메뉴 건너뛰기




Volumn 1, Issue 3, 2016, Pages 279-286

In Silico Design of Short Peptides as Sensing Elements for Phenolic Compounds

Author keywords

biosensors; chlorogenic acid; molecular dynamics; peptides

Indexed keywords

BIOSENSORS; CIRCULAR DICHROISM SPECTROSCOPY; CYCLIC VOLTAMMETRY; DICHROISM; ELECTRODES; FLUORESCENCE SPECTROSCOPY; MOLECULAR DYNAMICS; PHENOLS;

EID: 85002659303     PISSN: None     EISSN: 23793694     Source Type: Journal    
DOI: 10.1021/acssensors.5b00225     Document Type: Article
Times cited : (13)

References (39)
  • 1
    • 84858701061 scopus 로고    scopus 로고
    • Short peptides as biosensor transducers
    • Pavan, S.; Berti, F. Short peptides as biosensor transducers Anal. Bioanal. Chem. 2012, 402, 3055-3070 10.1007/s00216-011-5589-8
    • (2012) Anal. Bioanal. Chem. , vol.402 , pp. 3055-3070
    • Pavan, S.1    Berti, F.2
  • 2
    • 77951762303 scopus 로고    scopus 로고
    • Enviromentally sensitive fluorescent sensors based on synthetic peptides
    • Choulier, L.; Enander, K. Enviromentally sensitive fluorescent sensors based on synthetic peptides Sensors 2010, 10, 3126-3144 10.3390/s100403126
    • (2010) Sensors , vol.10 , pp. 3126-3144
    • Choulier, L.1    Enander, K.2
  • 3
    • 0034625516 scopus 로고    scopus 로고
    • Synthetic Peptide Mimicking of Binding Sites on Olfactory Receptor Protein for Use in Electronic Nose
    • Wu, T.; Lo, Y. Synthetic Peptide Mimicking of Binding Sites on Olfactory Receptor Protein for Use in Electronic Nose J. Biotechnol. 2000, 80, 63 10.1016/S0168-1656(00)00228-5
    • (2000) J. Biotechnol. , vol.80 , pp. 63
    • Wu, T.1    Lo, Y.2
  • 4
    • 84865722162 scopus 로고    scopus 로고
    • Peptide Receptor-Based Bioelectronic Nose for the Real-Time Determination of Seafood Quality
    • Lim, J. H.; Park, J.; Ahn, J. H.; Jin, H. J.; Hong, S.; Park, T. H. A. Peptide Receptor-Based Bioelectronic Nose for the Real-Time Determination of Seafood Quality Biosens. Bioelectron. 2013, 39, 244-249 10.1016/j.bios.2012.07.054
    • (2013) Biosens. Bioelectron. , vol.39 , pp. 244-249
    • Lim, J.H.1    Park, J.2    Ahn, J.H.3    Jin, H.J.4    Hong, S.5    Park, T.H.A.6
  • 5
    • 84858313748 scopus 로고    scopus 로고
    • Designing short peptides with high affinity for organic molecules: A combined docking, molecular dynamics and Monte Carlo approach
    • Hong Enriquez, R. P.; Pavan, S.; Benedetti, F.; Tossi, A.; Savoini, A.; Berti, F.; Laio, A. Designing short peptides with high affinity for organic molecules: a combined docking, molecular dynamics and Monte Carlo approach J. Chem. Theory Comput. 2012, 8, 1121-1128 10.1021/ct200873y
    • (2012) J. Chem. Theory Comput. , vol.8 , pp. 1121-1128
    • Hong Enriquez, R.P.1    Pavan, S.2    Benedetti, F.3    Tossi, A.4    Savoini, A.5    Berti, F.6    Laio, A.7
  • 6
    • 84944339270 scopus 로고    scopus 로고
    • Designing high-affinity peptides for organic molecules by explicit solvent molecular dynamics
    • Gladich, I.; Rodriguez, A.; Hong Enriquez, R. P.; Guida, F.; Berti, F.; Laio, A. Designing high-affinity peptides for organic molecules by explicit solvent molecular dynamics J. Phys. Chem. B 2015, 119, 12963 10.1021/acs.jpcb.5b06227
    • (2015) J. Phys. Chem. B , vol.119 , pp. 12963
    • Gladich, I.1    Rodriguez, A.2    Hong Enriquez, R.P.3    Guida, F.4    Berti, F.5    Laio, A.6
  • 7
    • 84915745425 scopus 로고    scopus 로고
    • Disposable dual sensor array for simultaneous determination of chlorogenic acid and caffeine from coffee
    • Vasilescu, I.; Eremia, S. A. V.; Penu, R.; Albu, C.; Radoi, A.; Litescu, S. A.; Radu, L. Disposable dual sensor array for simultaneous determination of chlorogenic acid and caffeine from coffee RSC Adv. 2015, 5, 261-268 10.1039/C4RA14464C
    • (2015) RSC Adv. , vol.5 , pp. 261-268
    • Vasilescu, I.1    Eremia, S.A.V.2    Penu, R.3    Albu, C.4    Radoi, A.5    Litescu, S.A.6    Radu, L.7
  • 8
    • 0025741062 scopus 로고
    • The potential role of biosensors in the food and drink industries
    • Luong, J. H.; Groom, C. A.; Male, K. B. The potential role of biosensors in the food and drink industries Biosens. Bioelectron. 1991, 6, 547-54 10.1016/0956-5663(91)80018-S
    • (1991) Biosens. Bioelectron. , vol.6 , pp. 547-554
    • Luong, J.H.1    Groom, C.A.2    Male, K.B.3
  • 9
    • 0035176633 scopus 로고    scopus 로고
    • Chlorogenic acid and caffeic acid are absorbed in humans
    • Olthof, M. R.; Hollman, P. C. H.; Katan, M. Chlorogenic acid and caffeic acid are absorbed in humans J. Nutr. 2001, 131, 66-71
    • (2001) J. Nutr. , vol.131 , pp. 66-71
    • Olthof, M.R.1    Hollman, P.C.H.2    Katan, M.3
  • 11
    • 84902206083 scopus 로고    scopus 로고
    • Lipolytic activity of Svetol, a decaffeinated green coffee bean extract
    • Flanagan, J.; Bily, A.; Rolland, Y.; Roller, M. Lipolytic activity of Svetol, a decaffeinated green coffee bean extract Phytother. Res. 2014, 28, 946-948 10.1002/ptr.5085
    • (2014) Phytother. Res. , vol.28 , pp. 946-948
    • Flanagan, J.1    Bily, A.2    Rolland, Y.3    Roller, M.4
  • 12
    • 84876447076 scopus 로고    scopus 로고
    • The impact of coffee on health
    • Cano-Marquina, A.; Tarin, J. J.; Cano, A. The impact of coffee on health Maturitas 2013, 75, 7-21 10.1016/j.maturitas.2013.02.002
    • (2013) Maturitas , vol.75 , pp. 7-21
    • Cano-Marquina, A.1    Tarin, J.J.2    Cano, A.3
  • 13
    • 84866177315 scopus 로고    scopus 로고
    • Impact of coffee components on inflammatory markers: A review
    • Frost-Meyer, N. J.; Logomarsino, J. V. Impact of coffee components on inflammatory markers: A review J. Funct. Foods 2012, 4, 819-830 10.1016/j.jff.2012.05.010
    • (2012) J. Funct. Foods , vol.4 , pp. 819-830
    • Frost-Meyer, N.J.1    Logomarsino, J.V.2
  • 14
    • 84904970012 scopus 로고    scopus 로고
    • Impact of dose on the bioavailability of coffee chlorogenic acids in humans
    • Stalmach, A.; Williamson, G.; Crozier, A. Impact of dose on the bioavailability of coffee chlorogenic acids in humans Food Funct. 2014, 5, 1727-1737 10.1039/C4FO00316K
    • (2014) Food Funct. , vol.5 , pp. 1727-1737
    • Stalmach, A.1    Williamson, G.2    Crozier, A.3
  • 15
    • 84876440322 scopus 로고    scopus 로고
    • Phenolic compounds: From plants to foods
    • Cheynier, V. Phenolic compounds: from plants to foods Phytochem. Rev. 2012, 11, 153-177 10.1007/s11101-012-9242-8
    • (2012) Phytochem. Rev. , vol.11 , pp. 153-177
    • Cheynier, V.1
  • 16
    • 11844260060 scopus 로고    scopus 로고
    • Chemistry and biological activities of caffeic acid derivatives from Salvia miltiorrhiza
    • Jiang, R. W.; Lau, K. M.; Hon, P. M.; Mak, T. C.; Woo, K. S.; Fung, K. P. Chemistry and biological activities of caffeic acid derivatives from Salvia miltiorrhiza Curr. Med. Chem. 2005, 12, 237-246 10.2174/0929867053363397
    • (2005) Curr. Med. Chem. , vol.12 , pp. 237-246
    • Jiang, R.W.1    Lau, K.M.2    Hon, P.M.3    Mak, T.C.4    Woo, K.S.5    Fung, K.P.6
  • 17
    • 84924182609 scopus 로고    scopus 로고
    • Algorithmic approaches to protein-protein interaction site prediction
    • Aumentado-Armstrong, T. T.; Istrate, B.; Murgita, R. A. Algorithmic approaches to protein-protein interaction site prediction Algorithms Mol. Biol. 2015, 10, 7-21 10.1186/s13015-015-0033-9
    • (2015) Algorithms Mol. Biol. , vol.10 , pp. 7-21
    • Aumentado-Armstrong, T.T.1    Istrate, B.2    Murgita, R.A.3
  • 18
    • 84891421517 scopus 로고    scopus 로고
    • Computational tools for designing and engineering enzymes
    • Damborsky, J.; Brezovsky, J. Computational tools for designing and engineering enzymes Curr. Opin. Chem. Biol. 2014, 19, 8-16 10.1016/j.cbpa.2013.12.003
    • (2014) Curr. Opin. Chem. Biol. , vol.19 , pp. 8-16
    • Damborsky, J.1    Brezovsky, J.2
  • 21
    • 76149120388 scopus 로고    scopus 로고
    • Autodock vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading
    • Trott, O.; Olson, A. J. autodock vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading J. Comput. Chem. 2010, 31, 455-461 10.1002/jcc.21334
    • (2010) J. Comput. Chem. , vol.31 , pp. 455-461
    • Trott, O.1    Olson, A.J.2
  • 22
    • 84905020151 scopus 로고    scopus 로고
    • Fluorescence of Dyes in Solutions with High Absorbance. Inner Filter Effect Correction
    • Fonin, A. V.; Sulatskaya, A. I.; Kuznetsova, I. M.; Turoverov, K. Fluorescence of Dyes in Solutions with High Absorbance. Inner Filter Effect Correction PLoS One 2014, 9, e103878 10.1371/journal.pone.0103878
    • (2014) PLoS One , vol.9 , pp. e103878
    • Fonin, A.V.1    Sulatskaya, A.I.2    Kuznetsova, I.M.3    Turoverov, K.4
  • 23
    • 0027068114 scopus 로고
    • Quantitative Analysis of Cyclic β-turn Models
    • Perczel, A.; Fasman, G. D. Quantitative Analysis of Cyclic β-turn Models Protein Sci. 1992, 1, 378-395 10.1002/pro.5560010310
    • (1992) Protein Sci. , vol.1 , pp. 378-395
    • Perczel, A.1    Fasman, G.D.2
  • 24
    • 45849096536 scopus 로고    scopus 로고
    • Protein Secondary Structure Analyses from Circular Dichroism Spectroscopy: Methods and Reference Databases
    • Whitmore, L.; Wallace, B. A. Protein Secondary Structure Analyses from Circular Dichroism Spectroscopy: Methods and Reference Databases Biopolymers 2008, 89, 392-400 10.1002/bip.20853
    • (2008) Biopolymers , vol.89 , pp. 392-400
    • Whitmore, L.1    Wallace, B.A.2
  • 25
    • 3242877618 scopus 로고    scopus 로고
    • DICHROWEB: An online server for protein secondary structure analyses from circular dichroism spectroscopic data
    • Whitmore, L.; Wallace, B. A. DICHROWEB: an online server for protein secondary structure analyses from circular dichroism spectroscopic data Nucleic Acids Res. 2004, 32, W668-673 10.1093/nar/gkh371
    • (2004) Nucleic Acids Res. , vol.32 , pp. W668-673
    • Whitmore, L.1    Wallace, B.A.2
  • 26
    • 0019873820 scopus 로고
    • Estimation of globular protein secondary structure from circular dichroism
    • Provencher, S. W.; Glockner, J. Estimation of globular protein secondary structure from circular dichroism Biochemistry 1981, 20, 33-37 10.1021/bi00504a006
    • (1981) Biochemistry , vol.20 , pp. 33-37
    • Provencher, S.W.1    Glockner, J.2
  • 28
    • 0023656828 scopus 로고
    • Variable selection method improves the prediction of protein secondary structure from circular dichroism spectra
    • Manavalan, P.; Johnson, W. C., Jr Variable selection method improves the prediction of protein secondary structure from circular dichroism spectra Anal. Biochem. 1987, 167, 76-85 10.1016/0003-2697(87)90135-7
    • (1987) Anal. Biochem. , vol.167 , pp. 76-85
    • Manavalan, P.1    Johnson, W.C.2
  • 30
    • 64549117769 scopus 로고    scopus 로고
    • Effect of ring size on conformation and biological activity of cyclic cationic antimicrobial peptides
    • Jelokhani-Niaraki, M.; Konedjewski, L. H.; Wheaton, L. C.; Hodges, R. S. Effect of ring size on conformation and biological activity of cyclic cationic antimicrobial peptides J. Med. Chem. 2009, 52, 2090-2097 10.1021/jm801648n
    • (2009) J. Med. Chem. , vol.52 , pp. 2090-2097
    • Jelokhani-Niaraki, M.1    Konedjewski, L.H.2    Wheaton, L.C.3    Hodges, R.S.4
  • 31
    • 84876213133 scopus 로고    scopus 로고
    • Synthesis, characterization, conformationa analysis of a cyclic conjugated octreotate peptide and biological evaluation of 99mTc-HYNIC-His3-Octreotate as novel tracer for the imaging of somatostatin receptor-positive tumors
    • Behera, A.; Banerjee, I.; De, K.; Munda, R. N.; Chattopadhayay, S.; Samanta, A.; Sarkar, B.; Ganguly, S.; Misra, M. Synthesis, characterization, conformationa analysis of a cyclic conjugated octreotate peptide and biological evaluation of 99mTc-HYNIC-His3-Octreotate as novel tracer for the imaging of somatostatin receptor-positive tumors Amino Acids 2013, 44, 933-946 10.1007/s00726-012-1423-7
    • (2013) Amino Acids , vol.44 , pp. 933-946
    • Behera, A.1    Banerjee, I.2    De, K.3    Munda, R.N.4    Chattopadhayay, S.5    Samanta, A.6    Sarkar, B.7    Ganguly, S.8    Misra, M.9
  • 32
    • 84881415089 scopus 로고
    • Effect of divalent metal cations on circular dichroism and 1H nuclear magnetic resonance spectra of linear and cyclic peptides having side chain imidazolyl and acetamido groups
    • Kodaka, M.; Shimzu, T.; Hatano, M. Effect of divalent metal cations on circular dichroism and 1H nuclear magnetic resonance spectra of linear and cyclic peptides having side chain imidazolyl and acetamido groups Bull. Chem. Soc. Jpn. 1983, 56, 523-527 10.1246/bcsj.56.523
    • (1983) Bull. Chem. Soc. Jpn. , vol.56 , pp. 523-527
    • Kodaka, M.1    Shimzu, T.2    Hatano, M.3
  • 34
    • 0002785142 scopus 로고
    • Selective and non-selective proton spin lattice relaxation studies of enzyme-substrate interactions
    • Valensin, G.; Kushnir, T.; Navon, G. Selective and non-selective proton spin lattice relaxation studies of enzyme-substrate interactions J. Magn. Reson. 1982, 46, 23-29 10.1016/0022-2364(82)90159-7
    • (1982) J. Magn. Reson. , vol.46 , pp. 23-29
    • Valensin, G.1    Kushnir, T.2    Navon, G.3
  • 35
    • 0025378934 scopus 로고
    • Structure and ligand binding properties of human serum albumin
    • Kragh-Hansen, U. Structure and ligand binding properties of human serum albumin Dan. Med. Bull. 1990, 37, 57-84
    • (1990) Dan. Med. Bull. , vol.37 , pp. 57-84
    • Kragh-Hansen, U.1
  • 36
    • 0002848296 scopus 로고
    • Fluorescence quenching reactions: Probing biological macro-molecular structures
    • Dewey, T. G. Plenum: New York
    • Eftink, M. R. Fluorescence quenching reactions: probing biological macro-molecular structures. In Biophysical and biochemical aspects of fluorescence spectroscopy; Dewey, T. G., Ed.; Plenum: New York, 1991, pp 105-133.
    • (1991) Biophysical and Biochemical Aspects of Fluorescence Spectroscopy , pp. 105-133
    • Eftink, M.R.1
  • 37
    • 1842426864 scopus 로고
    • Oxygen quenching of fluorescence in solution: An experimental study of the diffusion process
    • Ware, W. R. Oxygen quenching of fluorescence in solution: an experimental study of the diffusion process J. Phys. Chem. 1962, 66, 455-458 10.1021/j100809a020
    • (1962) J. Phys. Chem. , vol.66 , pp. 455-458
    • Ware, W.R.1
  • 39
    • 84943170368 scopus 로고    scopus 로고
    • Rapid synthesis of protein conjugated gold nanoclusters and their application in tea polyphenol sensing
    • Wang, S.; Pengchang, L.; Quin, Y.; Chen, Z.; Shen, J. Rapid synthesis of protein conjugated gold nanoclusters and their application in tea polyphenol sensing Sens. Actuators, B 2016, 223, 178-185 10.1016/j.snb.2015.09.058
    • (2016) Sens. Actuators, B , vol.223 , pp. 178-185
    • Wang, S.1    Pengchang, L.2    Quin, Y.3    Chen, Z.4    Shen, J.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.