151
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Zykwinska A, Guillemette T, Bouchara JP, Cuenot S. Spontaneous self-assembly of SC3 hydrophobins into nanorods in aqueous solution. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2014; 1844:1231-7. [PMID: 24732577 DOI: 10.1016/j.bbapap.2014.04.003] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2013] [Revised: 04/04/2014] [Accepted: 04/05/2014] [Indexed: 11/18/2022]
Abstract
Hydrophobins are small surface active proteins secreted by filamentous fungi. Because of their ability to self-assemble at hydrophilic-hydrophobic interfaces, hydrophobins play a key role in fungal growth and development. In the present work, the organization in aqueous solution of SC3 hydrophobins from the fungus Schizophyllum commune was assessed using Dynamic Light Scattering, Atomic Force Microscopy and fluorescence spectroscopy. These complementary approaches have demonstrated that SC3 hydrophobins are able not only to spontaneously self-assemble at the air-water interface but also in pure water. AFM experiments evidenced that hydrophobins self-assemble in solution into nanorods. Fluorescence assays with thioflavin T allowed establishing that the mechanism governing SC3 hydrophobin self-assembly into nanorods involves β-sheet stacking. SC3 assembly was shown to be strongly influenced by ionic strength and solution pH. The presence of a very low ionic strength significantly favoured the protein self-assembly but a further increase of ions in solution disrupted the protein assembly. It was assessed that solution pH had a significant effect on the SC3 hydrophobins organization. In peculiar, the self-assembly process was considerably reduced at acidic pH. Our findings demonstrate that the self-assembly of SC3 hydrophobins into nanorods of well-defined length can be directly controlled in solution. Such control allows opening the way for the development of new smart self-assembled structures for targeted applications.
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Affiliation(s)
- Agata Zykwinska
- Institut des Matériaux Jean Rouxel, Université de Nantes, 2 rue de la Houssinière, 44322 Nantes Cedex 3, France
| | - Thomas Guillemette
- Université d'Angers, UMR 1345 IRHS, SFR QUASAV, 2 Bd Lavoisier, Angers cedex F-49045, France
| | - Jean-Philippe Bouchara
- Laboratoire de Parasitologie-Mycologie, Centre Hospitalier Universitaire d'Angers, France; L'UNAM Université, Université d'Angers, Groupe d'Etude des Interactions Hôte-Pathogène, UPRES-EA 3142, Angers, France
| | - Stéphane Cuenot
- Institut des Matériaux Jean Rouxel, Université de Nantes, 2 rue de la Houssinière, 44322 Nantes Cedex 3, France.
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152
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Nazrul Islam M, Sarker KC, Aktaruzzaman G. Effect of Electrolytes on the Krafft Temperature of Cetylpyridinium Chloride in Aqueous Solution. J SURFACTANTS DETERG 2014. [DOI: 10.1007/s11743-014-1577-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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153
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The ion–lipid battle for hydration water and interfacial sites at soft-matter interfaces. Curr Opin Colloid Interface Sci 2014. [DOI: 10.1016/j.cocis.2014.02.003] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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154
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Bončina M, Lukšič M, Seručnik M, Vlachy V. Thermodynamic analysis of the interaction of partially hydrophobic cationic polyelectrolytes with sodium halide salts in water. Mol Phys 2014. [DOI: 10.1080/00268976.2013.871365] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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155
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Ngo V, Stefanovski D, Haas S, Farley RA. Non-equilibrium dynamics contribute to ion selectivity in the KcsA channel. PLoS One 2014; 9:e86079. [PMID: 24465882 PMCID: PMC3895005 DOI: 10.1371/journal.pone.0086079] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2013] [Accepted: 12/09/2013] [Indexed: 12/05/2022] Open
Abstract
The ability of biological ion channels to conduct selected ions across cell membranes is critical for the survival of both animal and bacterial cells. Numerous investigations of ion selectivity have been conducted over more than 50 years, yet the mechanisms whereby the channels select certain ions and reject others are not well understood. Here we report a new application of Jarzynski’s Equality to investigate the mechanism of ion selectivity using non-equilibrium molecular dynamics simulations of Na+ and K+ ions moving through the KcsA channel. The simulations show that the selectivity filter of KcsA adapts and responds to the presence of the ions with structural rearrangements that are different for Na+ and K+. These structural rearrangements facilitate entry of K+ ions into the selectivity filter and permeation through the channel, and rejection of Na+ ions. A mechanistic model of ion selectivity by this channel based on the results of the simulations relates the structural rearrangement of the selectivity filter to the differential dehydration of ions and multiple-ion occupancy and describes a mechanism to efficiently select and conduct K+. Estimates of the K+/Na+ selectivity ratio and steady state ion conductance for KcsA from the simulations are in good quantitative agreement with experimental measurements. This model also accurately describes experimental observations of channel block by cytoplasmic Na+ ions, the “punch through” relief of channel block by cytoplasmic positive voltages, and is consistent with the knock-on mechanism of ion permeation.
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Affiliation(s)
- Van Ngo
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California, United States of America
| | - Darko Stefanovski
- Department of Biomedical Sciences, Cedars Sinai Medical Center, Los Angeles, California, United States of America
- Department of Physiology and Biophysics, University of Southern California, Keck School of Medicine, Los Angeles, California, United States of America
| | - Stephan Haas
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California, United States of America
| | - Robert A. Farley
- Department of Physiology and Biophysics, University of Southern California, Keck School of Medicine, Los Angeles, California, United States of America
- * E-mail:
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156
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Graham JD, Buytendyk AM, Wang D, Bowen KH, Collins KD. Strong, low-barrier hydrogen bonds may be available to enzymes. Biochemistry 2014; 53:344-9. [PMID: 24359447 DOI: 10.1021/bi4014566] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The debate over the possible role of strong, low-barrier hydrogen bonds in stabilizing reaction intermediates at enzyme active sites has taken place in the absence of an awareness of the upper limits to the strengths of low-barrier hydrogen bonds involving amino acid side chains. Hydrogen bonds exhibit their maximal strengths in isolation, i.e., in the gas phase. In this work, we measured the ionic hydrogen bond strengths of three enzymatically relevant model systems in the gas phase using anion photoelectron spectroscopy; we calibrated these against the hydrogen bond strength of HF2(-), measured using the same technique, and we compared our results with other gas-phase experimental data. The model systems studied here, the formate-formic acid, acetate-acetic acid, and imidazolide-imidazole anionic complexes, all exhibit very strong hydrogen bonds, whose strengths compare favorably with that of the hydrogen bifluoride anion, the strongest known hydrogen bond. The hydrogen bond strengths of these gas-phase complexes are stronger than those typically estimated as being required to stabilize enzymatic intermediates. If there were to be enzyme active site environments that can facilitate the retention of a significant fraction of the strengths of these isolated (gas-phase), hydrogen bonded couples, then low-barrier hydrogen bonding interactions might well play important roles in enzymatic catalysis.
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Affiliation(s)
- Jacob D Graham
- Department of Chemistry, Johns Hopkins University , Baltimore, Maryland 21218, United States
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157
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Cianci M, Negroni J, Helliwell JR, Halling PJ. Extensive counter-ion interactions seen at the surface of subtilisin in an aqueous medium. RSC Adv 2014. [DOI: 10.1039/c4ra06448h] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The extent of counter-ion interaction within subtilisin in aqueous medium has been investigated using CsCl soak and anomalous diffraction, revealing that in aqueous salt solutions ions can bind at defined points around the protein surface.
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Affiliation(s)
- Michele Cianci
- European Molecular Biology Laboratory c/o DESY
- 22603 Hamburg, Germany
| | - Jacopo Negroni
- European Molecular Biology Laboratory c/o DESY
- 22603 Hamburg, Germany
| | | | - Peter J. Halling
- WestCHEM
- Department of P & A Chemistry
- University of Strathclyde
- Glasgow G1 1XL, UK
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158
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Tian R, Yang G, Li H, Gao X, Liu X, Zhu H, Tang Y. Activation energies of colloidal particle aggregation: towards a quantitative characterization of specific ion effects. Phys Chem Chem Phys 2014; 16:8828-36. [DOI: 10.1039/c3cp54813a] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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159
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Ahmed M, Namboodiri V, Singh AK, Mondal JA, Sarkar SK. How Ions Affect the Structure of Water: A Combined Raman Spectroscopy and Multivariate Curve Resolution Study. J Phys Chem B 2013; 117:16479-85. [DOI: 10.1021/jp4100697] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Mohammed Ahmed
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - V. Namboodiri
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Ajay K. Singh
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Jahur A. Mondal
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Sisir K. Sarkar
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
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160
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Medda L, Carucci C, Parsons DF, Ninham BW, Monduzzi M, Salis A. Specific cation effects on hemoglobin aggregation below and at physiological salt concentration. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:15350-15358. [PMID: 24256494 DOI: 10.1021/la404249n] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Turbidity titrations are used to study the ion specific aggregation of hemoglobin (Hb) below and physiological salt concentration in the pH range 4.5-9.5. At a salt concentration 50 mM cations promote Hb aggregation according to the order Rb(+) > K(+) ~ Na(+) > Cs(+) > Li(+). The cation series changes if concentration is increased, becoming K(+) > Rb(+) > Na(+) > Li(+) > Cs(+) at 150 mM. We interpret the puzzling series by assuming that the kosmotropic Li(+) will bind to kosmotropic carboxylates groups-according to the law of matching water affinities (LMWA)-whereas the chaotropic Cs(+) will bind to uncharged protein patches due to its high polarizability. In fact, both mechanisms can be rationalized by invoking previously neglected ionic nonelectrostatic forces. This explains both adsorption to uncharged patches and the LMWA as a consequence of the simultaneous action of electrostatic and dispersion forces. The same interpretation applies to anions (with chaotropic anions binding to chaotropic amine groups). The implications extend beyond hemoglobin to other, still unexplained, ion specific effects in biological systems.
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Affiliation(s)
- Luca Medda
- Department of Chemical and Geological Sciences, University of Cagliari-CSGI and CNBS, Cittadella Universitaria , S.S. 554 bivio Sestu, 09042 Monserrato (CA), Italy
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161
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Ahmed M, Singh AK, Mondal JA, Sarkar SK. Water in the Hydration Shell of Halide Ions Has Significantly Reduced Fermi Resonance and Moderately Enhanced Raman Cross Section in the OH Stretch Regions. J Phys Chem B 2013; 117:9728-33. [DOI: 10.1021/jp403618x] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Mohammed Ahmed
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Ajay K. Singh
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Jahur A. Mondal
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
| | - Sisir K. Sarkar
- Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400085, India
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162
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Roy JC, Islam MN, Aktaruzzaman G. The Effect of NaCl on the Krafft Temperature and Related Behavior of Cetyltrimethylammonium Bromide in Aqueous Solution. J SURFACTANTS DETERG 2013. [DOI: 10.1007/s11743-013-1510-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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163
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Pan AC, Borhani DW, Dror RO, Shaw DE. Molecular determinants of drug–receptor binding kinetics. Drug Discov Today 2013; 18:667-73. [DOI: 10.1016/j.drudis.2013.02.007] [Citation(s) in RCA: 265] [Impact Index Per Article: 24.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2012] [Revised: 02/01/2013] [Accepted: 02/15/2013] [Indexed: 12/01/2022]
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164
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Siretanu I, Chapel JP, Bastos-González D, Drummond C. Ions-Induced Nanostructuration: Effect of Specific Ionic Adsorption on Hydrophobic Polymer Surfaces. J Phys Chem B 2013; 117:6814-22. [DOI: 10.1021/jp400531x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Igor Siretanu
- CNRS, Centre de Recherche Paul
Pascal (CRPP), UPR 8641, F-33600 Pessac, France
- Université Bordeaux 1, CRPP, F-33600 Pessac, France
| | - Jean-Paul Chapel
- CNRS, Centre de Recherche Paul
Pascal (CRPP), UPR 8641, F-33600 Pessac, France
- Université Bordeaux 1, CRPP, F-33600 Pessac, France
| | - Delfi Bastos-González
- Biocolloid and Fluid Physics Group,
Department of Applied Physics, University of Granada, Av. Fuentenueva S/N, 18071 Granada, Spain
| | - Carlos Drummond
- CNRS, Centre de Recherche Paul
Pascal (CRPP), UPR 8641, F-33600 Pessac, France
- Université Bordeaux 1, CRPP, F-33600 Pessac, France
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165
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Majumdar R, Manikwar P, Hickey JM, Samra HS, Sathish HA, Bishop SM, Middaugh CR, Volkin DB, Weis DD. Effects of Salts from the Hofmeister Series on the Conformational Stability, Aggregation Propensity, and Local Flexibility of an IgG1 Monoclonal Antibody. Biochemistry 2013; 52:3376-89. [DOI: 10.1021/bi400232p] [Citation(s) in RCA: 87] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Ranajoy Majumdar
- Department
of Pharmaceutical
Chemistry, Macromolecule and Vaccine Stabilization Center, University of Kansas, Lawrence, Kansas 66047, United
States
| | - Prakash Manikwar
- Department
of Pharmaceutical
Chemistry, Macromolecule and Vaccine Stabilization Center, University of Kansas, Lawrence, Kansas 66047, United
States
| | - John M. Hickey
- Department
of Pharmaceutical
Chemistry, Macromolecule and Vaccine Stabilization Center, University of Kansas, Lawrence, Kansas 66047, United
States
| | - Hardeep S. Samra
- Department of Formulation
Sciences, MedImmune, One MedImmune Way,
Gaithersburg, Maryland
20878, United States
| | - Hasige A. Sathish
- Department of Formulation
Sciences, MedImmune, One MedImmune Way,
Gaithersburg, Maryland
20878, United States
| | - Steven M. Bishop
- Department of Formulation
Sciences, MedImmune, One MedImmune Way,
Gaithersburg, Maryland
20878, United States
| | - C. Russell Middaugh
- Department
of Pharmaceutical
Chemistry, Macromolecule and Vaccine Stabilization Center, University of Kansas, Lawrence, Kansas 66047, United
States
| | - David B. Volkin
- Department
of Pharmaceutical
Chemistry, Macromolecule and Vaccine Stabilization Center, University of Kansas, Lawrence, Kansas 66047, United
States
| | - David D. Weis
- Department
of Chemistry and R.
N. Adams Institute for Bioanalytical Chemistry, University of Kansas, Lawrence, Kansas 66045, United States
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166
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Beck TL. The influence of water interfacial potentials on ion hydration in bulk water and near interfaces. Chem Phys Lett 2013. [DOI: 10.1016/j.cplett.2013.01.008] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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167
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Sripa P, Tongraar A, Kerdcharoen T. “Structure-Making” Ability of Na+ in Dilute Aqueous Solution: An ONIOM-XS MD Simulation Study. J Phys Chem A 2013; 117:1826-33. [DOI: 10.1021/jp312230g] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Pattrawan Sripa
- School of Chemistry, Institute of Science, Suranaree University of Technology, Nakhon Ratchasima 30000, Thailand
| | - Anan Tongraar
- School of Chemistry, Institute of Science, Suranaree University of Technology, Nakhon Ratchasima 30000, Thailand
| | - Teerakiat Kerdcharoen
- Department of Physics and NANOTEC Center
of Excellence, Faculty of Science, Mahidol University, Bangkok 10400, Thailand
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168
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Galamba N. On the Effects of Temperature, Pressure, and Dissolved Salts on the Hydrogen-Bond Network of Water. J Phys Chem B 2013; 117:589-601. [DOI: 10.1021/jp309312q] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- N. Galamba
- Grupo de Física-Matemática
da Universidade de Lisboa, Av. Prof. Gama
Pinto 2, 1649-003
Lisboa, Portugal
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169
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Mooi SM, Heyne B. Size does matter: how to control organization of organic dyes in aqueous environment using specific ion effects. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2012; 28:16524-16530. [PMID: 23145855 DOI: 10.1021/la3034885] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Understanding the role played by external factors on the organization of molecules has the potential to contribute greatly to fundamental research and applications in fields as diverse as nanotechnology, medicine, material chemistry, etc. Countless studies involve the organization of small organic molecules in environments rich in ionic species, yet their participation in molecular organization is often overlooked. Herein, we critically assess the organization in aqueous solution of the cationic cyanine dye, thiazole orange, in the presence of different monovalent sodium salts. Our findings clearly indicate that not all ions are identical with regards to the organization of thiazole orange molecules and specific ions effects are at play. The conventional Debye and Hückel model is not sufficient to explain our results, and the participation of ionic species in molecular organization is explained in terms of the recent theory of water matching affinity. Herein, by choosing the right counterion with the appropriate size, we have shown that it is possible to either induce a simple shift in the monomer-dimer equilibrium of thiazole orange or to turn on the formation of larger organized structures.
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Affiliation(s)
- Sara M Mooi
- Chemistry Department, University of Calgary , 2500 University Drive NW, Calgary, T2N 1N4 AB, Canada
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170
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Zhang L, Zhang J. Specific Ion–Protein Interactions Dictate Solubility Behavior of a Monoclonal Antibody at Low Salt Concentrations. Mol Pharm 2012; 9:2582-90. [DOI: 10.1021/mp300183a] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Le Zhang
- Department of Analytical
and Formulation Sciences,
Amgen Inc., One Amgen Center Drive, Thousand Oaks, California 91320-1799,
United States
| | - Jifeng Zhang
- Department of Analytical
and Formulation Sciences,
Amgen Inc., One Amgen Center Drive, Thousand Oaks, California 91320-1799,
United States
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