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Ice Growth Suppression in the Solution Flows of Antifreeze Protein and Sodium Chloride in a Mini-Channel. Processes (Basel) 2021. [DOI: 10.3390/pr9020306] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The control of ice growth inside channels of aqueous solution flows is important in numerous fields, including (a) cold-energy transportation plants and (b) the preservation of supercooled human organs for transplantation. A promising method for this control is to add a substance that influences ice growth in the flows. However, limited results have been reported on the effects of such additives. Using a microscope, we measured the growth of ice from one sidewall toward the opposite sidewall of a mini-channel, where aqueous solutions of sodium chloride and antifreeze protein flowed. Our aim was to considerably suppress ice growth by mixing the two solutes. Inclined interfaces, the overlapping of serrated interfaces, and interfaces with sharp and flat tips were observed in the cases of the protein-solution, salt-solution, and mixed-solution flows, respectively. In addition, it was found that the average interface velocity in the case of the mixed-solution flow was the lowest and decreased by 64% compared with that of pure water. This significant suppression of the ice-layer growth can be attributed to the synergistic effects of the ions and antifreeze protein on the diffusion of protein.
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Her C, Yeh Y, Krishnan VV. The Ensemble of Conformations of Antifreeze Glycoproteins (AFGP8): A Study Using Nuclear Magnetic Resonance Spectroscopy. Biomolecules 2019; 9:biom9060235. [PMID: 31213033 PMCID: PMC6628104 DOI: 10.3390/biom9060235] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2019] [Revised: 05/28/2019] [Accepted: 05/30/2019] [Indexed: 12/13/2022] Open
Abstract
The primary sequence of antifreeze glycoproteins (AFGPs) is highly degenerate, consisting of multiple repeats of the same tripeptide, Ala–Ala–Thr*, in which Thr* is a glycosylated threonine with the disaccharide beta-d-galactosyl-(1,3)-alpha-N-acetyl-d-galactosamine. AFGPs seem to function as intrinsically disordered proteins, presenting challenges in determining their native structure. In this work, a different approach was used to elucidate the three-dimensional structure of AFGP8 from the Arctic cod Boreogadussaida and the Antarctic notothenioid Trematomusborchgrevinki. Dimethyl sulfoxide (DMSO), a non-native solvent, was used to make AFGP8 less dynamic in solution. Interestingly, DMSO induced a non-native structure, which could be determined via nuclear magnetic resonance (NMR) spectroscopy. The overall three-dimensional structures of the two AFGP8s from two different natural sources were different from a random coil ensemble, but their “compactness” was very similar, as deduced from NMR measurements. In addition to their similar compactness, the conserved motifs, Ala–Thr*–Pro–Ala and Ala–Thr*–Ala–Ala, present in both AFGP8s, seemed to have very similar three-dimensional structures, leading to a refined definition of local structural motifs. These local structural motifs allowed AFGPs to be considered functioning as effectors, making a transition from disordered to ordered upon binding to the ice surface. In addition, AFGPs could act as dynamic linkers, whereby a short segment folds into a structural motif, while the rest of the AFGPs could still be disordered, thus simultaneously interacting with bulk water molecules and the ice surface, preventing ice crystal growth.
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Affiliation(s)
- Cheenou Her
- Department of Chemistry, California State University, Fresno, CA 93740, USA.
| | - Yin Yeh
- Department of Applied Science, University of California, Davis, CA 95616, USA.
| | - Viswanathan V Krishnan
- Department of Chemistry, California State University, Fresno, CA 93740, USA.
- Department Medical Pathology and Laboratory Medicine, Davis School of Medicine, University of California, Davis, CA 95616, USA.
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Li LF, Liang XX. Influence of Adsorption Orientation on the Statistical Mechanics Model of Type I Antifreeze Protein: The Thermal Hysteresis Temperature. J Phys Chem B 2017; 121:9513-9517. [PMID: 28956610 DOI: 10.1021/acs.jpcb.7b06619] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The antifreeze activity of type I antifreeze proteins (AFPIs) is studied on the basis of the statistical mechanics theory, by taking the AFP's adsorption orientation into account. The thermal hysteresis temperatures are calculated by determining the system Gibbs function as well as the AFP molecule coverage rate on the ice-crystal surface. The numerical results for the thermal hysteresis temperatures of AFP9, HPLC-6, and AAAA2kE are obtained for both of the cases with and without inclusion of the adsorption orientation. The results show that the influence of the adsorption orientation on the thermal hysteresis temperature cannot be neglected. The theoretical results are coincidental preferably with the experimental data.
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Affiliation(s)
- Li-Fen Li
- Department of Basic Curriculum, North China Institute of Science and Technology , Beijing 101601, China
| | - Xi-Xia Liang
- Department of Physics, Inner Mongolia University , Hohhot 010021, China
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Dubé A, Leggiadro C, Ewart KV. Rapid amyloid fibril formation by a winter flounder antifreeze protein requires specific interaction with ice. FEBS Lett 2016; 590:1335-44. [DOI: 10.1002/1873-3468.12175] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2016] [Revised: 03/31/2016] [Accepted: 04/05/2016] [Indexed: 11/10/2022]
Affiliation(s)
- André Dubé
- Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax Canada
| | - Cindy Leggiadro
- Aquatic and Crop Resource Development; National Research Council; Halifax Canada
| | - Kathryn Vanya Ewart
- Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax Canada
- Department of Biology; Dalhousie University; Halifax Canada
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Shukla M, Dorai K. Resolving overlaps in diffusion encoded spectra using band-selective pulses in a 3D BEST-DOSY experiment. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2011; 213:69-75. [PMID: 21937251 DOI: 10.1016/j.jmr.2011.08.038] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2011] [Revised: 08/10/2011] [Accepted: 08/30/2011] [Indexed: 05/31/2023]
Abstract
A novel diffusion-edited 3D NMR experiment that incorporates a BEST-HMQC pulse sequence in its implementation is presented. Heteronuclear 3D DOSY NMR experiments are useful in elucidating the diffusion coefficients of individual constituents of a mixture, especially in cases where the proton NMR 2D DOSY spectra show considerable overlap. The present 3D BEST-DOSY pulse sequence provides a more sensitive and less time-consuming alternative to standard 3D HMQC-DOSY experiments. Cleanly separated subspectra of individual mixture components are obtained, leading to the determination of diffusion coefficients with better accuracy. The feasibility of the technique is demonstrated on a mixture of amino acids, on a mixture of small molecules with similar diffusion coefficients, and on a complex mixture with large dynamic range (commercial gasoline). The implications of using adiabatic decoupling schemes and band-selective shaped pulses for selective BEST-DOSY experiments on proteins are also discussed.
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Affiliation(s)
- Matsyendranath Shukla
- Department of Physics, Indian Institute of Science Education & Research (IISER) Mohali, Chandigarh 160 019, India.
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Abstract
Antifreeze glycoproteins are an important class of biological antifreezes that have potential applications in many areas of medicine, agriculture and industry in which ice crystal growth is damaging. While the synthesis of antifreeze glycoproteins as pure glycoforms has recently been achieved by using ligation and polymerisation strategies, the routine production of large quantities of pure glycoforms remains challenging. A range of C-linked analogues that are readily produced by solid-phase synthesis have delivered novel compounds that are not biological antifreezes, but are potent, non-cytotoxic, ice-recrystallisation inhibitors. Structure-activity studies, the identification of cyclic antifreeze glycoproteins and conformational studies have provided further insight into the requirements for antifreeze activity. These results, coupled with significant advances in approaches to the routine synthesis of different glycoproteins and mimics, present opportunities for the design and synthesis of novel ice-growth-inhibiting and antifreeze compounds.
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Affiliation(s)
- James Garner
- School of Chemistry, The University of New South Wales, Sydney, NSW 2052, Australia
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Willis SA, Dennis GR, Zheng G, Price WS. Averaging Effects in PGSE NMR Attenuations Observed in Bimodal Molecular Weight PMMA Solutions. Macromolecules 2010. [DOI: 10.1021/ma1017007] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Scott A. Willis
- Nanoscale Organisation and Dynamics Group, College of Health and Science, University of Western Sydney, Locked Bag 1797, Penrith South DC, NSW 1797, Australia
| | - Gary R. Dennis
- Nanoscale Organisation and Dynamics Group, College of Health and Science, University of Western Sydney, Locked Bag 1797, Penrith South DC, NSW 1797, Australia
| | - Gang Zheng
- Nanoscale Organisation and Dynamics Group, College of Health and Science, University of Western Sydney, Locked Bag 1797, Penrith South DC, NSW 1797, Australia
| | - William S. Price
- Nanoscale Organisation and Dynamics Group, College of Health and Science, University of Western Sydney, Locked Bag 1797, Penrith South DC, NSW 1797, Australia
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Neuman RC, Gerig JT. Interactions of 2,2,2-trifluoroethanol with melittin. MAGNETIC RESONANCE IN CHEMISTRY : MRC 2009; 47:925-931. [PMID: 19634131 DOI: 10.1002/mrc.2489] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Melittin dissolved in 42% trifluoroethanol-water at pH 2 has been shown to be alpha-helical between residues 6 and 12 and between residues 13 and 25, with the two helical regions separated by a bend at the Leu13 residue. The inter-helix angle was found to be 154 +/- 3 degrees at 0 degrees C and 135 +/- 3 degrees at 25 degrees C. The dominant conformation of the peptide is thus similar to those observed by previous workers for the peptide in a variety of media. At 25 degrees C, intermolecular nuclear Overhauser effects arising from nuclear spin dipole-dipole interactions between melittin hydrogens and fluorines of the solvent are essentially those expected for a system that is homogeneous as regards concentration and translational diffusion of the peptide and fluoroalcohol components. However, at 0 degrees C, peptide-trifluoroethanol cross-relaxation terms are negative, a result consistent with the conclusion that fluoroalcohol molecules associate with the peptide for times (approximately 1 ns) that are long compared to the time of a typical peptide-fluoroalcohol diffusive encounter (approximately 0.2 ns). Such interactions may be responsible for the reduction of the translational diffusion coefficient of trifluoroethanol produced by dissolved peptides.
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Affiliation(s)
- Robert C Neuman
- Department of Chemistry & Biochemistry, University of California, Santa Barbara, CA 93106, USA
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Pei H, Germann MW, Allison SA. Translational Diffusion Constants of Short Peptides: Measurement by NMR and Their Use in Structural Studies of Peptides. J Phys Chem B 2009; 113:9326-9. [DOI: 10.1021/jp902143q] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Hongxia Pei
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098
| | - Markus W. Germann
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098
| | - Stuart A. Allison
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098
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The thermal hysteresis activity of the type I antifreeze protein: A statistical mechanics model. Chem Phys Lett 2009. [DOI: 10.1016/j.cplett.2009.02.079] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Venketesh S, Dayananda C. Properties, Potentials, and Prospects of Antifreeze Proteins. Crit Rev Biotechnol 2008; 28:57-82. [DOI: 10.1080/07388550801891152] [Citation(s) in RCA: 120] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Garner J, Harding MM. Design and synthesis of alpha-helical peptides and mimetics. Org Biomol Chem 2007; 5:3577-85. [PMID: 17971985 DOI: 10.1039/b710425a] [Citation(s) in RCA: 113] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The alpha-helix is the most abundant secondary structural element in proteins and is an important structural domain for mediating protein-protein and protein-nucleic acid interactions. Strategies for the rational design and synthesis of alpha-helix mimetics have not matured as well as other secondary structure mimetics such as strands and turns. This perspective will focus on developments in the design, synthesis and applications of alpha-helices and mimetics, particularly in the last 5 years. Examples where synthetic compounds have delivered promising biological results will be highlighted as well as opportunities for the design of mimetics of the type I alpha-helical antifreeze proteins.
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Affiliation(s)
- James Garner
- School of Chemistry, The University of New South Wales, Sydney, NSW 2052, Australia
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Germann MW, Turner T, Allison SA. Translational diffusion constants of the amino acids: measurement by NMR and their use in modeling the transport of peptides. J Phys Chem A 2007; 111:1452-5. [PMID: 17269757 DOI: 10.1021/jp068217o] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In this work, the translational self-diffusion constants, DT's, of 12 amino acids (Ala, Arg, Asn, Asp, Cys, Glu, His, Ile, Lys, Met, Phe, and Ser) are measured by field gradient NMR and extrapolated to infinite dilution. The experiments were carried out in D2O at 298 K at pD approximately =3.5 in 50 mM sodium phosphate buffer. Of these 12 amino acids, 6 are being reported for the first time (Asp, Cys, Glu, His, Lys, and Met) and the remaining 6 (Ala, Arg, Asn, Ile, Phe, and Ser) are compared with DT's from the literature. When corrected for differences in solvent viscosity and temperature, the discrepancy between DT's measured in the present work and those reported previously is always <8%, which is reasonable given the range of values reported previously by different groups. With the present work, DT's for all of the amino acids are now available. These diffusion constants are then used in modeling studies of the diffusion and free solution electrophoretic mobility, mu, of several model peptides. For this set of peptides, it is shown that modeling using revised input parameters results in improved agreement between model and experimental mobilities.
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Affiliation(s)
- Markus W Germann
- Department of Chemistry, Georgia State University, P.O. Box 4098, Atlanta, Georgia 30302-4098, USA
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