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Volumn 119, Issue 34, 2015, Pages 11099-11105

Spectroscopic and Molecular Docking Study of the Interaction of DNA with a Morpholinium Ionic Liquid

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; CIRCULAR DICHROISM SPECTROSCOPY; DICHROISM; FLUORESCENCE; FLUORESCENCE SPECTROSCOPY; IONIC LIQUIDS; MOLECULAR MODELING; NUCLEIC ACIDS; SPECTROSCOPIC ANALYSIS; THERMODYNAMIC STABILITY;

EID: 84940551318     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/acs.jpcb.5b02939     Document Type: Article
Times cited : (37)

References (44)
  • 1
    • 4644350506 scopus 로고    scopus 로고
    • DNA-Templated Organic Synthesis and Selection of a Library of Macrocycles
    • Gartner, Z. J.; Tse, B. N.; Grubina, R.; Doyon, J. B.; Snyder, T. M.; Liu, D. R. DNA-Templated Organic Synthesis and Selection of a Library of Macrocycles Science 2004, 305, 1601-1605
    • (2004) Science , vol.305 , pp. 1601-1605
    • Gartner, Z.J.1    Tse, B.N.2    Grubina, R.3    Doyon, J.B.4    Snyder, T.M.5    Liu, D.R.6
  • 2
    • 65549134660 scopus 로고    scopus 로고
    • DNA Nanomachines and Their Functional Evolution
    • Liu, H.; Liu, D. DNA Nanomachines and Their Functional Evolution Chem. Commun. 2009, 19, 2625-2636
    • (2009) Chem. Commun. , vol.19 , pp. 2625-2636
    • Liu, H.1    Liu, D.2
  • 3
    • 26844573518 scopus 로고    scopus 로고
    • Preparation of Novel Bio-matrix by the Complexation of DNA and Metal Ions
    • Yamada, M.; Yokota, M.; Kaya, M.; Satoh, S.; Jonganurakkun, B.; Nomizu, M.; Nish, N. Preparation of Novel Bio-matrix by the Complexation of DNA and Metal Ions Polymer 2005, 46, 10102-10112
    • (2005) Polymer , vol.46 , pp. 10102-10112
    • Yamada, M.1    Yokota, M.2    Kaya, M.3    Satoh, S.4    Jonganurakkun, B.5    Nomizu, M.6    Nish, N.7
  • 4
    • 84912525573 scopus 로고    scopus 로고
    • DNA Stability in Ionic Liquids and Deep Eutectic Solvents
    • Zhao, H. DNA Stability in Ionic Liquids and Deep Eutectic Solvents J. Chem. Technol. Biotechnol. 2015, 90, 19-25
    • (2015) J. Chem. Technol. Biotechnol. , vol.90 , pp. 19-25
    • Zhao, H.1
  • 5
    • 33644626078 scopus 로고    scopus 로고
    • NMR Structures of Damaged DNA
    • Lukin, M.; Santos, C. D. L. NMR Structures of Damaged DNA Chem. Rev. 2006, 106, 607-686
    • (2006) Chem. Rev. , vol.106 , pp. 607-686
    • Lukin, M.1    Santos, C.D.L.2
  • 6
    • 84871398589 scopus 로고    scopus 로고
    • Groove Binding Mechanism of Ionic Liquids: A Key Factor in Long-Term Stability of DNA in Hydrated Ionic Liquids?
    • Chandran, A.; Ghoshdastidar, D.; Senapati, S. Groove Binding Mechanism of Ionic Liquids: A Key Factor in Long-Term Stability of DNA in Hydrated Ionic Liquids? J. Am. Chem. Soc. 2012, 134, 20330-20339
    • (2012) J. Am. Chem. Soc. , vol.134 , pp. 20330-20339
    • Chandran, A.1    Ghoshdastidar, D.2    Senapati, S.3
  • 8
    • 0034607637 scopus 로고    scopus 로고
    • Structural Stability of DNA in Nonaqueous Solvents
    • Bonner, G.; Klibanov, A. M. Structural Stability of DNA in Nonaqueous Solvents Biotechnol. Bioeng. 2000, 68, 339-344
    • (2000) Biotechnol. Bioeng. , vol.68 , pp. 339-344
    • Bonner, G.1    Klibanov, A.M.2
  • 9
    • 33748452868 scopus 로고    scopus 로고
    • The Denaturation Transition of DNA in Mixed Solvents
    • Hammouda, B.; Worcester, D. The Denaturation Transition of DNA in Mixed Solvents Biophys. J. 2006, 91, 2237-2242
    • (2006) Biophys. J. , vol.91 , pp. 2237-2242
    • Hammouda, B.1    Worcester, D.2
  • 10
    • 0041931993 scopus 로고    scopus 로고
    • Biocatalysis in Ionic Liquids - Advantages Beyond Green Technology
    • Park, S.; Kazlauskas, R. J. Biocatalysis in Ionic Liquids-Advantages Beyond Green Technology Curr. Opin. Biotechnol. 2003, 14, 432-437
    • (2003) Curr. Opin. Biotechnol. , vol.14 , pp. 432-437
    • Park, S.1    Kazlauskas, R.J.2
  • 11
    • 84940520586 scopus 로고    scopus 로고
    • Fluorescence and Circular Dichroism Spectroscopy of Cytochrome c in Alkylammonium formate Ionic Liquids
    • Wei, W.; Danielson, N. D. Fluorescence and Circular Dichroism Spectroscopy of Cytochrome c in Alkylammonium formate Ionic Liquids Biomacromolecules 2011, 112, 2566-2572
    • (2011) Biomacromolecules , vol.112 , pp. 2566-2572
    • Wei, W.1    Danielson, N.D.2
  • 13
    • 0037251310 scopus 로고    scopus 로고
    • Electrophoresis of DNA in Ionic Liquid Coated Capillary
    • Qin, W.; Li, S. F. Y. Electrophoresis of DNA in Ionic Liquid Coated Capillary Analyst 2003, 128, 37-41
    • (2003) Analyst , vol.128 , pp. 37-41
    • Qin, W.1    Li, S.F.Y.2
  • 14
    • 33846213985 scopus 로고    scopus 로고
    • Direct Extraction of Double-Stranded DNA Into Ionic Liquid 1-Butyl-3-methylimidazolium Hexafluorophosphate and Its Quantification
    • Wang, J. H.; Cheng, D. H.; Chen, X. W.; Du, Z.; Fang, Z. L. Direct Extraction of Double-Stranded DNA Into Ionic Liquid 1-Butyl-3-methylimidazolium Hexafluorophosphate and Its Quantification Anal. Chem. 2007, 79, 620-625
    • (2007) Anal. Chem. , vol.79 , pp. 620-625
    • Wang, J.H.1    Cheng, D.H.2    Chen, X.W.3    Du, Z.4    Fang, Z.L.5
  • 15
    • 77149150927 scopus 로고    scopus 로고
    • Binding Characteristics and Molecular Mechanism of Interaction between Ionic Liquid and DNA
    • Ding, Y.; Zhang, L.; Xie, J.; Guo, R. Binding Characteristics and Molecular Mechanism of Interaction between Ionic Liquid and DNA J. Phys. Chem. B 2010, 114, 2033-2043
    • (2010) J. Phys. Chem. B , vol.114 , pp. 2033-2043
    • Ding, Y.1    Zhang, L.2    Xie, J.3    Guo, R.4
  • 16
    • 50549098087 scopus 로고    scopus 로고
    • Interaction between Room Temperature Ionic Liquid [bmim]BF4 and DNA Investigated by Electrochemical Micromethod
    • Xie, Y. N.; Wang, S. F.; Zhang, Z. L.; Pang, D. W. Interaction Between Room Temperature Ionic Liquid [bmim]BF4 and DNA Investigated by Electrochemical Micromethod J. Phys. Chem. B 2008, 112, 9864-9868
    • (2008) J. Phys. Chem. B , vol.112 , pp. 9864-9868
    • Xie, Y.N.1    Wang, S.F.2    Zhang, Z.L.3    Pang, D.W.4
  • 17
    • 79952418400 scopus 로고    scopus 로고
    • Binding Gibbs Energy of Ionic Liquids to Calf Thymus DNA: A Fluorescence Spectroscopy Study
    • Wang, H.; Wang, J.; Zhang, S. Binding Gibbs Energy of Ionic Liquids to Calf Thymus DNA: A Fluorescence Spectroscopy Study Phys. Chem. Chem. Phys. 2011, 13, 3906-3910
    • (2011) Phys. Chem. Chem. Phys. , vol.13 , pp. 3906-3910
    • Wang, H.1    Wang, J.2    Zhang, S.3
  • 18
    • 34250356845 scopus 로고    scopus 로고
    • An Abnormal Resonance Light Scattering Arising from Ionic-liquid/DNA/ethidium Interactions
    • Cheng, D. H.; Chen, X. W.; Wang, J. H.; Fang, Z. L. An Abnormal Resonance Light Scattering Arising from Ionic-liquid/DNA/ethidium Interactions Chem.-Eur. J. 2007, 13, 4833-4839
    • (2007) Chem. - Eur. J. , vol.13 , pp. 4833-4839
    • Cheng, D.H.1    Chen, X.W.2    Wang, J.H.3    Fang, Z.L.4
  • 19
    • 84902674252 scopus 로고    scopus 로고
    • An Insight into Structure and Stability of DNA in Ionic Liquids from Molecular Dynamics Simulation and Experimental Studies
    • Jumbri, K.; Rahman, M. B. A.; Abdulmalek, E.; Ahmadab, H.; Micaelo, N. M. An Insight into Structure and Stability of DNA in Ionic Liquids from Molecular Dynamics Simulation and Experimental Studies Phys. Chem. Chem. Phys. 2014, 16, 14036-14046
    • (2014) Phys. Chem. Chem. Phys. , vol.16 , pp. 14036-14046
    • Jumbri, K.1    Rahman, M.B.A.2    Abdulmalek, E.3    Ahmadab, H.4    Micaelo, N.M.5
  • 20
    • 84940498502 scopus 로고    scopus 로고
    • note
    • The melting point of [Mor1,2][Br] is 190 °C. Strictly speaking, it is not an ionic liquid. However, as choline dihydrogen phosphate (mp 195 °C) is described as an ionic liquid, we follow the same trend.
  • 22
    • 84891465398 scopus 로고    scopus 로고
    • FCS Study of the Structural Stability of Lysozyme in the Presence of Morpholinium Salts
    • Pabbathi, A.; Ghosh, S.; Samanta, A. FCS Study of the Structural Stability of Lysozyme in the Presence of Morpholinium Salts J. Phys. Chem. B 2013, 117, 16587-16593
    • (2013) J. Phys. Chem. B , vol.117 , pp. 16587-16593
    • Pabbathi, A.1    Ghosh, S.2    Samanta, A.3
  • 23
    • 84862997357 scopus 로고    scopus 로고
    • Diffusion of Organic Dyes in Bovine Serum Albumin Solution Studied by Fluorescence Correlation Spectroscopy
    • Patra, S.; Santhosh, K.; Pabbathi, A.; Samanta, A. Diffusion of Organic Dyes in Bovine Serum Albumin Solution Studied by Fluorescence Correlation Spectroscopy RSC Adv. 2012, 2, 6079-6086
    • (2012) RSC Adv. , vol.2 , pp. 6079-6086
    • Patra, S.1    Santhosh, K.2    Pabbathi, A.3    Samanta, A.4
  • 24
    • 84891359203 scopus 로고    scopus 로고
    • Unveiling the Groove Binding Mechanism of a Biocompatible Naphthalimide-Based Organoselenocyanate with Calf Thymus DNA: An "Ex Vivo" Fluorescence Imaging Application Appended by Biophysical Experiments and Molecular Docking Simulations
    • Mati, S. S.; Roy, S. S.; Chall, S.; Bhattacharya, S.; Bhattacharya, S. C. Unveiling the Groove Binding Mechanism of a Biocompatible Naphthalimide-Based Organoselenocyanate with Calf Thymus DNA: An "Ex Vivo" Fluorescence Imaging Application Appended by Biophysical Experiments and Molecular Docking Simulations J. Phys. Chem. B 2013, 117, 14635-14665
    • (2013) J. Phys. Chem. B , vol.117 , pp. 14635-14665
    • Mati, S.S.1    Roy, S.S.2    Chall, S.3    Bhattacharya, S.4    Bhattacharya, S.C.5
  • 25
    • 84899538469 scopus 로고    scopus 로고
    • Interaction of 6 Mercaptopurine with Calf Thymus DNA -Deciphering the Binding Mode and Photoinduced DNA Damage
    • Rehman, S. U.; Yaseen, Z.; Husain, M. A.; Sarwar, T.; Ishqi, H. M.; Tabish, M. Interaction of 6 Mercaptopurine with Calf Thymus DNA -Deciphering the Binding Mode and Photoinduced DNA Damage PLoS One 2014, 9, e93913
    • (2014) PLoS One , vol.9 , pp. e93913
    • Rehman, S.U.1    Yaseen, Z.2    Husain, M.A.3    Sarwar, T.4    Ishqi, H.M.5    Tabish, M.6
  • 26
    • 84913554212 scopus 로고    scopus 로고
    • Thermodynamic Study of Rhodamine 123-Calf Thymus DNA Interaction: Determination of Calorimetric Enthalpy by Optical Melting Study
    • Masum, A. A.; Chakraborty, M.; Pandya, P.; Halder, U. C.; Islam, M. M.; Mukhopadhyay, S. Thermodynamic Study of Rhodamine 123-Calf Thymus DNA Interaction: Determination of Calorimetric Enthalpy by Optical Melting Study J. Phys. Chem. B 2014, 118, 13151-13161
    • (2014) J. Phys. Chem. B , vol.118 , pp. 13151-13161
    • Masum, A.A.1    Chakraborty, M.2    Pandya, P.3    Halder, U.C.4    Islam, M.M.5    Mukhopadhyay, S.6
  • 27
    • 0016491197 scopus 로고
    • A Clarification of the Complex Spectrum Observed with the Ultraviolet Circular Dichroism of Ethidium Bromide Bound to DNA
    • Parodi, S.; Kendall, F.; Nicolini, C. A Clarification of the Complex Spectrum Observed with the Ultraviolet Circular Dichroism of Ethidium Bromide Bound to DNA Nucleic Acids Res. 1975, 2, 477-486
    • (1975) Nucleic Acids Res. , vol.2 , pp. 477-486
    • Parodi, S.1    Kendall, F.2    Nicolini, C.3
  • 28
    • 3543040694 scopus 로고    scopus 로고
    • A Molecular Thermodynamic View of DNA-Drug Interactions: A Case Study of 25 minor-Groove Binders
    • Shaikh, S. A.; Ahmed, S. R.; Jayaram, B. A Molecular Thermodynamic View of DNA-Drug Interactions: A Case Study of 25 minor-Groove Binders Arch. Biochem. Biophys. 2004, 429, 81-99
    • (2004) Arch. Biochem. Biophys. , vol.429 , pp. 81-99
    • Shaikh, S.A.1    Ahmed, S.R.2    Jayaram, B.3
  • 29
    • 38949127619 scopus 로고    scopus 로고
    • Dynamics in the DNA Recognition by DAPI: Exploration of the Various Binding Modes
    • Banerjee, D.; Pal, S. K. Dynamics in the DNA Recognition by DAPI: Exploration of the Various Binding Modes J. Phys. Chem. B 2008, 112, 1016-1021
    • (2008) J. Phys. Chem. B , vol.112 , pp. 1016-1021
    • Banerjee, D.1    Pal, S.K.2
  • 30
    • 0029879214 scopus 로고    scopus 로고
    • A Helicase Assay Based on the Displacement of Fluorescent, Nucleic acid-binding Ligands
    • Eggleston, A. K.; Rahim, N. A.; Kowalczykowski, S. C. A Helicase Assay Based on the Displacement of Fluorescent, Nucleic acid-binding Ligands Nucleic Acids Res. 1996, 24, 1179-1186
    • (1996) Nucleic Acids Res. , vol.24 , pp. 1179-1186
    • Eggleston, A.K.1    Rahim, N.A.2    Kowalczykowski, S.C.3
  • 31
    • 0025046988 scopus 로고
    • Time-resolved Fluorescence of DAPI in Solution and Bound to Polydeoxynucleotides
    • Barcellona, M. L.; Cardiel, G.; Gratton, E. Time-resolved Fluorescence of DAPI in Solution and Bound to Polydeoxynucleotides Biochem. Biophys. Res. Commun. 1990, 170, 270-280
    • (1990) Biochem. Biophys. Res. Commun. , vol.170 , pp. 270-280
    • Barcellona, M.L.1    Cardiel, G.2    Gratton, E.3
  • 32
    • 84989741895 scopus 로고
    • Excited State pKa Behaviuor of DAPI. A Rationalization of the Fluorescence Enhancement of DAPI in DAPI-Nucleic acid Complexes
    • Szabo, A. G.; Krajcarski, D. T.; Cavatorta, P.; Masotti, L.; Barcellona, M. L. Excited State pKa Behaviuor of DAPI. A Rationalization of the Fluorescence Enhancement of DAPI in DAPI-Nucleic acid Complexes Photochem. Photobiol. 1986, 44, 143-150
    • (1986) Photochem. Photobiol. , vol.44 , pp. 143-150
    • Szabo, A.G.1    Krajcarski, D.T.2    Cavatorta, P.3    Masotti, L.4    Barcellona, M.L.5
  • 33
    • 80455158383 scopus 로고    scopus 로고
    • An FCS Study of Unfolding and Refolding of CPM-Labeled Human Serum Albumin: Role of Ionic Liquid
    • Sasmal, D. K.; Mondal, T.; Mojumdar, S. S.; Choudhury, A.; Banerjee, R.; Bhattacharyya, K. An FCS Study of Unfolding and Refolding of CPM-Labeled Human Serum Albumin: Role of Ionic Liquid J. Phys. Chem. B 2011, 115, 13075-13083
    • (2011) J. Phys. Chem. B , vol.115 , pp. 13075-13083
    • Sasmal, D.K.1    Mondal, T.2    Mojumdar, S.S.3    Choudhury, A.4    Banerjee, R.5    Bhattacharyya, K.6
  • 34
    • 14044264279 scopus 로고    scopus 로고
    • The Kinetics of Conformational Fluctuations in an Unfolded Protein Measured by Fluorescence Methods
    • Chattopadhyay, K.; Elson, E. L.; Frieden, C. The Kinetics of Conformational Fluctuations in an Unfolded Protein Measured by Fluorescence Methods Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 2385-2389
    • (2005) Proc. Natl. Acad. Sci. U.S.A. , vol.102 , pp. 2385-2389
    • Chattopadhyay, K.1    Elson, E.L.2    Frieden, C.3
  • 35
    • 0032506222 scopus 로고    scopus 로고
    • Dynamics of Fluorescence Fluctuations in Green Fluorescent Protein Observed by Fluorescence Correlation Spectroscopy
    • Haupts, U.; Maiti, S.; Schwille, P.; Webb, W. W. Dynamics of Fluorescence Fluctuations in Green Fluorescent Protein Observed by Fluorescence Correlation Spectroscopy Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 13573-13578
    • (1998) Proc. Natl. Acad. Sci. U.S.A. , vol.95 , pp. 13573-13578
    • Haupts, U.1    Maiti, S.2    Schwille, P.3    Webb, W.W.4
  • 36
    • 84881141269 scopus 로고    scopus 로고
    • Structural Transformation of Bovine Serum Albumin Induced by Dimethyl Sulfoxide and Probed by Fluorescence Correlation Spectroscopy and Additional Methods
    • Pabbathi, A.; Patra, S.; Samanta, A. Structural Transformation of Bovine Serum Albumin Induced by Dimethyl Sulfoxide and Probed by Fluorescence Correlation Spectroscopy and Additional Methods ChemPhysChem 2013, 14, 2441-2449
    • (2013) ChemPhysChem , vol.14 , pp. 2441-2449
    • Pabbathi, A.1    Patra, S.2    Samanta, A.3
  • 37
    • 0030895059 scopus 로고    scopus 로고
    • Dual-Color FluorescenceCross-Correlation Spectroscopy for Multicomponent Diffusional Analysis in Solution
    • Schwille, P.; Meyer-Almes, F. J.; Rigler, R. Dual-Color FluorescenceCross-Correlation Spectroscopy for Multicomponent Diffusional Analysis in Solution Biophys. J. 1997, 72, 1878-1886
    • (1997) Biophys. J. , vol.72 , pp. 1878-1886
    • Schwille, P.1    Meyer-Almes, F.J.2    Rigler, R.3
  • 39
    • 58149163118 scopus 로고    scopus 로고
    • Fluorescence Lifetime Correlation Spectroscopy Reveals Compaction Mechanism of 10 and 49 kbp DNA and Differences Between Polycation and Cationic Surfactant
    • Humpolícková, J.; Beranová, L.; Stěpánek, M.; Benda, A.; Procházka, K.; Hof, M. Fluorescence Lifetime Correlation Spectroscopy Reveals Compaction Mechanism of 10 and 49 kbp DNA and Differences Between Polycation and Cationic Surfactant J. Phys. Chem. B 2008, 112, 16823-12829
    • (2008) J. Phys. Chem. B , vol.112 , pp. 16823-12829
    • Humpolícková, J.1    Beranová, L.2    Stěpánek, M.3    Benda, A.4    Procházka, K.5    Hof, M.6
  • 40
    • 0037133353 scopus 로고    scopus 로고
    • The Application of Fluorescence Correlation Spectroscopy in Detecting DNA Condensation
    • Kral, T.; Langner, M.; Beneš, M.; Baczyńska, D.; Ugorski, M.; Hof, M. The Application of Fluorescence Correlation Spectroscopy in Detecting DNA Condensation Biophys. Chem. 2002, 95, 135-144
    • (2002) Biophys. Chem. , vol.95 , pp. 135-144
    • Kral, T.1    Langner, M.2    Beneš, M.3    Baczyńska, D.4    Ugorski, M.5    Hof, M.6
  • 42
    • 33744502886 scopus 로고    scopus 로고
    • The Initial Step of DNA Hairpin Folding: A Kinetic Analysis Using Fluorescence Correlation Spectroscopy
    • Kim, J.; Doose, S.; Neuweiler, H.; Sauer, M. The Initial Step of DNA Hairpin Folding: A Kinetic Analysis Using Fluorescence Correlation Spectroscopy Nucleic Acids Res. 2006, 34, 2516-2527
    • (2006) Nucleic Acids Res. , vol.34 , pp. 2516-2527
    • Kim, J.1    Doose, S.2    Neuweiler, H.3    Sauer, M.4
  • 43
    • 0342750104 scopus 로고    scopus 로고
    • Ethanol-Induced Condensation of Calf Thymus DNA Studied by Laser Light Scattering
    • Roy, K. B.; Antony, T.; Saxena, A.; Bhohidar, H. B. Ethanol-Induced Condensation of Calf Thymus DNA Studied by Laser Light Scattering J. Phys. Chem. B 1999, 103, 5117-5121
    • (1999) J. Phys. Chem. B , vol.103 , pp. 5117-5121
    • Roy, K.B.1    Antony, T.2    Saxena, A.3    Bhohidar, H.B.4
  • 44
    • 0037187806 scopus 로고    scopus 로고
    • Melting of the Solvent Structure Around a RNA Duplex: A Molecular Dynamics Simulation Study
    • Auffinger, P.; Westhof, E. Melting of the Solvent Structure Around a RNA Duplex: A Molecular Dynamics Simulation Study Biophys. Chem. 2002, 95, 203-210
    • (2002) Biophys. Chem. , vol.95 , pp. 203-210
    • Auffinger, P.1    Westhof, E.2


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