor doped glass and its application to parallel logic gates. Opt. Quant. Electron. 47, 3313–3321 (2015)

    Article  Google Scholar 

  • Wada, O.: Femtosecond all-optical devices for ultrafast communication and signal processing. New J. Phys. 6, 183 (2004)

    Article  ADS  Google Scholar 

  • Wu, P., Zhao, T., Zhang, J., Wu, L., Hou, X.: Analyte-activable probe for protease based on cytochrome c-capped MN: ZnS quantum dots. Anal. Chem. 86, 10078–10083 (2014)

    Article  Google Scholar 

  • Yadav, C., Roy, S.: Ultrafast all-optical universal logic gates with graphene and graphene-oxide metal porphyrin composites. J. Comput. Electron. 14, 209–213 (2015)

    Article  Google Scholar 

  • Zaidi, S., Hassan, M.I., Islam, A., Ahmad, F.: The role of key residues in structure, function and stability of cytochrome-c. Cell. Mol. Life Sci. 71, 229–255 (2014)

    Article  Google Scholar 

  • Zhu, A., Luo, Y., Tian, Y.: Switching the direction of plasmon induced photocurrents by cytochrome c at Au–TiO2 nanocomposites. Chem. Commun. 42, 6448–6450 (2009)

    Article  Google Scholar 

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Acknowledgments

The authors are grateful to the Department of Science and Technology and the University Grants Commission (UGC), Government of India, for partial support of this work. SR is grateful to ICTP, Trieste, Italy for the award of the Research Associateship. CY thanks UGC for the award of a research fellowship.

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Correspondence to Sukhdev Roy.

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Yadav, C., Roy, S. Ultrafast nonlinear absorption in hemoprotein cytochrome-c and its application to computing. Opt Quant Electron 48, 377 (2016). https://doi.org/10.1007/s11082-016-0643-6

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