Abstract
Molecular dynamics simulations of laccase immobilized by 4-aminothiophenol (4-ATP) were performed to understand the origin of the enhanced catalytic activity at 350 K of laccase immobilized by self-assembled monolayers. The simulation showed that laccase was stabilized by bonding with 4-ATP. In addition, docking simulation of 2,6-dimethoxyphenol (DMP) to laccase revealed that the hydrophobic interaction energy was increased by bonding with 4-ATP. The variations of docking site size were minor considering the dimensions of DMP molecule. Therefore, it is suggested that the enhanced catalytic activity of laccase with 4-ATP is attributed to the high hydrophobic interaction energy between laccase and DMP.
Similar content being viewed by others
References
Hakamada M, Takahashi M, Furukawa T, Tajima K, Yoshimura K, Chino Y, Mabuchi M (2011) Electrochemical stability of self-assembled monolayers on nanoporous Au. Phys Chem Chem Phys 13:12277–12284
Shulga OV, Jefferson K, Khan AR, D’Souza VT, Liu J, Demchenko AV, Stine KJ (2007) Preparation and characterization of porous gold and its application as a platform for immobilization of acetylcholine esterase. Chem Mater 19:3902–3911
Qin H, Xu C, Huang X, Ding Y, Qu Y, Gao P (2009) Immobilization of laccase on nanoporous gold: comparative studies on the immobilization strategies and the particle size effect. J Phys Chem C 113:2521–2525
Tielens F, Santos E (2010) AuS and SH bond formation/breaking during the formation of alkanethiol SAMs on Au (111): a theoretical study. J Phys Chem C 114:9444–9452
Hakamada M, Takahashi M, Mabuchi M (2012) Enhanced thermal stability of laccase immobilized on monolayer-modified nanoporous Au. Mater Lett 66:4–6
Yaropolov A, Skorobogat’ko OV, Vartanov SS, Varfolomeyev SD (1994) Laccase properties, catalytic mechanism, and applicability. Appl Biochem Biotechnol 49:257–280
Gupta G, Rajendran V, Atanassov P (2003) Laccase biosensor on monolayer-modified gold electrode. Electroanalysis 20:1577–1583
Mena ML, Carralero V, González-Cortés A, Yáñez-Sedeño P, Pingarrón JM (2005) Laccase biosensor based on N-succinimidyl-3-thiopropionate-functionalized gold electrodes. Electroanalysis 23:2147–2155
Deng L, Wang F, Chen H, Shang L, Wang L, Wang T, Shaojun D (2008) A biofuel cell with enhanced performance by multilayer biocatalyst immobilized on highly ordered macroporous electrode. Biosens Bioelectron 24:329–333
Miyazaki K (2005) A hyperthermophilic laccase from Thermus thermophilus HB27. Extremophiles 9:415–425
MacJerell AD Jr, Bashford D, Bellott M et al (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins. J Phys Chem B 102:3586–3616
Garavaglia S, Cambria MT, Miglio M, Ragusa S, Lacobazzi V, Palmieri F, D’Ambrosio C, Scaloni A, Rizzi M (2004) The structure of Rigidoporus lignosus laccase containing a full complement of copper ions, reveals an asymmetrical arrangement for the T3 copper pair. J Mol Biol 342:1519–1531
Berman HM, Westbrook J, Feng Z, Gilliland G et al (2000) The protein data bank. Nucleic Acids Res 28:235–242
Berendsen HJC, Postma JPM, DiNola A, Haak JR (1984) Molecular dynamics with coupling to an external bath. J Chem Phys 81:3684–3690
Dominguez CV, Pita M, De Lacey AL, Shleev S, Cuesta A (2012) Combined ATR-SEIRAS and EC-STM study of the immobilization of laccase on chemically modified Au electrodes. J Phys Chem C 116:16532–16540
Gupta G, Rajendran V, Atanassov P (2004) Bioelectrocatalysis of oxygen reduction reaction by laccase on gold electrodes. Electroanalysis 16:1182–1185
Morris GM, Huey R, Lindstrom W, Sanner MF, Belew RK, Goodsell DS, Oison AJ (2009) AutoDock4 and AutodockTools4: automated docking with selective receptor flexibility. J Comput Chem 30:1639–1662
Martinez-Sotres C, Rutiaga-Quinones JG, Herrera-Bucio R, Gallo G, Lopez-Albarran P (2015) Molecular docking insights into the inhibition of laccase activity by medicarpin. Wood Sci Technol 49:857–868
Srinivasan J, Cheatham TE, Cieplak P, Kollman PA, Case DA (1998) Continuum solvent studies of the stability of DNA, RNA, and phosphoramidate—DNA helices. J Am Chem Soc 120:9401–9409
Trevino SR, Schaefer S, Scholtz JM, Pace CN (2007) Increasing protein conformational stability by optimizing beta-turn sequence. J Mol Biol 373:211–218
Fu H, Grimsley GR, Razvi A, Scholtz JM, Pace CN (2009) Increasing protein stability by improving beta-turns. Proteins 77:491–498
Wang F, Guo C, Liu H-Z, Liu C-Z (2008) Immobilization of Pycnoporous sanguineus laccase by metal affinity adsorption on magnetic chelator particles. J Chem Technol Biotech 83:97–104
Bayramoglu G, Yilmaz M, Arica MY (2010) Preparation and characterization of epoxy-functionalized magnetic chitosan beads: laccase immobilized for degradation of reactive dyes. Bioprocess Biosyst Eng 33:439–448
Fernandes RA, Daniel-da-Silva AL, Tavares APM, Xavier AMRB (2017) EDTA-Cu(II) chelating magnetic nanoparticles as a support for laccase immobilization. Chem Eng Sci 158:599–605
Autore F, Del Vecchio C, Fraternali F, Giardina P, Sannia G, Faraco V (2009) Molecular determinants of peculiar properties of a Pleurotus ostreatus laccase: analysis by site-directed mutagenesis. Enzyme Microb Technol 45:507–513
Vieille C, Zeikus GJ (2001) Hyperthermophilic enzymes: sources, uses, and molecular mechanisms for thermostability. Microbiol Mol Biol Rev 65:1–43
Tokuriki N, Stricher F, Serrano L, Tawfik DS (2008) How protein stability and new functions trade off. PLoS Comput Biol 4:e1000002
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Miyazawa, N., Tanaka, M., Hakamada, M. et al. Molecular dynamics study of laccase immobilized on self-assembled monolayer-modified Au. J Mater Sci 52, 12848–12853 (2017). https://doi.org/10.1007/s10853-017-1392-z
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s10853-017-1392-z