1
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You S, Nguyen T, Li-Ma C, Bollong MJ. Identification of Tunable, Environmentally Responsive Fluorogenic Dyes by High-Throughput Screening. ACS Chem Biol 2024; 19:2041-2049. [PMID: 39250827 DOI: 10.1021/acschembio.4c00373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/11/2024]
Abstract
Small molecule dyes remain essential biological tools, yet only a handful of environmentally responsive fluorogenic small molecules are available for routine characterization of protein state. Here, we report the development and execution of a high throughput screen to identify compounds that increase in fluorescence in response to binding of lipophilic sites of proteins. This effort yielded two small molecules that potently indicate the presence of a range of common proteins and outperform common dyes in differential scanning fluorimetry experiments. Structure activity relationship studies revealed that these two scaffolds can be tuned both for their quantum yields and emission wavelengths. This work affords a straightforward framework for the discovery of new fluorophores and adds two fluorogenic probes to the toolbox for studying protein state.
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Affiliation(s)
- Shaochen You
- Department of Chemistry, Scripps Research, San Diego, California 92037, United States
| | - Thu Nguyen
- Department of Chemistry, Scripps Research, San Diego, California 92037, United States
| | - Chloris Li-Ma
- Department of Chemistry, Scripps Research, San Diego, California 92037, United States
| | - Michael J Bollong
- Department of Chemistry, Scripps Research, San Diego, California 92037, United States
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2
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Damjanović A, Logarušić M, Tumir LM, Andreou T, Cvjetko Bubalo M, Radojčić Redovniković I. Enhancing protein stability under stress: osmolyte-based deep eutectic solvents as a biocompatible and robust stabilizing medium for lysozyme under heat and cold shock. Phys Chem Chem Phys 2024; 26:21040-21051. [PMID: 39054918 DOI: 10.1039/d4cp02275k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/27/2024]
Abstract
In biomedical and biotechnological domains, liquid protein formulations are vital tools, offering versatility across various fields. However, maintaining protein stability in a liquid form presents challenges due to environmental factors, driving research to refine formulations for broader applications. In our recent study, we investigated the relationship between deep eutectic solvents (DESs) and the natural presence of osmolytes in specific combinations, showcasing the effectiveness of a bioinspired osmolyte-based DES in stabilizing a model protein. Recognizing the need for a more nuanced understanding of osmolyte-based DES stabilization capabilities under different storage conditions, here we broadened the scope of our osmolyte-based DES experimental screening, and delved deeper into structural changes in the enzyme under these conditions. We subjected lysozyme solutions in DESs based on various kosmotropic osmolytes (TMAO, betaine, sarcosine, DMSP, ectoine, GPC, proline, sorbitol and taurine) paired either with another kosmotropic (glycerol) or with chaotropic osmolyte urea to rigorous conditions: heat shock (at 80 °C) and repetitive freeze-thaw cycles (at -20 and -80 °C). Changes in enzyme activity, colloidal stability, and conformational alterations were then monitored using bioassays, aggregation tests, and spectroscopic techniques (FT-IR and CD). Our results demonstrate the remarkable effectiveness of osmolyte-based DES in stabilizing lysozyme under stress conditions, with sarcosine- and betaine-based DESs containing glycerol as a hydrogen bond donor showing the highest efficacy, even at high enzyme loadings up to 200 mg ml-1. Investigation of the individual and combined effects of the DES components on enzyme stability confirmed the synergistic behavior of the kosmotrope-urea mixtures and the cumulative effects in kosmotrope-glycerol mixtures. Additionally, we have shown that the interplay between the enzyme's active and stable (but inactive) states is highly influenced by the water content in DESs. Finally, toxicity assessments of osmolyte-based DESs using cell lines (Caco-2, HaCaT, and HeLa) revealed no risks to human health.
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Affiliation(s)
- Anja Damjanović
- Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia.
| | - Marijan Logarušić
- Faculty of Food Technology and Biotechnology, University of Zagreb, Croatia.
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3
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Sánchez IE, Galpern EA, Ferreiro DU. Solvent constraints for biopolymer folding and evolution in extraterrestrial environments. Proc Natl Acad Sci U S A 2024; 121:e2318905121. [PMID: 38739787 PMCID: PMC11127021 DOI: 10.1073/pnas.2318905121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2023] [Accepted: 04/16/2024] [Indexed: 05/16/2024] Open
Abstract
We propose that spontaneous folding and molecular evolution of biopolymers are two universal aspects that must concur for life to happen. These aspects are fundamentally related to the chemical composition of biopolymers and crucially depend on the solvent in which they are embedded. We show that molecular information theory and energy landscape theory allow us to explore the limits that solvents impose on biopolymer existence. We consider 54 solvents, including water, alcohols, hydrocarbons, halogenated solvents, aromatic solvents, and low molecular weight substances made up of elements abundant in the universe, which may potentially take part in alternative biochemistries. We find that along with water, there are many solvents for which the liquid regime is compatible with biopolymer folding and evolution. We present a ranking of the solvents in terms of biopolymer compatibility. Many of these solvents have been found in molecular clouds or may be expected to occur in extrasolar planets.
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Affiliation(s)
- Ignacio E. Sánchez
- Laboratorio de Fisiología de Proteínas, Departamento de Química Biológica, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos AiresCP1428, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales, Buenos AiresCP1428, Argentina
| | - Ezequiel A. Galpern
- Laboratorio de Fisiología de Proteínas, Departamento de Química Biológica, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos AiresCP1428, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales, Buenos AiresCP1428, Argentina
| | - Diego U. Ferreiro
- Laboratorio de Fisiología de Proteínas, Departamento de Química Biológica, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Buenos AiresCP1428, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Instituto de Química Biológica de la Facultad de Ciencias Exactas y Naturales, Buenos AiresCP1428, Argentina
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4
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Sebastian A, P K, Aarya, Sen Mojumdar S. Temperature-Induced Luminescence Intensity Fluctuation of Protein-Protected Copper Nanoclusters: Role of Scaffold Conformation vs Nonradiative Transition. ACS OMEGA 2024; 9:21520-21527. [PMID: 38764622 PMCID: PMC11097160 DOI: 10.1021/acsomega.4c02223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Revised: 04/03/2024] [Accepted: 04/23/2024] [Indexed: 05/21/2024]
Abstract
Protein-scaffolded atomically precise metal nanoclusters (NCs) have emerged as a promising class of biofriendly nanoprobes at the forefront of modern research, particularly in the area of sensing. The photoluminescence (PL) intensity of several nanoclusters showed a systematic temperature-dependent fluctuation, but the mechanism remains ambiguous and is poorly understood. We tried to shed some light on this mechanistic aspect by testing a couple of hypotheses: (i) conformational fluctuation of the protein scaffold-mediated PL intensity fluctuation and (ii) PL intensity fluctuation due to the variation in the radiative and nonradiative transition rates. Herein, the PL intensity of the lysozyme-capped copper nanocluster (Lys-Cu NC) showed excellent temperature dependency; upon increasing the temperature, the PL intensity gradually decreased. However, contrasting effects can be seen when the nanocluster is exposed to a chemical denaturant (guanidine hydrochloride (GdnHCl)); the PL intensity increased with the increase in the GdnHCl concentration due to the change in the ionic strength of the medium. This discrepancy clearly suggests that the thermal PL intensity fluctuation cannot be explained by a change in the scaffold conformation. Furthermore, upon closer investigation, we observed a 2-fold increase in the nonradiative decay rate of the Lys-Cu NC at the elevated temperature, which could reasonably explain the decrease in the PL intensity of the nanocluster at the higher temperature. Additionally, from the result, it was evident that the protein scaffold-metal core interaction played a key role here in stabilizing each other; hence, the scaffold structure remained unaffected even in the presence of chemical denaturants.
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Affiliation(s)
- Anna Sebastian
- Department of Chemistry, Indian Institute of Technology Palakkad, Palakkad 678623, Kerala, India
| | - Kavya P
- Department of Chemistry, Indian Institute of Technology Palakkad, Palakkad 678623, Kerala, India
| | - Aarya
- Department of Chemistry, Indian Institute of Technology Palakkad, Palakkad 678623, Kerala, India
| | - Supratik Sen Mojumdar
- Department of Chemistry, Indian Institute of Technology Palakkad, Palakkad 678623, Kerala, India
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5
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Lou H, Luan X, Hu G, Hageman MJ. Development of a drying method for proteins based on protein-hyaluronic acid precipitation. Int J Pharm 2024; 654:123940. [PMID: 38408551 DOI: 10.1016/j.ijpharm.2024.123940] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Revised: 02/21/2024] [Accepted: 02/22/2024] [Indexed: 02/28/2024]
Abstract
This study aims to develop a new method to dry proteins based on protein-hyaluronic acid (HA) precipitation and apply the precipitation-redissolution technique to develop highly concentrated protein formulations. Lysozyme was used as a model protein and HA with various molecular weights (MW) were investigated. Under low ionic strength, low-MW HA (e.g., MW: around 5 K) did not induce lysozyme precipitation. Conversely, high-MW HA (e.g., MW: approximately from 40 K to 1.5 M) precipitated more than 90 % of lysozyme. The dried lysozyme-HA precipitates had moisture levels between 4 % and 5 %. The lysozyme-HA precipitates could be redissolved using PBS (pH 7.4, ionic strength: ∼ 163 mM). The viscosity of the reconstituted solution was dependent on HA MW, e.g., 4 cP for HA40K, and 155 cP for HA1.5 M, suggesting low-MW HA might be a proper excipient for highly concentrated solution formulations for subcutaneous/intraocular injection and high-MW HA may fit for other applications. The tertiary structure of lysozyme after the precipitation-redissolution steps had no significant difference from that of the original lysozyme as confirmed by fluorescence spectroscopy. The denaturation temperature of lysozyme after the precipitation-redissolution steps and that of the original lysozyme were close, indicating they possessed similar thermal stability. The accelerated stability study revealed that lysozyme stored in the dry precipitates was more physically stable than that in the buffer solution. Overall, this new drying technique is suitable for drying proteins and exhibits several benefits such as minimum energy consumption, cost effectiveness, high production yield, and mild processing conditions. In addition, the precipitation-redissolution technique proposed in this study can potentially be used to develop highly concentrated formulations, especially for proteins experiencing poor stability in the liquid state.
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Affiliation(s)
- Hao Lou
- Department of Pharmaceutical Chemistry, The University of Kansas, Lawrence, KS 66047, USA; Biopharmaceutical Innovation & Optimization Center, The University of Kansas, Lawrence, KS 66047, USA
| | - Xi Luan
- Department of Pharmaceutical Chemistry, The University of Kansas, Lawrence, KS 66047, USA
| | - Gang Hu
- Department of Pharmaceutical Chemistry, The University of Kansas, Lawrence, KS 66047, USA; Biopharmaceutical Innovation & Optimization Center, The University of Kansas, Lawrence, KS 66047, USA
| | - Michael J Hageman
- Department of Pharmaceutical Chemistry, The University of Kansas, Lawrence, KS 66047, USA; Biopharmaceutical Innovation & Optimization Center, The University of Kansas, Lawrence, KS 66047, USA.
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6
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Wang Y, Wang B, Gao Y, Nakanishi H, Gao XD, Li Z. Highly efficient expression and secretion of human lysozyme using multiple strategies in Pichia pastoris. Biotechnol J 2023; 18:e2300259. [PMID: 37470505 DOI: 10.1002/biot.202300259] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Revised: 07/11/2023] [Accepted: 07/17/2023] [Indexed: 07/21/2023]
Abstract
BACKGROUND Human lysozyme (hLYZ), an emerging antibacterial agent, has extensive application in the food and pharmaceutical industries. However, the source of hLYZ is particularly limited. RESULTS To achieve highly efficient expression and secretion of hLYZ in Pichia pastoris, multiple strategies including G418 sulfate screening, signal sequence optimization, vacuolar sorting receptor VPS10 disruption, and chaperones/transcription factors co-expression were applied. The maximal enzyme activity of extracellular hLYZ in a shaking flask was 81,600 ± 5230 U mL-1 , which was about five times of original strain. To further reduce the cost, the optimal medium RDMY was developed and the highest hLYZ activity reached 352,000 ± 16,696.5 U mL-1 in a 5 L fermenter. CONCLUSION This research provides a very useful and cost-effective approach for the hLYZ production in P. pastoris and can also be applied to the production of other recombinant proteins.
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Affiliation(s)
- Yasen Wang
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, School of Biotechnology, Ministry of Education, Jiangnan University, Wuxi, Jiangsu, China
| | - Buqing Wang
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, School of Biotechnology, Ministry of Education, Jiangnan University, Wuxi, Jiangsu, China
| | - Yahui Gao
- School of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, China
| | - Hideki Nakanishi
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, School of Biotechnology, Ministry of Education, Jiangnan University, Wuxi, Jiangsu, China
| | - Xiao-Dong Gao
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, School of Biotechnology, Ministry of Education, Jiangnan University, Wuxi, Jiangsu, China
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Sciences, Beijing, China
| | - Zijie Li
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, School of Biotechnology, Ministry of Education, Jiangnan University, Wuxi, Jiangsu, China
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7
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Petri YD, Gutierrez CS, Raines RT. Chemoselective Caging of Carboxyl Groups for On-Demand Protein Activation with Small Molecules. Angew Chem Int Ed Engl 2023; 62:e202215614. [PMID: 36964973 PMCID: PMC10243506 DOI: 10.1002/anie.202215614] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 03/02/2023] [Accepted: 03/24/2023] [Indexed: 03/27/2023]
Abstract
Tools for on-demand protein activation enable impactful gain-of-function studies in biological settings. Thus far, however, proteins have been chemically caged at primarily Lys, Tyr, and Sec, typically through the genetic encoding of unnatural amino acids. Herein, we report that the preferential reactivity of diazo compounds with protonated acids can be used to expand this toolbox to solvent-accessible carboxyl groups with an elevated pKa value. As a model protein, we employed lysozyme (Lyz), which has an active-site Glu35 residue with a pKa value of 6.2. A diazo compound with a bioorthogonal self-immolative handle esterified Glu35 selectively, inactivating Lyz. The hydrolytic activity of the caged Lyz on bacterial cell walls was restored with two small-molecule triggers. The decaging was more efficient by small molecules than by esterases. This simple chemical strategy was also applied to a hemeprotein and an aspartyl protease, setting the stage for broad applicability.
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Affiliation(s)
- Yana D. Petri
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139-4307, USA
| | - Clair S. Gutierrez
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139-4307, USA
| | - Ronald T. Raines
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139-4307, USA
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8
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Bukhdruker S, Varaksa T, Orekhov P, Grabovec I, Marin E, Kapranov I, Kovalev K, Astashkin R, Kaluzhskiy L, Ivanov A, Mishin A, Rogachev A, Gordeliy V, Gilep A, Strushkevich N, Borshchevskiy V. Structural insights into the effects of glycerol on ligand binding to cytochrome P450. Acta Crystallogr D Struct Biol 2023; 79:66-77. [PMID: 36601808 DOI: 10.1107/s2059798322011019] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Accepted: 11/16/2022] [Indexed: 01/06/2023] Open
Abstract
New antitubercular drugs are vital due to the spread of resistant strains. Carbethoxyhexyl imidazole (CHImi) inhibits cytochrome P450 CYP124, which is a steroid-metabolizing enzyme that is important for the survival of Mycobacterium tuberculosis in macrophages. The available crystal structure of the CYP124-CHImi complex reveals two glycerol molecules in the active site. A 1.15 Å resolution crystal structure of the glycerol-free CYP124-CHimi complex reported here shows multiple conformations of CHImi and the CYP124 active site which were previously restricted by glycerol. Complementary molecular dynamics simulations show coherence of the ligand and enzyme conformations. Spectrophotometric titration confirmed the influence of glycerol on CHImi binding: the affinity decreases more than tenfold in glycerol-containing buffer. In addition, it also showed that glycerol has a similar effect on other azole and triazole CYP124 ligands. Together, these data show that glycerol may compromise structural-functional studies and impede rational drug-design campaigns.
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Affiliation(s)
- Sergey Bukhdruker
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Tatsiana Varaksa
- Institute of Bioorganic Chemistry, National Academy of Sciences of Belarus, Minsk 220084, Belarus
| | - Philipp Orekhov
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Irina Grabovec
- Institute of Bioorganic Chemistry, National Academy of Sciences of Belarus, Minsk 220084, Belarus
| | - Egor Marin
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Ivan Kapranov
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Kirill Kovalev
- EMBL Outstation Hamburg, c/o DESY, 22607 Hamburg, Germany
| | - Roman Astashkin
- Institut de Biologie Structurale J.-P. Ebel, Université Grenoble Alpes-CEA-CNRS, 38000 Grenoble, France
| | - Leonid Kaluzhskiy
- Laboratory of Intermolecular Interactions, Institute of Biomedical Chemistry, Moscow 119121, Russian Federation
| | - Alexis Ivanov
- Laboratory of Intermolecular Interactions, Institute of Biomedical Chemistry, Moscow 119121, Russian Federation
| | - Alexey Mishin
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Andrey Rogachev
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
| | - Valentin Gordeliy
- Institut de Biologie Structurale J.-P. Ebel, Université Grenoble Alpes-CEA-CNRS, 38000 Grenoble, France
| | - Andrei Gilep
- Institute of Bioorganic Chemistry, National Academy of Sciences of Belarus, Minsk 220084, Belarus
| | | | - Valentin Borshchevskiy
- Research Center for Molecular Mechanisms of Aging and Age-Related Diseases, Moscow Institute of Physics and Technology, Dolgoprudnyy 141701, Russian Federation
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9
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Behera S, Balasubramanian S. Molecular simulations explain the exceptional thermal stability, solvent tolerance and solubility of protein-polymer surfactant bioconjugates in ionic liquids. Phys Chem Chem Phys 2022; 24:21904-21915. [PMID: 36065955 DOI: 10.1039/d2cp02636h] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/13/2023]
Abstract
Proteins complexed electrostatically with polymer surfactants constitute a viscous liquid by themselves, called the solvent-free protein liquid (SFPL). A solution of SFPL in a room temperature ionic liquid (PS-IL) offers the protein hyperthermal stability, higher solubility and greater IL tolerance. A generic understanding of these protein-polymer systems is obtained herein through extensive atomistic molecular dynamics simulations of three different enzymes (lipase A, lysozyme and myoglobin) under various conditions. Along with increased intra-protein hydrogen bonding, the surfactant coating around the proteins imparts greater thermal stability, and also aids in screening protein-IL interactions, endowing them IL tolerance. The reduced surface polarity of the protein-polymer bioconjugate and hydrogen bonding between the ethylene glycol groups of the surfactant and the IL cation contribute to the facile solvation of the protein in its PS-IL form. The results presented here rationalize several experimental observations and will aid in the improved design of such hybrid materials for sustainable catalysis.
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Affiliation(s)
- Sudarshan Behera
- Chemistry and Physics of Materials Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560 064, India.
| | - Sundaram Balasubramanian
- Chemistry and Physics of Materials Unit, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore 560 064, India.
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10
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Moncalvo F, Lacroce E, Franzoni G, Altomare A, Fasoli E, Aldini G, Sacchetti A, Cellesi F. Selective Protein Conjugation of Poly(glycerol monomethacrylate) and Poly(polyethylene glycol methacrylate) with Tunable Topology via Reductive Amination with Multifunctional ATRP Initiators for Activity Preservation. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c00783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Filippo Moncalvo
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
| | - Elisa Lacroce
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
| | - Giulia Franzoni
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
| | - Alessandra Altomare
- Department of Pharmaceutical Sciences (DISFARM), University of Milan, 20133 Milan, Italy
| | - Elisa Fasoli
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
| | - Giancarlo Aldini
- Department of Pharmaceutical Sciences (DISFARM), University of Milan, 20133 Milan, Italy
| | - Alessandro Sacchetti
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
| | - Francesco Cellesi
- Department of Chemistry, Materials and Chemical Engineering “G. Natta”, Politecnico di Milano, via Mancinelli 7, Milano 20131, Italy
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11
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Yadav N, Venkatesu P. Current understanding and insights towards protein stabilization and activation in deep eutectic solvents as sustainable solvent media. Phys Chem Chem Phys 2022; 24:13474-13509. [PMID: 35640592 DOI: 10.1039/d2cp00084a] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Deep eutectic solvents (DESs) have emerged as a new class of green, designer and biocompatible solvents, an alternative to conventional organic solvents and ionic liquids (ILs) which are comparatively toxic and non-biodegradable. DESs are eutectic mixtures that are formed when a hydrogen bond acceptor (HBA) is mixed with a hydrogen bond donor (HBD) at particular molar ratios by mechanical grinding or under mild heating conditions. Very recently, these solvents have been the center of attention for researchers in biotechnology, biomedicine and various scientific applications. These environmentally benign solvents have a close analogy with ILs; however, they offer certain unique merits over traditional ILs. DESs display remarkable properties such as easy preparation, tunable composition, biodegradability, recyclability, inherently low toxicity, sustainability and biocompatibility; these special features validate DESs as new potential solvents/co-solvents for biomolecules. Mechanistically, the biocompatibility and protein friendly nature of DESs depend on various factors, which include the composition of the DES, viscosity and hydration level. Therefore, it becomes an essential task to bring together all the studies related to protein behaviour in DESs to unlock their biomolecular proficiency. This review specifically highlights recent insights into the biomacromolecular functionality in DESs, including outlines of the solubilization and stabilization of proteins, long term protein packaging, different extraction methods and enzyme activation in the presence of DESs. A literature survey reveals that DESs act as green media in which the protein structure and activity are retained. In some cases, proteins refolded and enzymatic activity was enhanced several fold in the presence of DESs. Furthermore, we have reviewed the possible mechanistic behaviour behind protein stabilization, refolding and activation in DESs. Overall, the main objective of this review is to explicate the advantages of the introduction of DESs for biomolecules and to demonstrate the versatility of these eco-friendly solvents for future bio-based applications.
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Affiliation(s)
- Niketa Yadav
- Department of Chemistry, University of Delhi, Delhi-110 007, India.
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12
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Joy A, Biswas R. Molecular Insight into the High Thermal Stability of Metalloprotein Azurin. J Phys Chem B 2022; 126:2496-2506. [PMID: 35324174 DOI: 10.1021/acs.jpcb.2c00622] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We investigate the events characterizing the steps of the unfolding pathway of blue copper metalloprotein azurin using replica exchange molecular dynamics (REMD). Our studies show that the unfolding of azurin begins with the melting of α-helix and β-sheets II and V. This is followed by the melting of other β-sheets and the exposure of hydrophobic protein core to the solvent, resulting in disruptions of its tertiary structure. Free energy surfaces constructed at different temperatures portray different basins that signify the stability of different melted structures in the unfolding process. The contact maps at different temperatures reveal that the strong hydrophobic interaction within the core of the protein is the vital force that renders high stability to this protein. Analysis of the individual β-sheets by looking into their amino acid sequence shows that β-sheets with charged side chains on the surface melt fast compared to others. The β-barrel of azurin is able to dynamically rearrange, and it helps the protein to preserve its hydrophobic core, holding back the native topology from melting fast. B-factor analysis shows that residues of β-sheets III, IV, and VII deviate less from their initial structure at the transition temperature.
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Affiliation(s)
- Albin Joy
- Department of Chemistry, Indian Institute of Technology Tirupati, Yerpedu 517619, Andhra Pradesh, India
| | - Rajib Biswas
- Department of Chemistry and Center for Atomic, Molecular and Optical Sciences & Technologies, Indian Institute of Technology Tirupati, Yerpedu 517619, Andhra Pradesh, India
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13
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Fatkhutdinova A, Mukhametzyanov T, Schick C. Refolding of Lysozyme in Glycerol as Studied by Fast Scanning Calorimetry. Int J Mol Sci 2022; 23:2773. [PMID: 35269914 PMCID: PMC8911483 DOI: 10.3390/ijms23052773] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2022] [Revised: 02/22/2022] [Accepted: 02/26/2022] [Indexed: 02/01/2023] Open
Abstract
The folding of lysozyme in glycerol was monitored by the fast scanning calorimetry technique. Application of a temperature-time profile with an isothermal segment for refolding allowed assessment of the state of the non-equilibrium protein ensemble and gave information on the kinetics of folding. We found that the non-equilibrium protein ensemble mainly contains a mixture of unfolded and folded protein forms and partially folded intermediates, and enthalpic barriers control the kinetics of the process. Lysozyme folding in glycerol follows the same or similar triangular mechanism described in the literature for folding in water. The unfolding enthalpy of the intermediate must be no lower than 70% of the folded form, while the activation barrier for the unfolding of the intermediate (ca. 140 kJ/mol) is about 100 kJ/mol lower than that of the folded form (ca. 240-260 kJ/mol).
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Affiliation(s)
- Alisa Fatkhutdinova
- A.M.Butlerov Chemical Institute, Kazan Federal University, Kremlevskaya 18, 420008 Kazan, Russia
| | - Timur Mukhametzyanov
- A.M.Butlerov Chemical Institute, Kazan Federal University, Kremlevskaya 18, 420008 Kazan, Russia
| | - Christoph Schick
- A.M.Butlerov Chemical Institute, Kazan Federal University, Kremlevskaya 18, 420008 Kazan, Russia
- Institute of Physics and Competence Centre CALOR, University of Rostock, Albert-Einstein-Str. 23-24, 18051 Rostock, Germany
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14
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Conformational Consequences for Compatible Osmolytes on Thermal Denaturation. Life (Basel) 2021; 11:life11121394. [PMID: 34947925 PMCID: PMC8708791 DOI: 10.3390/life11121394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Revised: 12/06/2021] [Accepted: 12/07/2021] [Indexed: 11/17/2022] Open
Abstract
Compatible osmolytes are a broad class of small organic molecules employed by living systems to combat environmental stress by enhancing the native protein structure. The molecular features that make for a superior biopreservation remain elusive. Through the use of time-resolved and steady-state spectroscopic techniques, in combination with molecular simulation, insight into what makes one molecule a more effective compatible osmolyte can be gained. Disaccharides differing only in their glycosidic bonds can exhibit different degrees of stabilization against thermal denaturation. The degree to which each sugar is preferentially excluded may explain these differences. The present work examines the biopreservation and hydration of trehalose, maltose, and gentiobiose.
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15
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Kristó K, Manteghi R, Ibrahim YHEY, Ungor D, Csapó E, Berkesi D, Kónya Z, Csóka I. Optimization of layering technique and secondary structure analysis during the formulation of nanoparticles containing lysozyme by quality by design approach. PLoS One 2021; 16:e0260603. [PMID: 34882727 PMCID: PMC8659335 DOI: 10.1371/journal.pone.0260603] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Accepted: 11/13/2021] [Indexed: 12/03/2022] Open
Abstract
In our study, core-shell nanoparticles containing lysozyme were formulated with precipitation and layering self-assembly. Factorial design (DoE) was applied by setting the process parameters during the preparation with Quality by Design (QbD) approach. The factors were the concentration of lysozyme and sodium alginate, and pH. Our aim was to understand the effect of process parameters through the determination of mathematical equations, based on which the optimization parameters can be predicted under different process parameters. The optimization parameters were encapsulation efficiency, particle size, enzyme activity and the amount of α-helix structure. The nanoparticles were analysed with transmission electron microscopy (TEM), Fourier-transform infrared spectroscopy (FTIR) and circular dichroism (CD) spectroscopy. Based on our results, we found that pH was the most important factor and pH 10 was recommended during the formulation. Enzyme activity and α-helix content correlated with each other very well, and particle size and encapsulation efficiency also showed very good correlation with each other. The results of the α-helix content of FTIR and CD measurements were very similar for the precipitated lysozyme due to the solid state of lysozyme. The mixing time had the best influence on the encapsulation efficiency and the particle size, which leads to the conclusion that a mixing time of 1 h is recommended. The novelty in our study is the presentation of a mathematical model with which the secondary structure of the protein and other optimization parameters can be controlled in the future during development of nanoparticle based on the process parameters.
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Affiliation(s)
- Katalin Kristó
- Institute of Pharmaceutical Technology and Regulatory Affairs, University of Szeged, Szeged, Hungary
| | - Reihaneh Manteghi
- Institute of Pharmaceutical Technology and Regulatory Affairs, University of Szeged, Szeged, Hungary
| | - Yousif H-E. Y. Ibrahim
- Institute of Pharmaceutical Technology and Regulatory Affairs, University of Szeged, Szeged, Hungary
| | - Ditta Ungor
- Department of Physical Chemistry and Materials Science, MTA-SZTE Lendület “Momentum” Noble Metal Nanostructures Research Group, Interdisciplinary Excellence Center, University of Szeged, Szeged, Hungary
| | - Edit Csapó
- Department of Physical Chemistry and Materials Science, MTA-SZTE Lendület “Momentum” Noble Metal Nanostructures Research Group, Interdisciplinary Excellence Center, University of Szeged, Szeged, Hungary
- Department of Medical Chemistry, MTA-SZTE Biomimetic Systems Research Group, University of Szeged, Szeged, Hungary
| | - Dániel Berkesi
- Department of Applied and Environmental Chemistry, University of Szeged, Szeged, Hungary
| | - Zoltán Kónya
- Department of Applied and Environmental Chemistry, University of Szeged, Szeged, Hungary
| | - Ildikó Csóka
- Institute of Pharmaceutical Technology and Regulatory Affairs, University of Szeged, Szeged, Hungary
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16
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The Impact of Glycerol on an Affibody Conformation and Its Correlation to Chemical Degradation. Pharmaceutics 2021; 13:pharmaceutics13111853. [PMID: 34834267 PMCID: PMC8618440 DOI: 10.3390/pharmaceutics13111853] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 10/27/2021] [Accepted: 10/31/2021] [Indexed: 11/21/2022] Open
Abstract
The addition of glycerol to protein solutions is often used to hinder the aggregation and denaturation of proteins. However, it is not a generalised practice against chemical degradation reactions. The chemical degradation of proteins, such as deamidation and isomerisation, is an important deteriorative mechanism that leads to a loss of functionality of pharmaceutical proteins. Here, the influence of glycerol on the chemical degradation of a protein and its correlation to glycerol-induced conformational changes is presented. The time-dependent chemical degradation of a pharmaceutical protein, GA-Z, in the absence and presence of glycerol was investigated in a stability study. The effect of glycerol on protein conformation and oligomerisation was characterised using asymmetric field-flow fractionation and small-angle neutron scattering in a wide glycerol concentration range of 0–90% v/v. The results from the stability study were connected to the observed glycerol-induced conformational changes in the protein. A correlation between protein conformation and the protective effect of glycerol against the degradation reactions deamidation, isomerisation, and hydrolysis was found. The study reveals that glycerol induces conformational changes of the protein, which favour a more compact and chemically stable state. It is also shown that the conformation can be changed by other system properties, e.g., protein concentration, leading to increased chemical stability.
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Kalra S, Dhamannapatil P, Panda S, Singh S, Sarwalia P, Mohanty AK, Datta TK, Kaushik JK. Recombinant expression and molecular characterization of buffalo sperm lysozyme-like protein 1. Protein Expr Purif 2021; 190:105993. [PMID: 34656738 DOI: 10.1016/j.pep.2021.105993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2021] [Revised: 10/11/2021] [Accepted: 10/12/2021] [Indexed: 10/20/2022]
Abstract
Several sperm lysozyme-like genes evolved from lysozyme by successive duplications and mutations; however their functional role in the reproduction of farm animals is not well understood. To understand the function and molecular properties of buffalo sperm lysozyme-like protein 1 (buSLLP1), it was expressed in E. coli; however, it partitioned to inclusion bodies. Lowering of temperature and inducer concentration did not help in the recovery of the expressed protein in the biologically active form. Therefore, buSLLP1 was cloned and expressed in Pichiapink system based on auxotrophic Pichia pastoris in a labscale fermenter. The expressed protein was obtained in flow-through by using a 30 kDa ultrafiltration membrane followed by MonoQ anion exchange chromatography, resulting in a homogenous preparation of 40 mg recombinant buSLLP1 per liter of initial spent culture-supernatant. Circular dichroism spectroscopy showed that recombinant buSLLP1 possessed a native-like secondary structure. The recombinant buSLLP1 also showed thermal denaturation profile typical of folded globular proteins; however, the thermal stability was lower than the hen egg white lysozyme. Binding of buSLLP1 to chitin and zona pellucida of buffalo oocytes showed that the recombinant buSLLP1 possessed a competent binding pocket, therefore, the produced protein could be used to study its functional role in the reproduction of farm animals.
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Affiliation(s)
- Shalini Kalra
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Prakash Dhamannapatil
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Santanu Panda
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Surender Singh
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Parul Sarwalia
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Ashok Kumar Mohanty
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Tirtha Kumar Datta
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India
| | - Jai Kumar Kaushik
- Animal Biotechnology Centre, ICAR-National Dairy Research Institute, Karnal, 132001, India.
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18
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Komorek P, Jachimska B, Brand I. Adsorption of lysozyme on gold surfaces in the presence of an external electric potential. Bioelectrochemistry 2021; 142:107946. [PMID: 34507162 DOI: 10.1016/j.bioelechem.2021.107946] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 07/30/2021] [Accepted: 08/29/2021] [Indexed: 10/20/2022]
Abstract
Adsorbed protein films consist of essential building blocks of many biotechnological and biomedical devices. The electrostatic potential may significantly modulate the protein behaviour on surfaces, affecting their structure and biological activity. In this study, lysozyme was used to investigate the effects of applied electric potentials on adsorption and the protein structure. The pH and the surface charge determine the amount and secondary structure of adsorbed lysozyme on a gold surface. In-situ measurements using polarization modulation infrared reflection absorption spectroscopy indicated that the concentration of both the adsorbed anions and the lysozyme led to conformational changes in the protein film, which was demonstrated by a greater amount of aggregated β-sheets in films fabricated at net positive charges of the Au electrode (Eads > Epzc). The changes in secondary structure involved two parallel processes. One comprised changes in the hydration/hydrogen-bond network at helices, leading to diverse helical structures: α-, 310- and/or π-helices. In the second process β-turns, β-sheets, and random coils displayed an ability to form aggregated β-sheet structures. The study illuminates the understanding of electrical potential-dependent changes involved in the protein misfolding process.
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Affiliation(s)
- Paulina Komorek
- Jerzy Haber Institute of Catalysis and Surface Chemistry Polish Academy of Sciences, Niezapominajek 8, 30-239 Cracow, Poland
| | - Barbara Jachimska
- Jerzy Haber Institute of Catalysis and Surface Chemistry Polish Academy of Sciences, Niezapominajek 8, 30-239 Cracow, Poland.
| | - Izabella Brand
- Department of Chemistry, University of Oldenburg, 26111 Oldenburg, Germany.
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19
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Fahim A, Annunziata O. Effect of a Good buffer on the fate of metastable protein-rich droplets near physiological composition. Int J Biol Macromol 2021; 186:519-527. [PMID: 34265335 DOI: 10.1016/j.ijbiomac.2021.07.015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2021] [Revised: 07/01/2021] [Accepted: 07/02/2021] [Indexed: 10/20/2022]
Abstract
Metastable protein-rich microdroplets are produced from liquid-liquid phase separation (LLPS) of protein aqueous solutions. These globules can be intermediates for the formation of other protein-rich phases. Lysozyme aqueous solutions undergo LLPS around 0 °C in the presence of NaCl near physiological conditions. Here, it is shown that insertion of small amounts of 4-(2-hydroxyethyl)-1-piperazineethanesulfonate (HEPES, 0.1 M) as a second additive to lysozyme-NaCl-water solutions near physiological ionic strength (0.2 M) is an essential step for triggering conversion of protein-rich droplets into another phase. Specifically, LLPS induced by cooling reproducibly leads to a rapid and high-yield formation of compact tetragonal crystalline microparticles only in the presence of HEPES. These microcrystals exhibit small size (1-3 μm), narrow size distribution and guest-binding properties. The temperature-concentration phase diagram shows a characteristic topology with LLPS boundary metastable with respect to tetragonal microcrystals, which in turn become less stable than rod-shaped orthorhombic crystals above 40 °C. Interestingly, dynamic light scattering, hydrogen-ion titrations and isothermal titration calorimetry reveal that lysozyme-HEPES interactions were found to be weakly attractive and exothermic. Our findings indicate that additives of salting-in type can represent an important factor controlling the fate of metastable protein-rich microdroplets relevant to drug formulations, femtosecond crystallography, and potential implications in protein-driven cytoplasmic compartmentalization.
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Affiliation(s)
- Aisha Fahim
- Department of Chemistry and Biochemistry, Texas Christian University, 2950 W. Bowie St., Sid Richardson Bldg. #438, Fort Worth, TX 76129, USA
| | - Onofrio Annunziata
- Department of Chemistry and Biochemistry, Texas Christian University, 2950 W. Bowie St., Sid Richardson Bldg. #438, Fort Worth, TX 76129, USA..
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20
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Panda A, Shettar A, Sharma PK, Repka MA, Murthy SN. Development of lysozyme loaded microneedles for dermal applications. Int J Pharm 2021; 593:120104. [PMID: 33278495 DOI: 10.1016/j.ijpharm.2020.120104] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 11/12/2020] [Accepted: 11/15/2020] [Indexed: 10/22/2022]
Abstract
Microneedles are being widely explored for dermal delivery of macromolecules. They have the capability and the potential for entrapping enzymes such as lysozyme within a polymeric matrix that do not alter the protein integrity, enable a bolus or a sustained release. In this study, polymeric microneedles have been used to entrap lysozyme (14 kDa) using biodegradable and dissolving polymers such as Polyvinylpyrrolidone (PVP), Hyaluronic acid (HA), and Poly lactic co glycolic acid (PLGA). Microneedles were fabricated using mold casting technique. The structural strength was determined using texture analyzer where PLGA microneedles (16.56 ± 0.23 g) required a significantly higher puncture force as compared to PVP and HA microneedles (12.10 ± 0.04 g and 11.40 ± 0.32 g respectively). The release profile showed an instantaneous release in the case of PVP and HA with almost 50% of the drug released within the first 20 min in both cases and remaining drug was released within the next 2 h whereas Lysozyme entrapped in PLGA showed a release of 29.53 ± 0.78% of lysozyme 72 h. Lysozyme entrapped in microneedles was characterized using circular dichroism and SDS-page analysis for structural stability post microneedle fabrication. The stability studies were performed on these polymeric microneedles for understanding its delivery potential of bio-active lysozyme. At the end of 90 days lysozyme concentration entrapped was 90.35 ± 0.06% 93.76 ± 0.34% 91.74 ± 0.37% for PVP, HA and PLGA respectively. The protein integrity remained intact for three months (α + β) sheets remained intact in the three different polymeric microneedles. The enzyme assay showed that the enzyme entrapped inside microneedles is biologically active and could be used to lyse bacterial infections for dermal applications. However, a detailed analysis of protein formulations would be useful for extending microneedles applications in wounds, skin infections.
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Affiliation(s)
- Apoorva Panda
- Department of Pharmaceutics and Drug Delivery, School of Pharmacy, University of Mississippi, MS-38677, United States
| | - Abhishek Shettar
- Department of Pharmaceutics and Drug Delivery, School of Pharmacy, University of Mississippi, MS-38677, United States
| | - Purnendu Kumar Sharma
- Department of Pharmaceutics and Drug Delivery, School of Pharmacy, University of Mississippi, MS-38677, United States
| | - Michael A Repka
- Department of Pharmaceutics and Drug Delivery, School of Pharmacy, University of Mississippi, MS-38677, United States
| | - S Narasimha Murthy
- Department of Pharmaceutics and Drug Delivery, School of Pharmacy, University of Mississippi, MS-38677, United States; Institute for Drug Delivery and Biomedical Research, Bangalore, India.
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21
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Kumari P, Kumari M, Kashyap HK. How Pure and Hydrated Reline Deep Eutectic Solvents Affect the Conformation and Stability of Lysozyme: Insights from Atomistic Molecular Dynamics Simulations. J Phys Chem B 2020; 124:11919-11927. [DOI: 10.1021/acs.jpcb.0c09873] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Pratibha Kumari
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Monika Kumari
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Hemant K. Kashyap
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
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22
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Dong X, Zhang YQ. An insight on egg white: From most common functional food to biomaterial application. J Biomed Mater Res B Appl Biomater 2020; 109:1045-1058. [PMID: 33252178 DOI: 10.1002/jbm.b.34768] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Accepted: 11/13/2020] [Indexed: 02/06/2023]
Abstract
Natural egg white tis widely used as an ingredient in nutritional foods and for food processing. Due to its characteristic foaming, emulsification, adhesion, and gelation, and its heat setting, biocompatibility, and low cost, research into the application and development of egg white in biomaterials, especially medical biomaterials, have been receiving attention. The composition and characteristics of egg white protein, and the physical mixing and chemically cross-linking of egg white with other materials used to make degradable packaging films, bioceramics, bioplastics, biomimetic films, hydrogels, 3D scaffolds, bone regeneration, biopatterning, biosensors, and so forth, are reviewed in detail in this report. The novel egg white-based biomaterials in various forms and applications could be constructed mostly through physical treatments such as ultrasonic wave, ultraviolet, laser and other radiation or high-temperature calcination. Furthermore, the application and prospects for the use of egg white in biomaterials is also discussed.
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Affiliation(s)
- Xuan Dong
- Department of Applied Biology, School of Biology and Basic Medical Sciences, Soochow University, Suzhou, China
| | - Yu-Qing Zhang
- Department of Applied Biology, School of Biology and Basic Medical Sciences, Soochow University, Suzhou, China
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23
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Chaudhary K, Bhakuni K, Mogha NK, Venkatesu P, Masram DT. Sustainable Solvothermal Conversion of Waste Biomass to Functional Carbon Material: Extending Its Utility as a Biocompatible Cosolvent for Lysozyme. ACS Biomater Sci Eng 2020; 6:4881-4892. [PMID: 33455285 DOI: 10.1021/acsbiomaterials.0c00461] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Functional carbon material synthesis from waste biomass by a sustainable method is of prime importance and has wide variety of applications. Herein, functional carbon materials with structural variability are synthesized using a well-known solvothermal method. The leftover pulp waste biomass (PB) of citrus limetta is converted to functional carbon by treatment with a mixture of choline bitartrate (ChBt) and FeCl3 (1:2 mol ratio) as a solvent. The biomass to solvent ratio is varied as 1:1, 0.8:1, and 0.4:1 during solvothermal treatment to obtain PB-1, PB-2, and PB-3 as functional carbon materials, respectively. On characterization, PB carbon materials were found to be rich in oxygen-containing functional groups possessing different morphologies. Furthermore, results suggested the role of solvent as a soft template and catalyst during the synthesis of carbon materials. The feasibility of synthesized carbon materials as a biocompatible cosolvent for lysozyme was evaluated. In the case of PB-2 material (synthesized using 0.8:1 biomass to solvent ratio), results show an enhancement of lysozyme activity by 150%. Besides, spectroscopic and calorimetric data confirm the preservation of thermal and structural stability of lysozyme in the PB-2 solution. Thus, this study stipulates PB-2 as an excellent cosolvent for protein studies. With this work, we aim to delve into an entirely new arena of applications of biomass in the field of biotechnology.
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Affiliation(s)
- Karan Chaudhary
- Department of Chemistry, University of Delhi, Delhi 110 007, India
| | - Kavya Bhakuni
- Department of Chemistry, University of Delhi, Delhi 110 007, India
| | | | | | - Dhanraj T Masram
- Department of Chemistry, University of Delhi, Delhi 110 007, India
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24
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Structure of soft and hard protein corona around polystyrene nanoplastics—Particle size and protein types. Biointerphases 2020; 15:051002. [DOI: 10.1116/6.0000404] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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25
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Garcia RA, Qi PX, Essandoh M, Bumanlag LP. Enhancement of protein flocculant properties through carboxyl group methylation and the relationship with protein structural changes. J DISPER SCI TECHNOL 2020. [DOI: 10.1080/01932691.2020.1793163] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Affiliation(s)
- Rafael A. Garcia
- United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, Biobased and Other Animal Coproducts Research Unit, Wyndmoor, Pennsylvania, USA
| | - Phoebe X. Qi
- United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, Dairy and Functional Foods Research Unit, Wyndmoor, Pennsylvania, USA
| | - Matthew Essandoh
- United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, Biobased and Other Animal Coproducts Research Unit, Wyndmoor, Pennsylvania, USA
| | - Lorelie P. Bumanlag
- United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, Biobased and Other Animal Coproducts Research Unit, Wyndmoor, Pennsylvania, USA
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26
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Quasi-native transition and self-diffusion of proteins in water-glycerol mixture. Biophys Chem 2020; 257:106274. [DOI: 10.1016/j.bpc.2019.106274] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2019] [Revised: 10/10/2019] [Accepted: 10/21/2019] [Indexed: 01/03/2023]
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27
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Islam MM, Barik S, Preeyanka N, Sarkar M. Interaction of Lysozyme with Monocationic and Dicationic Ionic Liquids: Toward Finding a Suitable Medium for Biomacromolecules. J Phys Chem B 2020; 124:961-973. [DOI: 10.1021/acs.jpcb.9b10270] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Mullah Muhaiminul Islam
- School of Chemical Sciences, National Institute of Science Education and Research, Bhubaneswar, HBNI, Bhimpur-Padanpur,
Jatni, Khurda, Bhubaneswar 752050, Odisha, India
| | - Sahadev Barik
- School of Chemical Sciences, National Institute of Science Education and Research, Bhubaneswar, HBNI, Bhimpur-Padanpur,
Jatni, Khurda, Bhubaneswar 752050, Odisha, India
| | - Naupada Preeyanka
- School of Chemical Sciences, National Institute of Science Education and Research, Bhubaneswar, HBNI, Bhimpur-Padanpur,
Jatni, Khurda, Bhubaneswar 752050, Odisha, India
| | - Moloy Sarkar
- School of Chemical Sciences, National Institute of Science Education and Research, Bhubaneswar, HBNI, Bhimpur-Padanpur,
Jatni, Khurda, Bhubaneswar 752050, Odisha, India
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28
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Effects of ink characteristics and piezo-electric inkjetting parameters on lysozyme activity. Sci Rep 2019; 9:18252. [PMID: 31796852 PMCID: PMC6890784 DOI: 10.1038/s41598-019-54723-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2019] [Accepted: 11/06/2019] [Indexed: 12/21/2022] Open
Abstract
Inkjet printing of enzymes can facilitate many novel applications where a small amount of materials need to be deposited in a precise and flexible manner. However, maintaining the satisfactory activity of inkjet printed enzyme is a challenging task due to the requirements of ink rheology and printhead parameters. Thus to find optimum inkjetting conditions we studied the effects of several ink formulation and jetting parameters on lysozyme activity using a piezoelectric printhead. Within linear activity range of protein concentrations ink containing 50 µg/mL lysozyme showed a satisfactory activity retention of 85%. An acceptable activity of jetted ink was found at pH 6.2 and ionic strength of 0.06 molar. Glycerol was found to be an effective viscosity modifier (10–15 mPa.s), humectant and protein structure stabilizer for the prepared ink. A non-ionic surfactant when used just below critical micelle concentration was found to be favourable for the jetted inks. An increase in activity retention was observed for inks jetted after 24 hours of room temperature incubation. However, no additional activity was seen for inkjetting above the room temperature. Findings of this study would be useful for formulating other protein-based inks and setting their inkjet printing parameters without highly compromising the functionality.
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29
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The Effect of Dimethyl Sulfoxide on the Lysozyme Unfolding Kinetics, Thermodynamics, and Mechanism. Biomolecules 2019; 9:biom9100547. [PMID: 31569484 PMCID: PMC6843525 DOI: 10.3390/biom9100547] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2019] [Revised: 09/26/2019] [Accepted: 09/27/2019] [Indexed: 02/07/2023] Open
Abstract
The thermal stability of proteins in the presence of organic solvents and the search for ways to increase this stability are important topics in industrial biocatalysis and protein engineering. The denaturation of hen egg-white lysozyme in mixtures of water with dimethyl sulfoxide (DMSO) with a broad range of compositions was studied using a combination of differential scanning calorimetry (DSC), circular dichroism (CD), and spectrofluorimetry techniques. In this study, for the first time, the kinetics of unfolding of lysozyme in DMSO–water mixtures was characterized. In the presence of DMSO, a sharp decrease in near-UV CD and an increase in the fluorescence signal were observed at lower temperatures than the DSC denaturation peak. It was found that differences in the temperatures of the CD and DSC signal changes increase as the content of DMSO increases. Changes in CD and fluorescence are triggered by a break of the tertiary contacts, leading to an intermediate state, while the DSC peak corresponds to a subsequent complete loss of the native structure. In this way, the commonly used two-state model was proven to be unsuitable to describe the unfolding of lysozyme in the presence of DMSO. In kinetic studies, it was found that even high concentrations of DMSO do not drastically change the activation energy of the initial stage of unfolding associated with a disruption of the tertiary structure, while the enthalpy of denaturation shows a significant dependence on DMSO content. This observation suggests that the structure of the transition state upon unfolding remains similar to the structure of the native state.
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Chakraborti S, Korpi A, Kumar M, Stępień P, Kostiainen MA, Heddle JG. Three-Dimensional Protein Cage Array Capable of Active Enzyme Capture and Artificial Chaperone Activity. NANO LETTERS 2019; 19:3918-3924. [PMID: 31117758 DOI: 10.1021/acs.nanolett.9b01148] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Development of protein cages for encapsulation of active enzyme cargoes and their subsequent arrangement into a controllable three-dimensional array is highly desirable. However, cargo capture is typically challenging because of difficulties in achieving reversible assembly/disassembly of protein cages in mild conditions. Herein we show that by using an unusual ferritin cage protein that undergoes triggerable assembly under mild conditions, we can achieve reversible filling with protein cargoes including an active enzyme. We demonstrate that these filled cages can be arrayed in three-dimensional crystal lattices and have an additional chaperone-like effect, increasing both thermostability and enzymatic activity of the encapsulated enzyme.
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Affiliation(s)
- Soumyananda Chakraborti
- Bionanoscience and Biochemistry Laboratory, Malopolska Centre of Biotechnology , Jagiellonian University , Gronostajowa 7A , 30-387 Krakow , Poland
| | - Antti Korpi
- Biohybrid Materials, Department of Bioproducts and Biosystems , Aalto University , FI-00076 Aalto , Finland
| | - Mantu Kumar
- Bionanoscience and Biochemistry Laboratory, Malopolska Centre of Biotechnology , Jagiellonian University , Gronostajowa 7A , 30-387 Krakow , Poland
- Postgraduate School of Molecular Medicine ; Żwirki i Wigury 61 , 02-091 Warsaw , Poland
| | - Piotr Stępień
- Bionanoscience and Biochemistry Laboratory, Malopolska Centre of Biotechnology , Jagiellonian University , Gronostajowa 7A , 30-387 Krakow , Poland
| | - Mauri A Kostiainen
- Biohybrid Materials, Department of Bioproducts and Biosystems , Aalto University , FI-00076 Aalto , Finland
| | - Jonathan G Heddle
- Bionanoscience and Biochemistry Laboratory, Malopolska Centre of Biotechnology , Jagiellonian University , Gronostajowa 7A , 30-387 Krakow , Poland
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Arunkumar R, Drummond CJ, Greaves TL. FTIR Spectroscopic Study of the Secondary Structure of Globular Proteins in Aqueous Protic Ionic Liquids. Front Chem 2019; 7:74. [PMID: 30815435 PMCID: PMC6381012 DOI: 10.3389/fchem.2019.00074] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2018] [Accepted: 01/28/2019] [Indexed: 11/13/2022] Open
Abstract
Protein misfolding is a detrimental effect which can lead to the inactivation of enzymes, aggregation, and the formation of insoluble protein fibrils called Amyloids. Consequently, it is important to understand the mechanism of protein folding, and under which conditions it can be avoided or mitigated. Ionic liquids (ILs) have previously been shown as capable of increasing or decreasing protein stability, depending on the specific IL, IL concentration and which protein. However, a greater range of IL-proteins need to be systematically explored to enable the development of structure-property relationships. In this work, the secondary structure of four proteins, lysozyme, trypsin, β-lactoglobulin and α-amylase, were studied in aqueous solutions of 10 protic ionic liquids (PILs) with 0-50 mol% PIL present. The PILs consisted of ethyl-, ethanol-, diethanol- and triethanolammonium cations paired with nitrate, formate, acetate or glycolate anions. The secondary structure was obtained using ATR-FTIR spectroscopy. It was found that lysozyme and trypsin retained its secondary structure, consistent with a native folded state, for many of the aqueous IL solutions which contained a formate or nitrate anion at the most dilute concentrations. In contrast, α-amylase and β-lactoglobulin generally had poor stability and solubility in the IL solutions. This may be due to the isoelectric point of α-amylase and β-lactoglobulin being closer to the pH of the solvents. All four proteins were insoluble in ethyl-, ethanol- and diethanolammonium acetate, though α-amylase and trypsin retained their secondary structure in up to 20 and 30 mol% of triethanolammonium acetate, respectively. It was evident that the protein stability varied substantially depending on the protein-IL combination, and the IL concentration in water. Overall, the findings indicated that some ions and some ILs were in general better for protein solubility and stability than others, such as acetate leading to poor solubility, and EAN and EAF generally leading to better protein stability than the other PILs. This study of four proteins in 10 aqueous PILs clearly showed that there are many complexities in their interactions and no clear general trend, despite the similarities between the PIL structures. This highlights the need for more and larger studies to enable the selection and optimization of PIL solvents used with biomolecules.
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Affiliation(s)
| | | | - Tamar L. Greaves
- School of Science, College of Science, Engineering and Health, RMIT University, Melbourne, VIC, Australia
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32
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Proline functionalized gold nanoparticles modulates lysozyme fibrillation. Colloids Surf B Biointerfaces 2019; 174:401-408. [DOI: 10.1016/j.colsurfb.2018.11.032] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2018] [Revised: 10/29/2018] [Accepted: 11/14/2018] [Indexed: 11/20/2022]
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33
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Singh AK, Burada PS, Bhattacharya S, Bag S, Bhattacharya A, Dasgupta S, Roy A. Microwave-radiation-induced molecular structural rearrangement of hen egg-white lysozyme. Phys Rev E 2018; 97:052416. [PMID: 29906821 DOI: 10.1103/physreve.97.052416] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2017] [Indexed: 11/07/2022]
Abstract
We have investigated the nonthermal effect of 10 GHz/22 dBm microwave radiation on hen egg-white lysozyme (HEWL) over different irradiation times, ranging from 2 min to 1 h. To ensure a control over the radiation parameters, a pair of microwave rectangular waveguides is used to irradiate the samples. Optical spectroscopic measurements, which include UV-visible absorption spectroscopy, Raman spectroscopy, and far UV CD spectroscopy, reveal the exposure of the buried tryptophan (Trp) residues of the native molecule between 15 and 30 min of radiation. The higher duration of the perturbation leads to a compact structure of the protein and Trp residues are buried again. Interestingly, we do not find any change in the secondary structure of the protein even for 1 h duration of radiation. The relaxation dynamics of the irradiated molecules also has been discussed. We have shown that the molecules relax to their native configuration in 7-8 h after the radiation field is turned off. The structural rearrangement over the above timescale has further been probed by a model calculation, based on a modified Langevin equation. Our coarse-grained simulation approach utilizes the mean of atomic positions and net atomic charge of each amino acid of native HEWL to mimic the initial conformation of the molecule. The modified positions of the residues are then calculated for the given force fields. The simulation results reveal the nonmonotonous change in overall size of the molecule, as observed experimentally. The radiation parameters used in our experiments are very similar to those of some of the electronic devices we often come across. Thus, we believe that the results of our studies on a simple protein structure may help us in understanding the effect of radiation on complex biological systems as well.
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Affiliation(s)
- Anang K Singh
- Department of Physics, Indian Institute of Technology, Kharagpur 721302, India
| | - P S Burada
- Department of Physics, Indian Institute of Technology, Kharagpur 721302, India
| | | | - Sudipta Bag
- Department of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
| | - Amitabha Bhattacharya
- Department of Electronics and Electrical Communication Engineering, Indian Institute of Technology, Kharagpur 721302, India
| | - Swagata Dasgupta
- Department of Chemistry, Indian Institute of Technology, Kharagpur 721302, India
| | - Anushree Roy
- Department of Physics, Indian Institute of Technology, Kharagpur 721302, India
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Khoshnevisan G, Emamzadeh R, Nazari M, Rasa SMM, Sariri R, Hassani L. Kinetics, structure, and dynamics of Renilla luciferase solvated in binary mixtures of glycerol and water and the mechanism by which glycerol obstructs the enzyme emitter site. Int J Biol Macromol 2018; 117:617-624. [DOI: 10.1016/j.ijbiomac.2018.05.160] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2018] [Revised: 05/12/2018] [Accepted: 05/22/2018] [Indexed: 11/26/2022]
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35
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Impact of disulfide bonds on the folding and refolding capability of a novel thermostable GH45 cellulase. Appl Microbiol Biotechnol 2018; 102:9183-9192. [DOI: 10.1007/s00253-018-9256-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2018] [Revised: 07/08/2018] [Accepted: 07/13/2018] [Indexed: 12/22/2022]
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36
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Lopes-Rodrigues M, Puiggalí-Jou A, Martí-Balleste D, del Valle LJ, Michaux C, Perpète EA, Alemán C. Thermomechanical Response of a Representative Porin for Biomimetics. ACS OMEGA 2018; 3:7856-7867. [PMID: 31458928 PMCID: PMC6644815 DOI: 10.1021/acsomega.8b00463] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2018] [Accepted: 07/02/2018] [Indexed: 06/09/2023]
Abstract
The thermomechanical response of Omp2a, a representative porin used for the fabrication of smart biomimetic nanomembranes, has been characterized using microcantilever technology and compared with standard proteins. For this purpose, thermally induced transitions involving the conversion of stable trimers to bigger aggregates, local reorganizations based on the strengthening or weakening of intermolecular interactions, and protein denaturation have been detected by the microcantilever resonance frequency and deflection as a function of the temperature. Measurements have been carried out on arrays of 8-microcantilevers functionalized with proteins (Omp2a, lysozyme and bovine serum albumin). To interpret the measured nanofeatures, the response of proteins to temperature has been also examined using other characterization techniques, including real time wide angle X-ray diffraction. Results not only demonstrate the complex behavior of porins, which exhibit multiple local thermal transitions before undergoing denaturation at temperatures higher than 105 °C, but also suggest a posttreatment to control the orientation of immobilized Omp2a molecules in functionalized biomimetic nanomembranes and, thus, increase their efficacy in ion transport.
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Affiliation(s)
- Maximilien Lopes-Rodrigues
- Departament
d’Enginyeria Química, EEBE, Universitat Politècnica de Catalunya, C/ Eduard Maristany, 10-14, Ed.
I2, 08019 Barcelona, Spain
- Barcelona
Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya, Eduard Maristany, 10-14, 08019 Barcelona, Spain
- Laboratoire
de Chimie Physique des Biomolécules, Unité de Chimie
Physique Théorique et Structurale (UCPTS), University of Namur, Rue de Bruxelles, 61, 5000 Namur, Belgium
| | - Anna Puiggalí-Jou
- Departament
d’Enginyeria Química, EEBE, Universitat Politècnica de Catalunya, C/ Eduard Maristany, 10-14, Ed.
I2, 08019 Barcelona, Spain
- Barcelona
Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya, Eduard Maristany, 10-14, 08019 Barcelona, Spain
| | - Didac Martí-Balleste
- Departament
d’Enginyeria Química, EEBE, Universitat Politècnica de Catalunya, C/ Eduard Maristany, 10-14, Ed.
I2, 08019 Barcelona, Spain
- Barcelona
Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya, Eduard Maristany, 10-14, 08019 Barcelona, Spain
| | - Luis J. del Valle
- Departament
d’Enginyeria Química, EEBE, Universitat Politècnica de Catalunya, C/ Eduard Maristany, 10-14, Ed.
I2, 08019 Barcelona, Spain
- Barcelona
Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya, Eduard Maristany, 10-14, 08019 Barcelona, Spain
| | - Catherine Michaux
- Laboratoire
de Chimie Physique des Biomolécules, Unité de Chimie
Physique Théorique et Structurale (UCPTS), University of Namur, Rue de Bruxelles, 61, 5000 Namur, Belgium
| | - Eric A. Perpète
- Laboratoire
de Chimie Physique des Biomolécules, Unité de Chimie
Physique Théorique et Structurale (UCPTS), University of Namur, Rue de Bruxelles, 61, 5000 Namur, Belgium
| | - Carlos Alemán
- Departament
d’Enginyeria Química, EEBE, Universitat Politècnica de Catalunya, C/ Eduard Maristany, 10-14, Ed.
I2, 08019 Barcelona, Spain
- Barcelona
Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya, Eduard Maristany, 10-14, 08019 Barcelona, Spain
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Sarkar S, Biswas B, Singh PC. Spectroscopic and Molecular Dynamics Simulation Study of Lysozyme in the Aqueous Mixture of Ethanol: Insights into the Nonmonotonic Change of the Structure of Lysozyme. J Phys Chem B 2018; 122:7811-7820. [DOI: 10.1021/acs.jpcb.8b03106] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sunipa Sarkar
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Biswajit Biswas
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
| | - Prashant Chandra Singh
- Department of Spectroscopy, Indian Association for the Cultivation of Science, Kolkata 700032, India
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Mukhametzyanov TA, Sedov IA, Solomonov BN, Schick C. Fast scanning calorimetry of lysozyme unfolding at scanning rates from 5 K/min to 500,000 K/min. Biochim Biophys Acta Gen Subj 2018; 1862:2024-2030. [PMID: 29964144 DOI: 10.1016/j.bbagen.2018.06.019] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/24/2017] [Revised: 06/22/2018] [Accepted: 06/26/2018] [Indexed: 10/28/2022]
Abstract
BACKGROUND Protein denaturation is often studied using differential scanning calorimetry (DSC). However, conventional instruments are limited in the temperature scanning rate available. Fast scanning calorimetry (FSC) provides an ability to study processes at much higher rates while using extremely small sample masses [ng]. This makes it a very interesting technique for protein investigation. METHODS A combination of conventional DSC and fast scanning calorimeters was used to study denaturation of lysozyme dissolved in glycerol. Glycerol was chosen as a solvent to prevent evaporation from the micro-sized samples of the fast scanning calorimeter. RESULTS The lysozyme denaturation temperatures in the range of scanning rates from 5 K/min to ca. 500,000 K/min follow the Arrhenius law. The experimental results for FSC and conventional DSC fall into two distinct clusters in a Kissinger plot, which are well approximated by two parallel straight lines. CONCLUSIONS The transition temperatures for the unfolding process measured on fast scanning calorimetry sensor are significantly lower than what could be expected from the results of conventional DSC using extrapolation to high scanning rates. Evidence for the influence of the relative surface area on the unfolding temperature was found. GENERAL SIGNIFICANCE For the first time, fast scanning calorimetry was employed to study protein denaturation with a range of temperature scanning rates of 5 orders of magnitude. Decreased thermal stability of the micro-sized samples on the fast scanning calorimeter raise caution over using bulk solution thermal stability data of proteins for applications where micro-sized dispersed protein solutions are used, e.g., spray drying.
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Affiliation(s)
| | - Igor A Sedov
- Kazan Federal University, 18 Kremlyovskaya Street, Kazan 420008, Russian Federation
| | - Boris N Solomonov
- Kazan Federal University, 18 Kremlyovskaya Street, Kazan 420008, Russian Federation
| | - Christoph Schick
- Kazan Federal University, 18 Kremlyovskaya Street, Kazan 420008, Russian Federation; University of Rostock, Institute of Physics, Albert-Einstein-Str. 23-24, 18051 Rostock, Germany
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39
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Samanta N, Das Mahanta D, Patra A, Mitra RK. Soft interaction and excluded volume effect compete as polyethylene glycols modulate enzyme activity. Int J Biol Macromol 2018; 118:209-215. [PMID: 29920368 DOI: 10.1016/j.ijbiomac.2018.06.073] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2018] [Revised: 06/12/2018] [Accepted: 06/13/2018] [Indexed: 10/28/2022]
Abstract
Polyethylene glycols (PEGs) can either preferentially bind to biomolecules or exert excluded volume effect depending upon their chain length and concentration. We have studied the effect of ethylene glycol (EG) and PEGs of different chain lengths (Mn 400 and 4000) on the enzyme efficiency of hen-egg-white lysozyme (HEWL) on Micrococcus lysodeikticus (M. Lys.) cell. The activity shows a bell-like profile as the turnover number increases from ~1.3 × 105 s-1 M-1 in water to ~1.7 × 105 s-1 M-1 in presence of 2% PEG-400 beyond which it decreases to ~0.7 × 105 s-1 M-1 at 20% PEG-400. Solvent polarity, excluded volume effect, soft nonspecific interactions and structural flexibility are found to be the competing factors which govern the overall enzyme activity as evidenced from circular dichroism (CD) and fluorescence measurements. Thermal unfolding temperature (Tm) of HEWL also shows a bell-shaped profile with PEG concentration which establishes possible correlation with its activity. We also observe a minimum in the activation energy barrier for the catalysis at low osmolyte concentrations. The maximum in the enzyme efficiency has been explained on the basis of an optimization between excluded volume effect and soft interaction among the protein and the cosolutes.
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Affiliation(s)
- Nirnay Samanta
- Department of Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake Kolkata 700106, India.
| | - Debasish Das Mahanta
- Department of Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake Kolkata 700106, India
| | - Animesh Patra
- Department of Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake Kolkata 700106, India
| | - Rajib Kumar Mitra
- Department of Chemical, Biological and Macromolecular Sciences, S. N. Bose National Centre for Basic Sciences, Block JD, Sector III, Salt Lake Kolkata 700106, India.
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40
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Tao Y, Ma X, Cai Y, Liu L, Zhao H. Coassembly of Lysozyme and Amphiphilic Biomolecules Driven by Unimer–Aggregate Equilibrium. J Phys Chem B 2018; 122:3900-3907. [DOI: 10.1021/acs.jpcb.8b01447] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Yuanyuan Tao
- Key Laboratory of Functional Polymer Materials Ministry of Education, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Xiaoteng Ma
- Key Laboratory of Functional Polymer Materials Ministry of Education, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Yaqian Cai
- Key Laboratory of Functional Polymer Materials Ministry of Education, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Li Liu
- Key Laboratory of Functional Polymer Materials Ministry of Education, College of Chemistry, Nankai University, Tianjin 300071, China
| | - Hanying Zhao
- Key Laboratory of Functional Polymer Materials Ministry of Education, College of Chemistry, Nankai University, Tianjin 300071, China
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41
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Schor NF. A Life at the Interface: The 2017 Hower Award Lecture. Pediatr Neurol 2018; 80:3-7. [PMID: 29290520 PMCID: PMC5857216 DOI: 10.1016/j.pediatrneurol.2017.12.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Revised: 11/30/2017] [Accepted: 12/03/2017] [Indexed: 10/18/2022]
Affiliation(s)
- Nina F. Schor
- University of Rochester School of Medicine and Dentistry, Rochester, NY
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42
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Abstract
Conditionally disordered proteins are either ordered or disordered depending on the environmental context. The substrates of the mitochondrial intermembrane space (IMS) oxidoreductase Mia40 are synthesized on cytosolic ribosomes and diffuse as intrinsically disordered proteins to the IMS, where they fold into their functional conformations; behaving thus as conditionally disordered proteins. It is not clear how the sequences of these polypeptides encode at the same time for their ability to adopt a folded structure and to remain unfolded. Here we characterize the disorder-to-order transition of a Mia40 substrate, the human small copper chaperone Cox17. Using an integrated real-time approach, including chromatography, fluorescence, CD, FTIR, SAXS, NMR, and MS analysis, we demonstrate that in this mitochondrial protein, the conformational switch between disordered and folded states is controlled by the formation of a single disulfide bond, both in the presence and in the absence of Mia40. We provide molecular details on how the folding of a conditionally disordered protein is tightly regulated in time and space, in such a way that the same sequence is competent for protein translocation and activity.
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43
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Fraga H, Pujols J, Gil-Garcia M, Roque A, Bernardo-Seisdedos G, Santambrogio C, Bech-Serra JJ, Canals F, Bernadó P, Grandori R, Millet O, Ventura S. Disulfide driven folding for a conditionally disordered protein. Sci Rep 2017; 7:16994. [PMID: 29208936 PMCID: PMC5717278 DOI: 10.1038/s41598-017-17259-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 11/23/2017] [Indexed: 11/09/2022] Open
Abstract
Conditionally disordered proteins are either ordered or disordered depending on the environmental context. The substrates of the mitochondrial intermembrane space (IMS) oxidoreductase Mia40 are synthesized on cytosolic ribosomes and diffuse as intrinsically disordered proteins to the IMS, where they fold into their functional conformations; behaving thus as conditionally disordered proteins. It is not clear how the sequences of these polypeptides encode at the same time for their ability to adopt a folded structure and to remain unfolded. Here we characterize the disorder-to-order transition of a Mia40 substrate, the human small copper chaperone Cox17. Using an integrated real-time approach, including chromatography, fluorescence, CD, FTIR, SAXS, NMR, and MS analysis, we demonstrate that in this mitochondrial protein, the conformational switch between disordered and folded states is controlled by the formation of a single disulfide bond, both in the presence and in the absence of Mia40. We provide molecular details on how the folding of a conditionally disordered protein is tightly regulated in time and space, in such a way that the same sequence is competent for protein translocation and activity.
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Affiliation(s)
- Hugo Fraga
- Institut de Biotecnologia i Biomedicina. Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,Departamento de Bioquimica, Faculdade de Medicina da Universidade do Porto, Porto, Portugal
| | - Jordi Pujols
- Institut de Biotecnologia i Biomedicina. Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain
| | - Marcos Gil-Garcia
- Institut de Biotecnologia i Biomedicina. Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.,Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain
| | - Alicia Roque
- Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain
| | | | - Carlo Santambrogio
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
| | | | - Francesc Canals
- Vall d'Hebron Institute of Oncology (VHIO), Barcelona, Spain
| | - Pau Bernadó
- Centre de Biochimie Structurale, INSERM-U1054, CNRS UMR-5048, Université de Montpellier, 29, rue de Navacelles, 34090, Montpellier, France
| | - Rita Grandori
- Department of Biotechnology and Biosciences, University of Milano-Bicocca, Milano, Italy
| | - Oscar Millet
- Protein Stability and Inherited Diseases Laboratory, CIC bioGUNE, 48160, Derio, Spain
| | - Salvador Ventura
- Institut de Biotecnologia i Biomedicina. Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain. .,Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193, Bellaterra, Spain.
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Reddy BJ, Tripathy S, Vershinin M, Tanenbaum ME, Xu J, Mattson-Hoss M, Arabi K, Chapman D, Doolin T, Hyeon C, Gross SP. Heterogeneity in kinesin function. Traffic 2017; 18:658-671. [PMID: 28731566 PMCID: PMC11166478 DOI: 10.1111/tra.12504] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2017] [Revised: 07/18/2017] [Accepted: 07/18/2017] [Indexed: 12/25/2022]
Abstract
The kinesin family proteins are often studied as prototypical molecular motors; a deeper understanding of them can illuminate regulation of intracellular transport. It is typically assumed that they function identically. Here we find that this assumption of homogeneous function appears incorrect: variation among motors' velocities in vivo and in vitro is larger than the stochastic variation expected for an ensemble of "identical" motors. When moving on microtubules, slow and fast motors are persistently slow, and fast, respectively. We develop theory that provides quantitative criteria to determine whether the observed single-molecule variation is too large to be generated from an ensemble of identical molecules. To analyze such heterogeneity, we group traces into homogeneous sub-ensembles. Motility studies varying the temperature, pH and glycerol concentration suggest at least 2 distinct functional states that are independently affected by external conditions. We end by investigating the functional ramifications of such heterogeneity through Monte-Carlo multi-motor simulations.
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Affiliation(s)
- Babu J.N. Reddy
- Department of Developmental and Cell Biology, University of California, Irvine, CA
| | - Suvranta Tripathy
- Department of Developmental and Cell Biology, University of California, Irvine, CA
- Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania
| | - Michael Vershinin
- Department of Physics and Astronomy, University of Utah, Salt Lake City, Utah
| | - Marvin E. Tanenbaum
- Hubrecht Institute, The Royal Netherlands Academy of Arts and Sciences (KNAW) and University Medical Center, Utrecht, The Netherlands
| | - Jing Xu
- School of Natural Sciences, University of California, Merced, California
| | | | - Karim Arabi
- Department of Developmental and Cell Biology, University of California, Irvine, CA
| | - Dail Chapman
- Department of Developmental and Cell Biology, University of California, Irvine, CA
| | - Tory Doolin
- Department of Developmental and Cell Biology, University of California, Irvine, CA
| | | | - Steven P. Gross
- Department of Developmental and Cell Biology, University of California, Irvine, CA
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45
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Jain E, Sheth S, Dunn A, Zustiak SP, Sell SA. Sustained release of multicomponent platelet-rich plasma proteins from hydrolytically degradable PEG hydrogels. J Biomed Mater Res A 2017; 105:3304-3314. [PMID: 28865187 DOI: 10.1002/jbm.a.36187] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Revised: 07/12/2017] [Accepted: 08/15/2017] [Indexed: 12/14/2022]
Abstract
Platelet-rich plasma (PRP), an autologous blood derived product is a concentrated mix of multiple growth factors and cytokines. Direct injections of PRP are clinically used for treatment of various musculoskeletal disorders and in wound healing. However, PRP therapy has met with limited clinical success possibly due to unpredictable and premature bolus delivery of PRP growth factors. The objective of this study was to predictably control the bioavailability of PRP growth factors using a hydrolytically degradable polyethylene glycol (PEG) hydrogel. We used a step-growth polymerization based on a Michael-type addition reaction between a 6-arm PEG-acrylate and a dithiol crosslinker, which led to the formation of a homogenous hydrogel network under mild, physiologically relevant conditions. Specifically, to model the release of multicomponent PRP through PEG hydrogels, we examined bulk diffusion of PRP as well as model proteins in a size range corresponding to that of growth factors found in PRP. Our results indicated that protein size and hydrogel degradation controlled diffusion of all proteins and that secondary structure of proteins encapsulated during gelation remained unaffected post-release. Analysis of specific PRP proteins released from the hydrogel showed sustained release until complete hydrogel degradation. PRP released from hydrogels promoted proliferation of human dermal fibroblast, indicating retained bioactivity upon encapsulation and release. The versatile hydrogel system holds clinical potential as a therapeutic drug delivery depot of multicomponent mixtures like PRP. © 2017 Wiley Periodicals, Inc. J Biomed Mater Res Part A: 105A: 3304-3314, 2017.
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Affiliation(s)
- Era Jain
- Department of Biomedical Engineering, , Saint Louis University, Saint Louis, Missouri, 63103
| | - Saahil Sheth
- Department of Biomedical Engineering, , Saint Louis University, Saint Louis, Missouri, 63103
| | - Andrew Dunn
- Department of Biomedical Engineering, , Saint Louis University, Saint Louis, Missouri, 63103
| | - Silviya P Zustiak
- Department of Biomedical Engineering, , Saint Louis University, Saint Louis, Missouri, 63103
| | - Scott A Sell
- Department of Biomedical Engineering, , Saint Louis University, Saint Louis, Missouri, 63103
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46
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Chaffey PK, Guan X, Wang X, Ruan Y, Li Y, Miller SG, Tran AH, Koelsch TN, Pass LF, Tan Z. Quantitative Effects of O-Linked Glycans on Protein Folding. Biochemistry 2017; 56:4539-4548. [DOI: 10.1021/acs.biochem.7b00483] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Patrick K. Chaffey
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Xiaoyang Guan
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Xinfeng Wang
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Yuan Ruan
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Yaohao Li
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Suzannah G. Miller
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Amy H. Tran
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Theo N. Koelsch
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Lomax F. Pass
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
| | - Zhongping Tan
- Department of Chemistry and
Biochemistry and BioFrontiers Institute, University of Colorado, Boulder, Colorado 80303, United States
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47
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Sedov IA, Magsumov TI. Molecular dynamics study of unfolding of lysozyme in water and its mixtures with dimethyl sulfoxide. J Mol Graph Model 2017; 76:466-474. [PMID: 28797927 DOI: 10.1016/j.jmgm.2017.07.032] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2017] [Revised: 07/28/2017] [Accepted: 07/30/2017] [Indexed: 11/17/2022]
Abstract
All-atom explicit solvent molecular dynamics was used to study the process of unfolding of hen egg white lysozyme in water and mixtures of water with dimethyl sulfoxide at different compositions. We have determined the kinetic parameters of unfolding at a constant temperature 450K. For each run, the time of disruption of the tertiary structure of lysozyme tu was defined as the moment when a certain structural criterion computed from the trajectory reaches its critical value. A good agreement is observed between the results obtained using several different criteria. The secondary structure according to DSSP calculations is found to be partially unfolded to the moment of disruption of tertiary structure, but some of its elements keep for a long time after that. The values of tu averaged over ten 30ns-long trajectories for each solvent composition are shown to decrease very rapidly with addition of dimethyl sulfoxide, and rather small amounts of dimethyl sulfoxide are found to change the pathway of unfolding. In pure water, despite the loss of tertiary contacts and disruption of secondary structure elements, the protein preserves its compact globular state at least over 130ns of simulation, while even at 5mol percents of dimethyl sulfoxide it loses its compactness within 30ns. The proposed methodology is a generally applicable tool to quantify the rate of protein unfolding in simulation studies.
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Affiliation(s)
- Igor A Sedov
- Chemical Institute, Kazan Federal University, 420008, Kremlevskaya 18, Kazan, Russia.
| | - Timur I Magsumov
- Chemical Institute, Kazan Federal University, 420008, Kremlevskaya 18, Kazan, Russia
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48
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Amin MA, Halder R, Ghosh C, Jana B, Bhattacharyya K. Effect of alcohol on the structure of cytochrome C: FCS and molecular dynamics simulations. J Chem Phys 2017; 145:235102. [PMID: 28010091 DOI: 10.1063/1.4972065] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Effect of ethanol on the size and structure of a protein cytochrome C (Cyt C) is investigated using fluorescence correlation spectroscopy (FCS) and molecular dynamics (MD) simulations. For FCS studies, Cyt C is covalently labeled with a fluorescent probe, alexa 488. FCS studies indicate that on addition of ethanol, the size of the protein varies non-monotonically. The size of Cyt C increases (i.e., the protein unfolds) on addition of alcohol (ethanol) up to a mole fraction of 0.2 (44.75% v/v) and decreases at higher alcohol concentration. In order to provide a molecular origin of this structural transition, we explore the conformational free energy landscape of Cyt C as a function of radius of gyration (Rg) at different compositions of water-ethanol binary mixture using MD simulations. Cyt C exhibits a minimum at Rg ∼ 13 Å in bulk water (0% alcohol). Upon increasing ethanol concentration, a second minimum appears in the free energy surface with gradually larger Rg up to χEtOH ∼ 0.2 (44.75% v/v). This suggests gradual unfolding of the protein. At a higher concentration of alcohol (χEtOH > 0.2), the minimum at large Rg vanishes, indicating compaction. Analysis of the contact map and the solvent organization around protein indicates a preferential solvation of the hydrophobic residues by ethanol up to χEtOH = 0.2 (44.75% v/v) and this causes the gradual unfolding of the protein. At high concentration (χEtOH = 0.3 (58% v/v)), due to structural organization in bulk water-ethanol binary mixture, the extent of preferential solvation by ethanol decreases. This causes a structural transition of Cyt C towards a more compact state.
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Affiliation(s)
- Md Asif Amin
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Ritaban Halder
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Catherine Ghosh
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Biman Jana
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
| | - Kankan Bhattacharyya
- Department of Physical Chemistry, Indian Association for the Cultivation of Science, Jadavpur, Kolkata 700032, India
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49
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Singh P, Chowdhury PK. Unravelling the Intricacy of the Crowded Environment through Tryptophan Quenching in Lysozyme. J Phys Chem B 2017; 121:4687-4699. [DOI: 10.1021/acs.jpcb.7b01055] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Priyanka Singh
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Pramit K. Chowdhury
- Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
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50
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Wright TA, Stewart JM, Page RC, Konkolewicz D. Extraction of Thermodynamic Parameters of Protein Unfolding Using Parallelized Differential Scanning Fluorimetry. J Phys Chem Lett 2017; 8:553-558. [PMID: 28067526 DOI: 10.1021/acs.jpclett.6b02894] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Thermodynamic properties of protein unfolding have been extensively studied; however, the methods used have typically required significant preparation time and high protein concentrations. Here we present a facile, simple, and parallelized differential scanning fluorimetry (DSF) method that enables thermodynamic parameters of protein unfolding to be extracted. This method assumes a two-state, reversible protein unfolding mechanism and provides the capacity to quickly analyze the biophysical mechanisms of changes in protein stability and to more thoroughly characterize the effect of mutations, additives, inhibitors, or pH. We show the utility of the DSF method by analyzing the thermal denaturation of lysozyme, carbonic anhydrase, chymotrypsin, horseradish peroxidase, and cellulase enzymes. Compared with similar biophysical analyses by circular dichroism, DSF allows for determination of thermodynamic parameters of unfolding while providing greater than 24-fold reduction in experimental time. This study opens the door to rapid characterization of protein stability on low concentration protein samples.
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Affiliation(s)
- Thaiesha A Wright
- Department of Chemistry and Biochemistry, Miami University , Oxford, Ohio 45056, United States
| | - Jamie M Stewart
- Department of Chemistry and Biochemistry, Miami University , Oxford, Ohio 45056, United States
| | - Richard C Page
- Department of Chemistry and Biochemistry, Miami University , Oxford, Ohio 45056, United States
| | - Dominik Konkolewicz
- Department of Chemistry and Biochemistry, Miami University , Oxford, Ohio 45056, United States
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