1
|
Durydivka O, Gazdarica M, Vecerkova K, Radenkovic S, Blahos J. Multiple Sgip1 splice variants inhibit cannabinoid receptor 1 internalization. Gene 2024; 892:147851. [PMID: 37783296 DOI: 10.1016/j.gene.2023.147851] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 09/23/2023] [Accepted: 09/27/2023] [Indexed: 10/04/2023]
Abstract
Alternative splicing can often result in the expression of distinct protein isoforms from a single gene, with specific composition and properties. SH3-containing GRB2-like protein 3-interacting protein 1 (Sgip1) is a brain-enriched protein that regulates clathrin-mediated endocytosis and interferes with the internalization of cannabinoid receptor 1. Several research groups have studied the physiological importance of Sgip1, and four Sgip1 protein isoforms have been described to date, while the NCBI Gene database predicts the expression of 20 splice variants from the Sgip1 gene in mice. In this work, we cloned 15 Sgip1 splice variants from the mouse brain, including 11 novel splice variants. The cloned splice variants differed in exon composition within two Sgip1 regions: the membrane phospholipid-binding domain and the proline-rich region. All the Sgip1 splice isoforms had similar stability and comparable ability to inhibit the internalization of cannabinoid receptor 1. None of the isoforms influenced the internalization of the µ-opioid receptor. We confirm the expression of Sgip1 splice variants described in previous studies or predicted in silico. Our data provide a basis for further studies exploring the significance of Sgip1 splicing, and we suggest a new classification of Sgip1 splice variants to unify their nomenclature.
Collapse
Affiliation(s)
- Oleh Durydivka
- Institute of Molecular Genetics of the Czech Academy of Sciences, Videnska 1083, 142 20 Prague, Czech Republic
| | - Matej Gazdarica
- Institute of Molecular Genetics of the Czech Academy of Sciences, Videnska 1083, 142 20 Prague, Czech Republic
| | - Katerina Vecerkova
- Institute of Molecular Genetics of the Czech Academy of Sciences, Videnska 1083, 142 20 Prague, Czech Republic; Department of Informatics and Chemistry, University of Chemistry and Technology, Technicka 5, 166 28 Prague, Czech Republic
| | - Silvia Radenkovic
- Institute of Molecular Genetics of the Czech Academy of Sciences, Videnska 1083, 142 20 Prague, Czech Republic
| | - Jaroslav Blahos
- Institute of Molecular Genetics of the Czech Academy of Sciences, Videnska 1083, 142 20 Prague, Czech Republic.
| |
Collapse
|
2
|
Stachurska K, Marcisz U, Długosz M, Antosiewicz JM. Kinetics of Structural Transitions Induced by Sodium Dodecyl Sulfate in α-Chymotrypsin. ACS OMEGA 2023; 8:49137-49149. [PMID: 38162786 PMCID: PMC10753550 DOI: 10.1021/acsomega.3c07256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Revised: 11/16/2023] [Accepted: 11/23/2023] [Indexed: 01/03/2024]
Abstract
The temporal changes in circular dichroism at 222 and 260 nm were recorded by using stopped-flow spectroscopy after mixing α-chymotrypsin solutions with sodium dodecyl sulfate solutions. Simultaneously with the circular dichroism signal, the fluorescence emission was recorded. Changes in the secondary and tertiary structures of chymotrypsin induced by sodium dodecyl sulfate are characterized by either three or four one-way reactions with relaxation amplitudes and times precisely determined by an advanced numerical procedure of Kuzmič. Quantitatively, transitions within the secondary and tertiary structures of the protein are significantly different. Moreover, changes in the tertiary structure depend on the type of recorded signal (either circular dichroism or fluorescence) and the wavelength of the incident radiation. The latter observation is particularly interesting as it indicates that the contributions of protein's different tryptophans to the total recorded fluorescence depend on the excitation wavelength. We present several results justifying this hypothesis.
Collapse
Affiliation(s)
- Karolina Stachurska
- Biophysics Division, Institute of Experimental
Physics, Faculty of Physics, University
of Warsaw, Pasteura 5 Street, 02-093 Warsaw, Poland
| | - Urszula Marcisz
- Biophysics Division, Institute of Experimental
Physics, Faculty of Physics, University
of Warsaw, Pasteura 5 Street, 02-093 Warsaw, Poland
| | - Maciej Długosz
- Biophysics Division, Institute of Experimental
Physics, Faculty of Physics, University
of Warsaw, Pasteura 5 Street, 02-093 Warsaw, Poland
| | - Jan M. Antosiewicz
- Biophysics Division, Institute of Experimental
Physics, Faculty of Physics, University
of Warsaw, Pasteura 5 Street, 02-093 Warsaw, Poland
| |
Collapse
|
3
|
Sengupta S, Versluis J, Bakker HJ. Observation of a Two-Dimensional Hydrophobic Collapse at the Surface of Water Using Heterodyne-Detected Surface Sum-Frequency Generation. J Phys Chem Lett 2023; 14:9285-9290. [PMID: 37815274 PMCID: PMC10591499 DOI: 10.1021/acs.jpclett.3c01530] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2023] [Accepted: 10/04/2023] [Indexed: 10/11/2023]
Abstract
We study the effect of sodium chloride (NaCl) on the properties of the interface of water and the surfactant dodecyl sulfate (DS-) using heterodyne-detected vibrational sum-frequency generation spectroscopy. We find that the signal of the O-H stretch vibrations of oriented water molecules at the interface is highly nonlinearly dependent on the NaCl concentration. This nonlinear dependence is explained by a combination of screening of the electric field of surface-bound DS- ions pointing into the bulk and screening of the Coulomb repulsion between the headgroups of the DS- ions in the surface plane. The latter effect strongly increases the oriented water signal within a limited NaCl concentration range of 10-100 mM, indicating a two-dimensional hydrophobic collapse of the surfactant layer. The occurrence of collapse is supported by model calculations of the surface potential and surface surfactant density.
Collapse
Affiliation(s)
| | - Jan Versluis
- AMOLF, Science Park 104, 1098 XG Amsterdam, The Netherlands
| | - Huib J. Bakker
- AMOLF, Science Park 104, 1098 XG Amsterdam, The Netherlands
| |
Collapse
|
4
|
Beriotto I, Icke C, Sevastsyanovich YR, Rossiter AE, Romagnoli G, Savino S, Hodges FJ, Cole JA, Saul A, MacLennan CA, Cunningham AF, Micoli F, Henderson IR. Efficient Autotransporter-Mediated Extracellular Secretion of a Heterologous Recombinant Protein by Escherichia coli. Microbiol Spectr 2023; 11:e0359422. [PMID: 37036352 PMCID: PMC10269718 DOI: 10.1128/spectrum.03594-22] [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: 09/06/2022] [Accepted: 03/20/2023] [Indexed: 04/11/2023] Open
Abstract
The autotransporter protein secretion system has been used previously to target the secretion of heterologous proteins to the bacterial cell surface and the extracellular milieu at the laboratory scale. The platform is of particular interest for the production of "difficult" recombinant proteins that might cause toxic effects when produced intracellularly. One such protein is IrmA. IrmA is a vaccine candidate that is produced in inclusion bodies requiring refolding. Here, we describe the use and scale-up of the autotransporter system for the secretion of an industrially relevant protein (IrmA). A plasmid expressing IrmA was constructed such that the autotransporter platform could secrete IrmA into the culture supernatant fraction. The autotransporter platform was suitable for the production and purification of IrmA with comparable physical properties to the protein produced in the cytoplasm. The production of IrmA was translated to scale-up protein production conditions resulting in a yield of 29.3 mg/L of IrmA from the culture supernatant, which is consistent with yields of current industrial processes. IMPORTANCE Recombinant protein production is an essential component of the biotechnology sector. Here, we show that the autotransporter platform is a viable method for the recombinant production, secretion, and purification of a "difficult" to produce protein on an industrially relevant scale. Use of the autotransporter platform could reduce the number of downstream processing operations required, thus accelerating the development time and reducing costs for recombinant protein production.
Collapse
Affiliation(s)
- Irene Beriotto
- Institute of Microbiology and Infection, University of Birmingham, Birmingham, United Kingdom
- GSK Vaccines Institute for Global Health Srl, Siena, Italy
| | - Christopher Icke
- Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia
| | | | - Amanda E. Rossiter
- Institute of Microbiology and Infection, University of Birmingham, Birmingham, United Kingdom
| | | | - Silvana Savino
- GSK Vaccines Institute for Global Health Srl, Siena, Italy
| | - Freya J. Hodges
- Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia
| | - Jeffrey A. Cole
- Institute of Microbiology and Infection, University of Birmingham, Birmingham, United Kingdom
| | - Allan Saul
- GSK Vaccines Institute for Global Health Srl, Siena, Italy
| | - Calman A. MacLennan
- GSK Vaccines Institute for Global Health Srl, Siena, Italy
- Jenner Institute, University of Oxford, Oxford, United Kingdom
| | - Adam F. Cunningham
- Institute of Microbiology and Infection, University of Birmingham, Birmingham, United Kingdom
- Institute for Immunology and Immunotherapy, University of Birmingham, Birmingham, United Kingdom
| | | | - Ian R. Henderson
- Institute of Microbiology and Infection, University of Birmingham, Birmingham, United Kingdom
- Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland, Australia
| |
Collapse
|
5
|
Shehata M, Ünlü A, Iglesias-Fernández J, Osuna S, Sezerman OU, Timucin E. Brave new surfactant world revisited by thermoalkalophilic lipases: computational insights into the role of SDS as a substrate analog. Phys Chem Chem Phys 2023; 25:2234-2247. [PMID: 36594810 DOI: 10.1039/d2cp05093e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Non-ionic surfactants were shown to stabilize the active conformation of thermoalkalophilic lipases by mimicking the lipid substrate while the catalytic interactions formed by anionic surfactants have not been well characterized. In this study, we combined μs-scale molecular dynamics (MD) simulations and lipase activity assays to analyze the effect of ionic surfactant, sodium dodecyl sulfate (SDS), on the structure and activity of thermoalkalophilic lipases. Both the open and closed lipase conformations that differ in geometry were recruited to the MD analysis to provide a broader understanding of the molecular effect of SDS on the lipase structure. Simulations at 298 K showed the potential of SDS for maintaining the active lipase through binding to the sn-1 acyl-chain binding pocket in the open conformation or transforming the closed conformation to an open-like state. Consistent with MD findings, experimental analysis showed increased lipase activity upon SDS incubation at ambient temperature. Notably, the lipase cores stayed intact throughout 2 μs regardless of an increase in the simulation temperature or SDS concentration. However, the surface structures were unfolded in the presence of SDS and at elevated temperature for both conformations. Simulations of the dimeric lipase were also carried out and showed reduced flexibility of the surface structures which were unfolded in the monomer, indicating the insulating role of dimer interactions against SDS. Taken together, this study provides insights into the possible substrate mimicry by the ionic surfactant SDS for the thermoalkalophilic lipases without temperature elevation, underscoring SDS's potential for interfacial activation at ambient temperatures.
Collapse
Affiliation(s)
- Mohamed Shehata
- Department of Biostatistics and Medical Informatics, School of Medicine, Acibadem University, Istanbul 34752, Turkey.
| | - Aişe Ünlü
- Department of Chemistry, Gebze Technical University, Kocaeli, Turkey
| | | | - Sílvia Osuna
- CompBioLab Group, Institut de Química Computacional i Catàlisi (IQCC) and Department de Química, Universitat de Girona, c/Maria Aurèlia Capmany 69, 17003 Girona, Spain.,ICREA, Pg. Lluís Companys 23, 08010 Barcelona, Spain
| | - O Ugur Sezerman
- Department of Biostatistics and Medical Informatics, School of Medicine, Acibadem University, Istanbul 34752, Turkey.
| | - Emel Timucin
- Department of Biostatistics and Medical Informatics, School of Medicine, Acibadem University, Istanbul 34752, Turkey.
| |
Collapse
|
6
|
Sengupta S, Gera R, Egan C, Morzan UN, Versluis J, Hassanali A, Bakker HJ. Observation of Strong Synergy in the Interfacial Water Response of Binary Ionic and Nonionic Surfactant Mixtures. J Phys Chem Lett 2022; 13:11391-11397. [PMID: 36455883 PMCID: PMC9761666 DOI: 10.1021/acs.jpclett.2c02750] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Accepted: 11/29/2022] [Indexed: 06/17/2023]
Abstract
Interfacial vibrational footprints of the binary mixture of sodium dodecyl sulfate (SDS) and hexaethylene glycol monododecyl ether (C12E6) were probed using heterodyne detected vibrational sum frequency generation (HDVSFG). Our results show that in the presence of C12E6 at CMC (70 μM) the effect of SDS on the orientation of interfacial water molecules is enhanced 10 times compared to just pure surfactants. The experimental results contest the traditional Langmuir adsorption model predictions. This is also evidenced by our molecular dynamics simulations that show a remarkable restructuring and enhanced orientation of the interfacial water molecules upon DS- adsorption to the C12E6 surface. The simulations show that the adsorption free energy of DS- ions to a water surface covered with C12E6 is an enthalpy-driven process and more attractive by ∼10 kBT compared to the adsorption energy of DS- to the surface of pure water.
Collapse
Affiliation(s)
| | - Rahul Gera
- AMOLF, Science Park 104, 1098 XGAmsterdam, The Netherlands
| | - Colin Egan
- Condensed
Matter and Statistical Physics Centre, International
Centre for Theoretical Physics, Strada Costiera 11, 34151Trieste, Italy
| | - Uriel N. Morzan
- Condensed
Matter and Statistical Physics Centre, International
Centre for Theoretical Physics, Strada Costiera 11, 34151Trieste, Italy
| | - Jan Versluis
- AMOLF, Science Park 104, 1098 XGAmsterdam, The Netherlands
| | - Ali Hassanali
- Condensed
Matter and Statistical Physics Centre, International
Centre for Theoretical Physics, Strada Costiera 11, 34151Trieste, Italy
| | - Huib J. Bakker
- AMOLF, Science Park 104, 1098 XGAmsterdam, The Netherlands
| |
Collapse
|
7
|
Solov'eva TF, Bakholdina SI, Khomenko VA, Sidorin EV, Kim NY, Novikova OD, Shnyrov VL, Stenkova AM, Eremeev VI, Bystritskaya EP, Isaeva MP. Expression of membrane beta-barrel protein in E. coli at low temperatures: Structure of Yersinia pseudotuberculosis OmpF porin inclusion bodies. BIOCHIMICA ET BIOPHYSICA ACTA. BIOMEMBRANES 2022; 1864:183971. [PMID: 35643329 DOI: 10.1016/j.bbamem.2022.183971] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Revised: 04/14/2022] [Accepted: 05/19/2022] [Indexed: 06/15/2023]
Abstract
The recombinant OmpF porin of Yersinia pseudotuberculosis as a model of transmembrane protein of the β-barrel structural family was used to study low growth temperature effect on the structure of the produced inclusion bodies (IBs). This porin showed a very low expression level in E. coli at a growth temperature below optimal 37 °C. The introduction of a N-terminal hexahistidine tag into the mature porin molecule significantly increased the biosynthesis of the protein at low cultivation temperatures. The recombinant His-tagged porin (rOmpF-His) was expressed in E. coli at 30 and 18 °C as inclusion bodies (IB-30 and IB-18). The properties and structural organization of IBs, as well as the structure of rOmpF-His solubilized from the IBs with urea and SDS, were studied using turbidimetry, electron microscopy, dynamic light scattering, optical spectroscopy, and amyloid-specific dyes. IB-18, in comparison with IB-30, has a higher solubility in denaturants, suggesting a difference between IBs in the conformation of the associated polypeptide chains. The spectroscopic analysis revealed that rOmpF-His IBs have a high content of secondary structure with a tertiary-structure elements, including a native-like conformation, the proportion of which in IB-18 is higher than in IB-30. Solubilization of the porin from IBs is accompanied by a modification of its secondary structure. The studied IBs also contain amyloid-like structures. The results obtained in this study expand our knowledge of the structural organization of IBs formed by proteins of different structural classes and also have a contribution into the new approaches development of producing functionally active recombinant membrane proteins.
Collapse
Affiliation(s)
- Tamara F Solov'eva
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Svetlana I Bakholdina
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia.
| | - Valentina A Khomenko
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Evgeniy V Sidorin
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Natalya Yu Kim
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Olga D Novikova
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Valery L Shnyrov
- Departamento de Bioquimica y Biologia Molecular, Universidad de Salamanca, Plaza Doctores de la Reina s/n, 37007 Salamanca, Spain
| | - Anna M Stenkova
- Far Eastern Federal University School of Biomedicine, Russky Island Ajax Bay 10, 690922 Vladivostok, Russia
| | - Vyacheslav I Eremeev
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Evgenia P Bystritskaya
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| | - Marina P Isaeva
- G.B. Elyakov Pacific Institute of Bioorganic Chemistry, Far-Eastern Branch of the Russian Academy of Sciences, Prospekt 100-let Vladivostoku 159, 690022 Vladivostok, Russia
| |
Collapse
|
8
|
Garcia J, Felix M, Cordobés F, Guerrero A. Effect of solvent and additives on the electrospinnability of BSA solutions. Colloids Surf B Biointerfaces 2022; 217:112683. [DOI: 10.1016/j.colsurfb.2022.112683] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2022] [Revised: 06/27/2022] [Accepted: 06/29/2022] [Indexed: 02/09/2023]
|
9
|
Otzen DE, Pedersen JN, Rasmussen HØ, Pedersen JS. How do surfactants unfold and refold proteins? Adv Colloid Interface Sci 2022; 308:102754. [PMID: 36027673 DOI: 10.1016/j.cis.2022.102754] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 07/25/2022] [Accepted: 08/10/2022] [Indexed: 11/01/2022]
Abstract
Although the anionic surfactant sodium dodecyl sulfate, SDS, has been used for more than half a century as a versatile and efficient protein denaturant for protein separation and size estimation, there is still controversy about its mode of interaction with proteins. The term "rod-like" structures for the complexes that form between SDS and protein, originally introduced by Tanford, is not sufficiently descriptive and does not distinguish between the two current vying models, namely protein-decorated micelles a.k.a. the core-shell model (in which denatured protein covers the surface of micelles) versus beads-on-a-string model (where unfolded proteins are surrounded by surfactant micelles). Thanks to a combination of structural, kinetic and computational work particularly within the last 5-10 years, it is now possible to rule decisively in favor of the core-shell model. This is supported unambiguously by a combination of calorimetric and small-angle X-ray scattering (SAXS) techniques and confirmed by increasingly sophisticated molecular dynamics simulations. Depending on the SDS:protein ratio and the protein molecular mass, the formed structures can range from multiple partly unfolded protein molecules surrounding a single shared micelle to a single polypeptide chain decorating multiple micelles. We also have much new insight into how this species forms. It is preceded by the binding of small numbers of SDS molecules which subsequently grow by accretion. Time-resolved SAXS analysis reveals an asymmetric attack by SDS micelles followed by distribution of the increasingly unfolded protein around the micelle. The compactness of the protein chain continues to evolve at higher SDS concentrations according to single-molecule studies, though the protein remains completely denatured on the tertiary structural level. SDS denaturation can be reversed by addition of nonionic surfactants that absorb SDS forming mixed micelles, leaving the protein free to refold. Refolding can occur in parallel tracks if only a fraction of the protein is initially stripped of SDS. SDS unfolding is nearly always reversible unless carried out at low pH, where charge neutralization can lead to superclusters of protein-surfactant complexes. With the general mechanism of SDS denaturation now firmly established, it largely remains to explore how other ionic surfactants (including biosurfactants) may diverge from this path.
Collapse
Affiliation(s)
- Daniel E Otzen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark; Department of Molecular Biology and Genetics, Aarhus University, Universitetsbyen 81, 8000 Aarhus C, Denmark.
| | - Jannik Nedergaard Pedersen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark
| | - Helena Østergaard Rasmussen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark
| | - Jan Skov Pedersen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark; Department of Chemistry, Aarhus University, Gustav Wieds Vej 14, 8000 Aarhus C, Denmark.
| |
Collapse
|
10
|
Stachurska K, Marcisz U, Długosz M, Antosiewicz JM. Circular Dichroism Spectra of α-Chymotrypsin-SDS Solutions Depend on the Procedure of Their Preparation. ACS OMEGA 2022; 7:23782-23789. [PMID: 35847307 PMCID: PMC9280762 DOI: 10.1021/acsomega.2c02438] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
We recorded the far- and near-UV circular dichroism (CD) spectra of solutions of α-chymotrypsin and sodium dodecyl sulfate (SDS) with the final surfactant concentration significantly above the critical micellization concentration. Solutions were prepared using three different procedures. The reference procedure was to mix the chymotrypsin solution with the SDS solution once, immediately achieving the final SDS concentration. In alternative procedures, the protein solutions initially contained some SDS and were mixed with pure SDS solutions at a concentration to provide the same final surfactant as the reference mixing. We demonstrate that the supplementation to the selected final concentration of SDS of the pure chymotrypsin solution leads to different CD spectra than the supplementation to this final concentration of SDS in the chymotrypsin solution containing a small concentration of a few millimolar SDS. These differences disappear when the initial concentration of SDS in the protein solution, which we then supplement to the indicated final concentration, is higher. This suggests the irreversibility of the processes caused by the addition of SDS to chymotrypsin and the influence of the initial amount of this surfactant on the processes occurring with its further addition to the solution. For quantitative analysis of far-UV CD spectra in terms of populations of protein secondary structure elements, we used four well-established software packages. All programs consistently indicate that the observed differences in the far-UV CD spectra can be explained by the differences in the increase in the population of helical forms in chymotrypsin under the influence of SDS.
Collapse
Affiliation(s)
- Karolina Stachurska
- Biophysics Division, Institute
of Experimental Physics, Faculty of Physics, University of Warsaw, Pasteura 5 Strasse, 02-093 Warsaw, Poland
| | - Urszula Marcisz
- Biophysics Division, Institute
of Experimental Physics, Faculty of Physics, University of Warsaw, Pasteura 5 Strasse, 02-093 Warsaw, Poland
| | - Maciej Długosz
- Biophysics Division, Institute
of Experimental Physics, Faculty of Physics, University of Warsaw, Pasteura 5 Strasse, 02-093 Warsaw, Poland
| | - Jan M. Antosiewicz
- Biophysics Division, Institute
of Experimental Physics, Faculty of Physics, University of Warsaw, Pasteura 5 Strasse, 02-093 Warsaw, Poland
| |
Collapse
|
11
|
The changing face of SDS denaturation: Complexes of Thermomyces lanuginosus lipase with SDS at pH 4.0, 6.0 and 8.0. J Colloid Interface Sci 2022; 614:214-232. [DOI: 10.1016/j.jcis.2021.12.188] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2021] [Revised: 12/16/2021] [Accepted: 12/29/2021] [Indexed: 12/15/2022]
|
12
|
Fatma I, Sharma V, Thakur RC, Kumar A. Current trends in protein-surfactant interactions: A review. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.117344] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
|
13
|
Tesmar A, Kogut MM, Żamojć K, Grabowska O, Chmur K, Samsonov SA, Makowska J, Wyrzykowski D, Chmurzyński L. Physicochemical nature of sodium dodecyl sulfate interactions with bovine serum albumin revealed by interdisciplinary approaches. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.117185] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
14
|
Tidemand FG, Zunino A, Johansen NT, Hansen AF, Westh P, Mosegaard K, Arleth L. Semi-empirical Analysis of Complex ITC Data from Protein-Surfactant Interactions. Anal Chem 2021; 93:12698-12706. [PMID: 34498849 DOI: 10.1021/acs.analchem.1c02558] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Isothermal titration calorimetry (ITC) is a widely used method to determine binding affinities and thermodynamics in ligand-receptor interactions, but it also has the capability of providing detailed information on much more complex events. However, the lack of available methods to analyze ITC data is limiting the use of the technique in such multifaceted cases. Here, we present the software ANISPROU. Through a semi-empirical approach that allows for extraction of quantitative information from complex ITC data, ANISPROU solves an inverse problem where three parameters describing a set of predefined functions must be found. In analogy to strategies adopted in other scientific fields, such as geophysics, imaging, and many others, it employs an optimization algorithm which minimizes the difference between calculated and experimental data. In contrast to the existing methods, ANISPROU provides automated and objective analysis of ITC data on sodium dodecyl sulfate (SDS)-induced protein unfolding, and in addition, more information can be extracted from the data. Here, data series on SDS-mediated protein unfolding is analyzed, and binding isotherms and thermodynamic information on the unfolding events are extracted. The obtained binding isotherms as well as the enthalpy of different events are similar to those obtained using the existing manual methods, but our methodology ensures a more robust result, as the entire data set is used instead of single data points. We foresee that ANISPROU will be useful in other cases with complex enthalpograms, for example, in cases with coupled interactions in biomolecular, polymeric, and amphiphilic systems including cases where both structural changes and interactions occur simultaneously.
Collapse
Affiliation(s)
- Frederik G Tidemand
- Niels Bohr Institute, University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Andrea Zunino
- Niels Bohr Institute, University of Copenhagen, Tagensvej 16, 2200 Copenhagen, Denmark.,Department of Earth Sciences, ETH Zürich, Sonneggstrasse 5, 8092 Zürich, Switzerland
| | - Nicolai T Johansen
- Niels Bohr Institute, University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Anna Freja Hansen
- Niels Bohr Institute, University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| | - Peter Westh
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads, 2800 Kgs. Lyngby, Denmark
| | - Klaus Mosegaard
- Niels Bohr Institute, University of Copenhagen, Tagensvej 16, 2200 Copenhagen, Denmark
| | - Lise Arleth
- Niels Bohr Institute, University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark
| |
Collapse
|
15
|
Mortensen HG, Otzen DE, Pedersen JS. Ubiquitin forms conventional decorated micelle structures with sodium dodecyl sulfate at saturation. J Colloid Interface Sci 2021; 596:233-244. [DOI: 10.1016/j.jcis.2021.03.110] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Revised: 03/10/2021] [Accepted: 03/19/2021] [Indexed: 12/20/2022]
|
16
|
Reginka M, Hoang H, Efendi Ö, Merkel M, Huhnstock R, Holzinger D, Dingel K, Sick B, Bertinetti D, Herberg FW, Ehresmann A. Transport Efficiency of Biofunctionalized Magnetic Particles Tailored by Surfactant Concentration. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:8498-8507. [PMID: 34231364 DOI: 10.1021/acs.langmuir.1c00900] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Controlled transport of surface-functionalized magnetic beads in a liquid medium is a central requirement for the handling of captured biomolecular targets in microfluidic lab-on-chip biosensors. Here, the influence of the physiological liquid medium on the transport characteristics of functionalized magnetic particles and on the functionality of the coupled protein is studied. These aspects are theoretically modeled and experimentally investigated for prototype superparamagnetic beads, surface-functionalized with green fluorescent protein immersed in buffer solution with different concentrations of a surfactant. The model reports on the tunability of the steady-state particle substrate separation distance to prevent their surface sticking via the choice of surfactant concentration. Experimental and theoretical average velocities are discussed for a ratchet-like particle motion induced by a dynamic external field superposed on a static locally varying magnetic field landscape. The developed model and experiment may serve as a basis for quantitative forecasts on the functionality of magnetic particle transport-based lab-on-chip devices.
Collapse
Affiliation(s)
- Meike Reginka
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
| | - Hai Hoang
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
| | - Özge Efendi
- Institute of Biology and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
| | - Maximilian Merkel
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
| | - Rico Huhnstock
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
| | - Dennis Holzinger
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
| | - Kristina Dingel
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
- Intelligent Embedded Systems, University of Kassel, Wilhelmshöher Allee 71-73, D-34121 Kassel, Germany
| | - Bernhard Sick
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
- Intelligent Embedded Systems, University of Kassel, Wilhelmshöher Allee 71-73, D-34121 Kassel, Germany
| | - Daniela Bertinetti
- Institute of Biology and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
| | - Friedrich W Herberg
- Institute of Biology and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
| | - Arno Ehresmann
- Institute of Physics and Center for Interdisciplinary Nanostructure Science and Technology (CINSaT), University of Kassel, Heinrich-Plett-Strasse 40, D-34132 Kassel, Germany
- Artificial Intelligence Methods for Experiment Design (AIM-ED), Joint Lab Helmholtzzentrum für Materialien und Energie, Berlin (HZB) and Kassel University, cc Gregor Hartmann, Hahn-Meitner Platz 1, 14109 Berlin, Germany
| |
Collapse
|
17
|
Khodaparast S, Marcos J, Sharratt WN, Tyagi G, Cabral JT. Surface-Induced Crystallization of Sodium Dodecyl Sulfate (SDS) Micellar Solutions in Confinement. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:230-239. [PMID: 33347298 DOI: 10.1021/acs.langmuir.0c02821] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
We investigate the role of confinement on the onset of crystallization in subcooled micellar solutions of sodium dodecyl sulfate (SDS), examining the impact of sample volume, substrate surface energy, and surface roughness. Using small angle neutron scattering (SANS) and dynamic light scattering (DLS), we measure the crystallization temperature upon cooling and the metastable zone width (MSZW) for bulk 10-30 wt% SDS solutions. We then introduce a microdroplet approach to quantify the impact of surface free energy (18-65 mN/m) and substrate roughness (Rα ≃ 0-60 μm) on the kinetics of surface-induced crystallization through measurements of induction time (ti) under isothermal conditions. While ti is found to decrease exponentially with decreasing temperature (increasing subcooling) for all tested surfaces, increasing the surface energy could cause a significant further reduction of up to ∼40 fold. For substrates with the lowest surface energy and longest ti, microscale surface roughness is found to enhance crystal nucleation, in particular for Rα ≥ 10 μm. Finally, we demonstrate that tuning the surface energy and microscopic roughness can be effective routes to promote or delay nucleation in bulk-like volumes, thus greatly impacting the stability of surfactant solutions at lower temperatures.
Collapse
Affiliation(s)
- Sepideh Khodaparast
- School of Mechanical Engineering, University of Leeds, LS2 9JT Leeds, United Kingdom
| | - Julius Marcos
- Department of Chemical Engineering, Imperial College London, SW7 2AZ London, United Kingdom
| | - William N Sharratt
- Department of Chemical Engineering, Imperial College London, SW7 2AZ London, United Kingdom
| | - Gunjan Tyagi
- Department of Chemical Engineering, Imperial College London, SW7 2AZ London, United Kingdom
| | - João T Cabral
- Department of Chemical Engineering, Imperial College London, SW7 2AZ London, United Kingdom
| |
Collapse
|
18
|
Song Z, Yuan W, Bai Z, Wang M, Huang R. Conformational study of intermediate in the unfolding of PcoC. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 244:118805. [PMID: 32860995 DOI: 10.1016/j.saa.2020.118805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Revised: 07/29/2020] [Accepted: 08/01/2020] [Indexed: 06/11/2023]
Abstract
PcoC is a small soluble protein and is considered as a kind of copper carrier in the periplasm. The PcoC protein from E. coli possesses a β-barrel fold with two metal-binding sites of Cu2+ and Cu+. In this work, different spectroscopic techniques were adopted to clarify the stability of PcoC and metals' binding property. As demonstrated in results, Ag+ and Cu2+ are capable of binding with PcoC in a proportion of 1:1. The constant for PcoC and Cu2+ was (7.27 ± 0.21) × 1013 L/mol. In addition, we have explored how the cofactors affect the PcoC stability, finding that Cu2+ coordination affects both protein stability and unfolding pathway. The intermediate appeared during PcoC-Cu2+ unfolding. Further, the intermediate could be formed as CTAB interacted with PcoC. As found, the intermediate's C-terminal structure was unfolded, whereas the N-terminal was almost unaffected. Furthermore, the capability of the different unfolding degree protein with Cu2+ also indicated that the N-terminal exhibited a strong stability. Based on the anisotropy decay, tryptophan moved at a higher concentration of urea, also showing that the N-terminal was highly stable. In addition, the steered molecular dynamics simulations were performed, showing the rigidness of the N-terminal.
Collapse
Affiliation(s)
- Zhen Song
- Taiyuan Normal University Department of Chemistry, Jinzhong 030619, China.
| | - Wen Yuan
- China University of Geosciences, Beijing 100083, China
| | - Ze Bai
- Taiyuan Normal University Department of Chemistry, Jinzhong 030619, China
| | - Mingong Wang
- Taiyuan Normal University Department of Chemistry, Jinzhong 030619, China
| | - Ruijie Huang
- Taiyuan Normal University Department of Chemistry, Jinzhong 030619, China
| |
Collapse
|
19
|
Sanchez-Fernandez A, Diehl C, Houston JE, Leung AE, Tellam JP, Rogers SE, Prevost S, Ulvenlund S, Sjögren H, Wahlgren M. An integrative toolbox to unlock the structure and dynamics of protein-surfactant complexes. NANOSCALE ADVANCES 2020; 2:4011-4023. [PMID: 36132802 PMCID: PMC9417085 DOI: 10.1039/d0na00194e] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2020] [Accepted: 07/11/2020] [Indexed: 05/06/2023]
Abstract
The interactions between protein and surfactants play an important role in the stability and performance of formulated products. Due to the high complexity of such interactions, multi-technique approaches are required to study these systems. Here, an integrative approach is used to investigate the various interactions in a model system composed of human growth hormone and sodium dodecyl sulfate. Contrast variation small-angle neutron scattering was used to obtain information on the structure of the protein, surfactant aggregates and surfactant-protein complexes. 1H and 1H-13C HSQC nuclear magnetic resonance spectroscopy was employed to probe the local structure and dynamics of specific amino acids upon surfactant addition. Through the combination of these advanced methods with fluorescence spectroscopy, circular dichroism and isothermal titration calorimetry, it was possible to identify the interaction mechanisms between the surfactant and the protein in the pre- and post-micellar regimes, and interconnect the results from different techniques. As such, the protein was revealed to evolve from a partially unfolded conformation at low SDS concentration to a molten globule at intermediate concentrations, where the protein conformation and local dynamics of hydrophobic amino acids are partially affected compared to the native state. At higher surfactant concentrations the local structure of the protein appears disrupted, and a decorated micelle structure is observed, where the protein is wrapped around a surfactant assembly. Importantly, this integrative approach allows for the identification of the characteristic fingerprints of complex transitions as seen by each technique, and establishes a methodology for an in-detail study of surfactant-protein systems.
Collapse
Affiliation(s)
| | - Carl Diehl
- SARomics Biostructures AB Medicon Village, Scheelevägen 2 223 81 Lund Sweden
| | | | - Anna E Leung
- European Spallation Source Box 176 221 00 Lund Sweden
| | - James P Tellam
- ISIS Neutron and Muon Source, Science and Technology Facilities Council, Rutherford Appleton Laboratory Didcot OX11 0QX UK
| | - Sarah E Rogers
- ISIS Neutron and Muon Source, Science and Technology Facilities Council, Rutherford Appleton Laboratory Didcot OX11 0QX UK
| | - Sylvain Prevost
- Institut Laue-Langevin 71 Avenue des Martyrs 38000 Grenoble France
| | - Stefan Ulvenlund
- Food Technology, Engineering and Nutrition, Lund University Box 124 221 00 Lund Sweden
- EnzaBiotech AB Scheelevägen 22 223 63 Lund Sweden
| | - Helen Sjögren
- Ferring Pharmaceuticals A/S Kay Fiskers Plads 11 2300 Copenhagen S Denmark
| | - Marie Wahlgren
- Food Technology, Engineering and Nutrition, Lund University Box 124 221 00 Lund Sweden
- EnzaBiotech AB Scheelevägen 22 223 63 Lund Sweden
| |
Collapse
|
20
|
Winogradoff D, John S, Aksimentiev A. Protein unfolding by SDS: the microscopic mechanisms and the properties of the SDS-protein assembly. NANOSCALE 2020; 12:5422-5434. [PMID: 32080694 PMCID: PMC7291819 DOI: 10.1039/c9nr09135a] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
The effects of detergent sodium dodecyl sulfate (SDS) on protein structure and dynamics are fundamental to the most common laboratory technique used to separate proteins and determine their molecular weights: polyacrylamide gel electrophoresis. However, the mechanism by which SDS induces protein unfolding and the microstructure of protein-SDS complexes remain largely unknown. Here, we report a detailed account of SDS-induced unfolding of two proteins-I27 domain of titin and β-amylase-obtained through all-atom molecular dynamics simulations. Both proteins were found to spontaneously unfold in the presence of SDS at boiling water temperature on the time scale of several microseconds. The protein unfolding was found to occur via two distinct mechanisms in which specific interactions of individual SDS molecules disrupt the protein's secondary structure. In the final state of the unfolding process, the proteins are found to wrap around SDS micelles in a fluid necklace-and-beads configuration, where the number and location of bound micelles changes dynamically. The global conformation of the protein was found to correlate with the number of SDS micelles bound to it, whereas the number of SDS molecules directly bound to the protein was found to define the relaxation time scale of the unfolded protein. Our microscopic characterization of SDS-protein interactions sets the stage for future refinement of SDS-enabled protein characterization methods, including protein fingerprinting and sequencing using a solid-state nanopore.
Collapse
Affiliation(s)
- David Winogradoff
- Center for the Physics of Living Cells, University of Illinois at Urbana-Champaign, Urbana, IL, USA.
| | | | | |
Collapse
|
21
|
Pedersen JN, Lyngsø J, Zinn T, Otzen DE, Pedersen JS. A complete picture of protein unfolding and refolding in surfactants. Chem Sci 2019; 11:699-712. [PMID: 34123043 PMCID: PMC8145811 DOI: 10.1039/c9sc04831f] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Interactions between proteins and surfactants are of relevance in many applications including food, washing powder formulations, and drug formulation. The anionic surfactant sodium dodecyl sulfate (SDS) is known to unfold globular proteins, while the non-ionic surfactant octaethyleneglycol monododecyl ether (C12E8) can be used to refold proteins from their SDS-denatured state. While unfolding have been studied in detail at the protein level, a complete picture of the interplay between protein and surfactant in these processes is lacking. This gap in our knowledge is addressed in the current work, using the β-sheet-rich globular protein β-lactoglobulin (bLG). We combined stopped-flow time-resolved SAXS, fluorescence, and circular dichroism, respectively, to provide an unprecedented in-depth picture of the different steps involved in both protein unfolding and refolding in the presence of SDS and C12E8. During unfolding, core-shell bLG-SDS complexes were formed within ∼10 ms. This involved an initial rapid process where protein and SDS formed aggregates, followed by two slower processes, where the complexes first disaggregated into single protein structures situated asymmetrically on the SDS micelles, followed by isotropic redistribution of the protein. Refolding kinetics (>100 s) were slower than unfolding (<30 s), and involved rearrangements within the mixing deadtime (∼5 ms) and transient accumulation of unfolded monomeric protein, differing in structure from the original bLG-SDS structure. Refolding of bLG involved two steps: extraction of most of the SDS from the complexes followed by protein refolding. These results reveal that surfactant-mediated unfolding and refolding of proteins are complex processes with rearrangements occurring on time scales from sub-milliseconds to minutes.
Collapse
Affiliation(s)
- Jannik Nedergaard Pedersen
- Interdisciplinary Nanoscience Center (iNANO), Department of Chemistry, Aarhus University Gustav Wieds Vej 14 DK - 8000 Aarhus C Denmark
| | - Jeppe Lyngsø
- Interdisciplinary Nanoscience Center (iNANO), Department of Chemistry, Aarhus University Gustav Wieds Vej 14 DK - 8000 Aarhus C Denmark
| | - Thomas Zinn
- ESRF - The European Synchrotron 38043 Grenoble France
| | - Daniel E Otzen
- Interdisciplinary Nanoscience Center (iNANO), Department of Molecular Biology and Genetics, Aarhus University Gustav Wieds Vej 14 DK - 8000 Aarhus C Denmark
| | - Jan Skov Pedersen
- Interdisciplinary Nanoscience Center (iNANO), Department of Chemistry, Aarhus University Gustav Wieds Vej 14 DK - 8000 Aarhus C Denmark
| |
Collapse
|
22
|
Rasmussen HØ, Enghild JJ, Otzen DE, Pedersen JS. Unfolding and partial refolding of a cellulase from the SDS-denatured state: From β-sheet to α-helix and back. Biochim Biophys Acta Gen Subj 2019; 1864:129434. [PMID: 31525408 DOI: 10.1016/j.bbagen.2019.129434] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Revised: 09/10/2019] [Accepted: 09/11/2019] [Indexed: 10/26/2022]
Abstract
Globular proteins are typically unfolded by SDS to form protein-decorated micelle-like structures. Several proteins have been shown subsequently to refold by addition of the nonionic surfactant octaethylene glycol monododecyl ether (C12E8). Thus SDS converts β-lactoglobulin, which has mainly β-sheet secondary structure, into a state rich in α-helicality, while addition of C12E8 leads to refolding and recovery of the original β-sheet structure. Here we extend these studies to the large β-sheet-rich cellulase Cel7b from Humicola insolens whose enzymatic activity provides a very sensitive refolding parameter. The enzymes widespread usage in the detergent industry makes it an obvious model system for protein-surfactant interactions. SDS-unfolding and subsequent refolding using C12E8 were investigated at pH 4.2 using near- and far-UV circular dichroism (CD), small-angle X-ray scattering (SAXS), isothermal titration calorimetry (ITC), size-exclusion chromatography (SEC) and activity measurements. The Cel7b:SDS complex can be described as a random configuration of 3-4 connected core-shell structures in which the protein is converted to a mainly α-helical secondary structure. Addition of C12E8 recovers almost all the secondary structure, part of the tertiary structure, about 50% of the activity and dissociates part of the protein population completely from detergent micelles. The lack of complete refolding may be due to charge neutralisation of Cel7b by SDS, kinetically trapping the enzyme into aggregated structures. In support of this, aggregates did not form when C12E8 was first mixed with Cel7b followed by addition of SDS. Formation of such aggregates may be a general phenomenon hampering quantitative refolding from the SDS-denatured state.
Collapse
Affiliation(s)
- Helena Ø Rasmussen
- iNANO, Aarhus University, Gustav Wieds Vej 14, DK - 8000 Aarhus C, Denmark; Department of Chemistry, Aarhus University, Langelandsgade 140, DK - 8000 Aarhus C, Denmark
| | - Jan J Enghild
- Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 10C, DK - 8000 Aarhus C, Denmark
| | - Daniel E Otzen
- iNANO, Aarhus University, Gustav Wieds Vej 14, DK - 8000 Aarhus C, Denmark; Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 10C, DK - 8000 Aarhus C, Denmark.
| | - Jan Skov Pedersen
- iNANO, Aarhus University, Gustav Wieds Vej 14, DK - 8000 Aarhus C, Denmark; Department of Chemistry, Aarhus University, Langelandsgade 140, DK - 8000 Aarhus C, Denmark.
| |
Collapse
|
23
|
Kjølbye LR, Laustsen A, Vestergaard M, Periole X, De Maria L, Svendsen A, Coletta A, Schiøtt B. Molecular Modeling Investigation of the Interaction between Humicola insolens Cutinase and SDS Surfactant Suggests a Mechanism for Enzyme Inactivation. J Chem Inf Model 2019; 59:1977-1987. [DOI: 10.1021/acs.jcim.8b00857] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
| | - Anne Laustsen
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | - Mikkel Vestergaard
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | - Xavier Periole
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | | | | | - Andrea Coletta
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| | - Birgit Schiøtt
- Department of Chemistry, Aarhus University, Langelandsgade 140, 8000 Aarhus C, Denmark
| |
Collapse
|
24
|
Huda N, Hossain M, Bhuyan AK. Complete observation of all structural, conformational, and fibrillation transitions of monomeric globular proteins at submicellar sodium dodecyl sulfate concentrations. Biopolymers 2019; 110:e23255. [PMID: 30633322 DOI: 10.1002/bip.23255] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2018] [Revised: 12/18/2018] [Accepted: 12/21/2018] [Indexed: 11/06/2022]
Abstract
Although considerable information is available regarding protein-sodium dodecyl sulfate (SDS) interactions, it is still unclear as to how much SDS is needed to denature proteins. The role of protein charge and micellar surfactant concentration on amyloid fibrillation is also unclear. This study reports on equilibrium measurements of SDS interaction with six model proteins and analyzes the results to obtain a general understanding of conformational breakdown, reorganization and restructuring of secondary structure, and entry into the amyloid fibrillar state. Significantly, all of these responses are entirely resolved at much lower than the critical micellar concentration (CMC) of SDS. Electrostatic interaction of the dodecyl sulfate anion (DS- ) with positive surface potential on the protein can completely unfold both secondary and tertiary structures, which is followed by protein chain restructuration to α-helices. All SDS-denatured proteins contain more α-helices than the corresponding native state. SDS interaction stochastically drives proteins to the aggregated fibrillar state.
Collapse
Affiliation(s)
- Noorul Huda
- School of Chemistry, University of Hyderabad, Hyderabad, India
| | - Mujahid Hossain
- School of Chemistry, University of Hyderabad, Hyderabad, India
| | - Abani K Bhuyan
- School of Chemistry, University of Hyderabad, Hyderabad, India
| |
Collapse
|
25
|
Højgaard C, Sørensen HV, Pedersen JS, Winther JR, Otzen DE. Can a Charged Surfactant Unfold an Uncharged Protein? Biophys J 2018; 115:2081-2086. [PMID: 30447995 DOI: 10.1016/j.bpj.2018.10.022] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Revised: 10/05/2018] [Accepted: 10/24/2018] [Indexed: 11/26/2022] Open
Abstract
Does sodium dodecyl sulfate (SDS) denature proteins through electrostatic SDS-protein interactions? We show that a protein completely lacking charged side chains is unfolded by SDS in a manner similar to charged proteins, revealing that formal protein charges are not required for SDS-induced protein unfolding or binding.
Collapse
Affiliation(s)
- Casper Højgaard
- Linderstrøm-Lang Centre for Protein Science, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | | | - Jan Skov Pedersen
- Linderstrøm-Lang Centre for Protein Science, Department of Biology, University of Copenhagen, Copenhagen, Denmark; Department of Chemistry, Aarhus University, Aarhus, Denmark
| | - Jakob Rahr Winther
- Linderstrøm-Lang Centre for Protein Science, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Daniel Erik Otzen
- Interdisciplinary Nanoscience Center (iNANO), Aarhus University, Aarhus, Denmark.
| |
Collapse
|
26
|
Yoeun S, Cho K, Han O. Structural Evidence for the Substrate Channeling of Rice Allene Oxide Cyclase in Biologically Analogous Nazarov Reaction. Front Chem 2018; 6:500. [PMID: 30425978 PMCID: PMC6218421 DOI: 10.3389/fchem.2018.00500] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Accepted: 10/01/2018] [Indexed: 01/05/2023] Open
Abstract
Allene oxide cyclase (AOC) is a key enzyme in the jasmonic acid (JA) biosynthetic pathway in plants, during which it catalyzes stereospecific conversion of 12,13(S)-epoxy-9(Z),11,15(Z)-octadecatrienoic acid (12,13-EOT) to cis(+)-12-oxophytodienoic acid. Here, rice allene oxide cyclase (OsAOC) was localized to the chloroplast and its native oligomeric structure was analyzed by gel electrophoresis in the absence and presence of a protein-crosslinking reagent. The results suggest that OsAOC exists in solution as a mixture of monomers, dimers, and higher order multimers. OsAOC preferentially exists as dimer at room temperature, but it undergoes temperature-dependent partial denaturation in the presence of SDS. A heteromeric 2:1 complex of OsAOC and rice allene oxide synthase-1 (OsAOS1) was detected after cross-linking. The yield of cis(+)-12-oxophytodienoic acid reached maximal saturation at a 5:1 molar ratio of OsAOC to OsAOS1, when OsAOC and OsAOS1 reactions were coupled. These results suggest that the OsAOC dimer may facilitate its interaction with OsAOS1, and that the heteromeric 2:1 complex may promote efficient channeling of the unstable allene oxide intermediate during catalysis. In addition, conceptual similarities between the reaction catalyzed by AOC and Nazarov cyclization are discussed.
Collapse
Affiliation(s)
- Sereyvath Yoeun
- Department of Molecular Biotechnology and Kumho Life Science Laboratory, College of Agriculture and Life Sciences, Chonnam National University, Gwangju, South Korea.,Faculty of Chemical and Food Engineering, Institute of Technology of Cambodia, Phnom Penh, Cambodia
| | - Kyoungwon Cho
- Department of Molecular Biotechnology and Kumho Life Science Laboratory, College of Agriculture and Life Sciences, Chonnam National University, Gwangju, South Korea
| | - Oksoo Han
- Department of Molecular Biotechnology and Kumho Life Science Laboratory, College of Agriculture and Life Sciences, Chonnam National University, Gwangju, South Korea
| |
Collapse
|
27
|
The Use of Surfactants to Solubilise a Glucagon Analogue. Pharm Res 2018; 35:235. [DOI: 10.1007/s11095-018-2494-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2018] [Accepted: 09/05/2018] [Indexed: 11/26/2022]
|
28
|
Ferreira GMD, Ferreira GMD, Agudelo ÁJP, Hudson EA, Pires ACDS, da Silva LHM. Lactoferrin denaturation induced by anionic surfactants: The role of the ferric ion in the protein stabilization. Int J Biol Macromol 2018; 117:1039-1049. [DOI: 10.1016/j.ijbiomac.2018.05.058] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 05/09/2018] [Accepted: 05/11/2018] [Indexed: 12/19/2022]
|
29
|
Banyuls N, Hernández-Martínez P, Quan Y, Ferré J. Artefactual band patterns by SDS-PAGE of the Vip3Af protein in the presence of proteases mask the extremely high stability of this protein. Int J Biol Macromol 2018; 120:59-65. [PMID: 30120972 DOI: 10.1016/j.ijbiomac.2018.08.067] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2018] [Revised: 07/20/2018] [Accepted: 08/14/2018] [Indexed: 10/28/2022]
Abstract
Vip3 proteins are secretable proteins from Bacillus thuringiensis with important characteristics for the microbiological control of agricultural pests. The exact details of their mode of action are yet to be disclosed and the crystallographic structure is still unknown. Vip3 proteins are expressed as protoxins that have to be activated by the insect gut proteases. A previous study on the peptidase processing of Vip3Aa revealed that the protoxin produced artefactual band patterns by SDS-PAGE due to the differential stability of this protein and the peptidases to SDS and heating (Bel et al., 2017 Toxins 9:131). To determine whether this phenomenon also applies to other Vip3A proteins, here we chose a different Vip3A protein (Vip3Af) and subjected it to commercial trypsin and midgut juice from a target insect species (Spodoptera frugiperda). The misleading degradation patterns were also observed with Vip3Af, both with trypsin and midgut juice. However, gel filtration chromatography showed that, under native conditions, Vip3Af is found as a tetramer and that peptidases only act upon primary cleavage sites. The proteolytic cleavage renders two fragments of approximately 20 kDa and 65 kDa which remain together in the tretameric structure and that are no further processed even at high peptidase concentrations.
Collapse
Affiliation(s)
- Núria Banyuls
- ERI BIOTECMED, and Department of Genetics, Universitat de València. Dr. Moliner, 50, 46100 Burjassot, Valencia, Spain
| | - Patricia Hernández-Martínez
- ERI BIOTECMED, and Department of Genetics, Universitat de València. Dr. Moliner, 50, 46100 Burjassot, Valencia, Spain
| | - Yudong Quan
- ERI BIOTECMED, and Department of Genetics, Universitat de València. Dr. Moliner, 50, 46100 Burjassot, Valencia, Spain
| | - Juan Ferré
- ERI BIOTECMED, and Department of Genetics, Universitat de València. Dr. Moliner, 50, 46100 Burjassot, Valencia, Spain.
| |
Collapse
|
30
|
Secondary structure assessment of formulated bevacizumab in the presence of SDS by deep ultraviolet resonance Raman (DUVRR) spectroscopy. Anal Biochem 2018; 555:26-32. [DOI: 10.1016/j.ab.2018.06.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 05/14/2018] [Accepted: 06/04/2018] [Indexed: 12/15/2022]
|
31
|
Kachuk C, Doucette AA. The benefits (and misfortunes) of SDS in top-down proteomics. J Proteomics 2018; 175:75-86. [DOI: 10.1016/j.jprot.2017.03.002] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2016] [Revised: 01/19/2017] [Accepted: 03/03/2017] [Indexed: 12/18/2022]
|
32
|
Roussel G, Caudano Y, Matagne A, Sansom MS, Perpète EA, Michaux C. Peptide-surfactant interactions: A combined spectroscopic and molecular dynamics simulation approach. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2018; 190:464-470. [PMID: 28961531 DOI: 10.1016/j.saa.2017.09.056] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/08/2017] [Revised: 09/18/2017] [Accepted: 09/19/2017] [Indexed: 06/07/2023]
Abstract
In the present contribution, we report a combined spectroscopic and computational approach aiming to unravel at atomic resolution the effect of the anionic SDS detergent on the structure of two model peptides, the α-helix TrpCage and the β-stranded TrpZip. A detailed characterization of the specific amino acids involved is performed. Monomeric (single molecules) and micellar SDS species differently interact with the α-helix and β-stranded peptides, emphasizing the different mechanisms occurring below and above the critical aggregation concentration (CAC). Below the CAC, the α-helix peptide is fully unfolded, losing its hydrophobic core and its Asp-Arg salt bridge, while the β-stranded peptide keeps its native structure with its four Trp well oriented. Above the CAC, the SDS micelles have the same effect on both peptides, that is, destabilizing the tertiary structure while keeping their secondary structure. Our studies will be helpful to deepen our understanding of the action of the denaturant SDS on peptides and proteins.
Collapse
Affiliation(s)
- Guillaume Roussel
- Department of Physiology and Biophysics, University of California, D340 Medical Sciences I, Irvine, CA 92697-4560, USA
| | - Yves Caudano
- Research Centre in Physics of Matter and Radiation (PMR), University of Namur, 61 Rue de Bruxelles, 5000 Namur, Belgium
| | - André Matagne
- Laboratory of Enzymology and Protein Folding, Centre for Protein Engineering, Institut de Chimie B6, University of Liège, Belgium
| | - Mark S Sansom
- Department of Biochemistry, University of Oxford, South Park Road, OX13QU Oxford, United Kingdom
| | - Eric A Perpète
- Laboratory of Physical Chemistry of Biomolecules, Unité de Chimie Physique Théorique et Structurale (UCPTS), University of Namur, 61, Rue de Bruxelles, 5000 Namur, Belgium
| | - Catherine Michaux
- Laboratory of Physical Chemistry of Biomolecules, Unité de Chimie Physique Théorique et Structurale (UCPTS), University of Namur, 61, Rue de Bruxelles, 5000 Namur, Belgium.
| |
Collapse
|
33
|
Jafari M, Mehrnejad F, Rahimi F, Asghari SM. The Molecular Basis of the Sodium Dodecyl Sulfate Effect on Human Ubiquitin Structure: A Molecular Dynamics Simulation Study. Sci Rep 2018; 8:2150. [PMID: 29391595 PMCID: PMC5794983 DOI: 10.1038/s41598-018-20669-7] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2017] [Accepted: 01/16/2018] [Indexed: 01/01/2023] Open
Abstract
To investigate the molecular interactions of sodium dodecyl sulfate (SDS) with human ubiquitin and its unfolding mechanisms, a comparative study was conducted on the interactions of the protein in the presence and absence of SDS at different temperatures using six independent 500 ns atomistic molecular dynamics (MD) simulations. Moreover, the effects of partial atomic charges on SDS aggregation and micellar structures were investigated at high SDS concentrations. The results demonstrated that human ubiquitin retains its native-like structure in the presence of SDS and pure water at 300 K, while the conformation adopts an unfolded state at a high temperature. In addition, it was found that both SDS self-assembly and the conformation of the resulting protein may have a significant effect of reducing the partial atomic charges. The simulations at 370 K provided evidence that the SDS molecules disrupted the first hydration shell and expanded the hydrophobic core of ubiquitin, resulting in complete protein unfolding. According to these results, SDS and temperature are both required to induce a completely unfolded state under ambient conditions. We believe that these findings could be useful in protein folding/unfolding studies and structural biology.
Collapse
Affiliation(s)
- Majid Jafari
- Nanobiotechnology Lab, Department of Life Sciences Engineering, Faculty of New Sciences and Technologies, University of Tehran, 14395-1561, Tehran, Iran
| | - Faramarz Mehrnejad
- Nanobiotechnology Lab, Department of Life Sciences Engineering, Faculty of New Sciences and Technologies, University of Tehran, 14395-1561, Tehran, Iran.
| | - Fereshteh Rahimi
- Nanobiotechnology Lab, Department of Life Sciences Engineering, Faculty of New Sciences and Technologies, University of Tehran, 14395-1561, Tehran, Iran
| | - S Mohsen Asghari
- Department of Biology, Faculty of Sciences, University of Guilan, 4193833697, Rasht, Iran
| |
Collapse
|
34
|
A harmonized immunoassay with liquid chromatography-mass spectrometry analysis in egg allergen determination. Anal Bioanal Chem 2017; 410:325-335. [PMID: 29138881 DOI: 10.1007/s00216-017-0721-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2017] [Revised: 10/08/2017] [Accepted: 10/23/2017] [Indexed: 01/26/2023]
Abstract
Food allergy is a serious health issue worldwide. Implementing allergen labeling regulations is extremely challenging for regulators, food manufacturers, and analytical kit manufacturers. Here we have developed an "amino acid sequence immunoassay" approach to ELISA. The new ELISA comprises of a monoclonal antibody generated via an analyte specific peptide antigen and sodium lauryl sulfate/sulfite solution. This combination enables the antibody to access the epitope site in unfolded analyte protein. The newly developed ELISA recovered 87.1%-106.4% ovalbumin from ovalbumin-incurred model processed foods, thereby demonstrating its applicability as practical egg allergen determination. Furthermore, the comparison of LC-MS/MS and the new ELISA, which targets the amino acid sequence conforming to the LC-MS/MS detection peptide, showed a good agreement. Consequently the harmonization of two methods was demonstrated. The complementary use of the new ELISA and LC-MS analysis can offer a wide range of practical benefits in terms of easiness, cost, accuracy, and efficiency in food allergen analysis. In addition, the new assay is attractive in respect to its easy antigen preparation and predetermined specificity. Graphical abstract The ELISA composing of the monoclonal antibody targeting the amino acid sequence conformed to LC-MS detection peptide, and the protein conformation unfolding reagent was developed. In ovalbumin determination, the developed ELISA showed a good agreement with LC-MS analysis. Consequently the harmonization of immunoassay with LC-MS analysis by using common target amino acid sequence was demonstrated.
Collapse
|
35
|
Magaña Vergara C, Kallenberg CJL, Rogasch M, Hübner CG, Song Y. A versatile vector for mycobacterial protein production with a functional minimized acetamidase regulon. Protein Sci 2017; 26:2302-2311. [PMID: 28857325 PMCID: PMC5654848 DOI: 10.1002/pro.3288] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2016] [Revised: 06/09/2017] [Accepted: 08/22/2017] [Indexed: 11/10/2022]
Abstract
Recombinant protein expression is a prerequisite for diverse investigations of proteins at the molecular level. For targets from Mycobacterium tuberculosis it is favorable to use M. smegmatis as an expression host, a species from the same genus. In the respective shuttle vectors, target gene expression is controlled by the complex tetra-cistronic acetamidase regulon. As a result, the size of those vectors is large, rendering them of limited use, especially when the target proteins are expressed from multi-cistronic operons. Therefore, in the current work we present a versatile new expression vector in which the acetamidase regulon has been minimized by deleting the two genes amiD and amiS. We assessed the functional properties of the resulting vector pMyCA and compared it with those of the existing vector pMyNT that contains the full-length acetamidase regulon. We analyzed the growth features and protein expression patterns of M. smegmatis cultures transformed with both vectors. In addition, we created mCherry expression constructs to spectroscopically monitor the expression properties of both vectors. Our experiments showed that the minimized vector exhibited several advantages over the pMyNT vector. First, the overall yield of expressed protein is higher due to the higher yield of bacterial mass. Second, the heterologous expression was regulated more tightly, offering an expression tool for diverse target proteins. Third, it is suitable for large multi-protein complexes that are expressed from multi-cistronic operons. Additionally, our results propose a new understanding of the regulation mechanism of the acetamidase regulon with the potential to construct more optimized vectors in the future.
Collapse
Affiliation(s)
| | | | - Miriam Rogasch
- Institute of Physics, University of Luebeck, Ratzeburger Allee 160Luebeck23562Germany
| | | | - Young‐Hwa Song
- Institute of Physics, University of Luebeck, Ratzeburger Allee 160Luebeck23562Germany
| |
Collapse
|
36
|
Sautrey G, Brié A, Gantzer C, Walcarius A. MS2 and Qβ bacteriophages reveal the contribution of surface hydrophobicity on the mobility of non-enveloped icosahedral viruses in SDS-based capillary zone electrophoresis. Electrophoresis 2017; 39:377-385. [PMID: 29072777 DOI: 10.1002/elps.201700352] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2017] [Revised: 10/10/2017] [Accepted: 10/13/2017] [Indexed: 01/13/2023]
Abstract
SDS is commonly employed as BGE additive in CZE analysis of non-enveloped icosahedral viruses. But the way by which SDS interacts with the surface of such viruses remains to date poorly known, making complicate to understand their behavior during a run. In this article, two related bacteriophages, MS2 and Qβ, are used as model to investigate the migration mechanism of non-enveloped icosahedral viruses in SDS-based CZE. Both phages are characterized by similar size and surface charge but significantly different surface hydrophobicity (Qβ > MS2, where '>' means 'more hydrophobic than'). By comparing their electrophoretic mobility in the presence or not of SDS on both sides of the CMC, we show that surface hydrophobicity of phages is a key factor influencing their mobility and that SDS-virus association is driven by hydrophobic interactions at the surface of virions. The CZE analyses of heated MS2 particles, which over-express hydrophobic domains at their surface, confirm this finding. The correlations between the present results and others from the literature suggest that the proposed mechanism might not be exclusive to the bacteriophages examined here.
Collapse
Affiliation(s)
- Guillaume Sautrey
- Laboratoire de Chimie Physique et Microbiologie pour l'Environnement (LCPME), UMR 7564 CNRS-Université de Lorraine, Villers-lès-Nancy, France
| | - Adrien Brié
- Laboratoire de Chimie Physique et Microbiologie pour l'Environnement (LCPME), UMR 7564 CNRS-Université de Lorraine, Villers-lès-Nancy, France
| | - Christophe Gantzer
- Laboratoire de Chimie Physique et Microbiologie pour l'Environnement (LCPME), UMR 7564 CNRS-Université de Lorraine, Villers-lès-Nancy, France
| | - Alain Walcarius
- Laboratoire de Chimie Physique et Microbiologie pour l'Environnement (LCPME), UMR 7564 CNRS-Université de Lorraine, Villers-lès-Nancy, France
| |
Collapse
|
37
|
Zaidi N, Khan RH. Mechanistic insight into interaction of Sodium Dodecyl Sulphate to asialylated form of glycoprotein: A mimic of membrane protein-lipid system. Int J Biol Macromol 2017; 103:65-73. [DOI: 10.1016/j.ijbiomac.2017.05.026] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Revised: 05/04/2017] [Accepted: 05/05/2017] [Indexed: 10/19/2022]
|
38
|
Restrepo-Pérez L, John S, Aksimentiev A, Joo C, Dekker C. SDS-assisted protein transport through solid-state nanopores. NANOSCALE 2017; 9:11685-11693. [PMID: 28776058 PMCID: PMC5611827 DOI: 10.1039/c7nr02450a] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Using nanopores for single-molecule sequencing of proteins - similar to nanopore-based sequencing of DNA - faces multiple challenges, including unfolding of the complex tertiary structure of the proteins and enforcing their unidirectional translocation through nanopores. Here, we combine molecular dynamics (MD) simulations with single-molecule experiments to investigate the utility of SDS (Sodium Dodecyl Sulfate) to unfold proteins for solid-state nanopore translocation, while simultaneously endowing them with a stronger electrical charge. Our simulations and experiments prove that SDS-treated proteins show a considerable loss of the protein structure during the nanopore translocation. Moreover, SDS-treated proteins translocate through the nanopore in the direction prescribed by the electrophoretic force due to the negative charge impaired by SDS. In summary, our results suggest that SDS causes protein unfolding while facilitating protein translocation in the direction of the electrophoretic force; both characteristics being advantageous for future protein sequencing applications using solid-state nanopores.
Collapse
Affiliation(s)
- Laura Restrepo-Pérez
- Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, van der Maasweg 9, 2629 HZ Delft, The Netherlands.
| | | | | | | | | |
Collapse
|
39
|
Kaspersen JD, Søndergaard A, Madsen DJ, Otzen DE, Pedersen JS. Refolding of SDS-Unfolded Proteins by Nonionic Surfactants. Biophys J 2017; 112:1609-1620. [PMID: 28445752 PMCID: PMC5406375 DOI: 10.1016/j.bpj.2017.03.013] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2016] [Revised: 03/03/2017] [Accepted: 03/07/2017] [Indexed: 11/30/2022] Open
Abstract
The strong and usually denaturing interaction between anionic surfactants (AS) and proteins/enzymes has both benefits and drawbacks: for example, it is put to good use in electrophoretic mass determinations but limits enzyme efficiency in detergent formulations. Therefore, studies of the interactions between proteins and AS as well as nonionic surfactants (NIS) are of both basic and applied relevance. The AS sodium dodecyl sulfate (SDS) denatures and unfolds globular proteins under most conditions. In contrast, NIS such as octaethylene glycol monododecyl ether (C12E8) and dodecyl maltoside (DDM) protect bovine serum albumin (BSA) from unfolding in SDS. Membrane proteins denatured in SDS can also be refolded by addition of NIS. Here, we investigate whether globular proteins unfolded by SDS can be refolded upon addition of C12E8 and DDM. Four proteins, BSA, α-lactalbumin (αLA), lysozyme, and β-lactoglobulin (βLG), were studied by small-angle x-ray scattering and both near- and far-UV circular dichroism. All proteins and their complexes with SDS were attempted to be refolded by the addition of C12E8, while DDM was additionally added to SDS-denatured αLA and βLG. Except for αLA, the proteins did not interact with NIS alone. For all proteins, the addition of NIS to the protein-SDS samples resulted in extraction of the SDS from the protein-SDS complexes and refolding of βLG, BSA, and lysozyme, while αLA changed to its NIS-bound state instead of the native state. We conclude that NIS competes with globular proteins for association with SDS, making it possible to release and refold SDS-denatured proteins by adding sufficient amounts of NIS, unless the protein also interacts with NIS alone.
Collapse
Affiliation(s)
| | | | - Daniel Jhaf Madsen
- Interdisciplinary Nanoscience Centre (iNANO), Aarhus University, Aarhus, Denmark
| | - Daniel E Otzen
- Interdisciplinary Nanoscience Centre (iNANO), Aarhus University, Aarhus, Denmark.
| | - Jan Skov Pedersen
- Interdisciplinary Nanoscience Centre (iNANO), Aarhus University, Aarhus, Denmark; Department of Chemistry, Aarhus University, Aarhus, Denmark.
| |
Collapse
|
40
|
Trivedi VD, Jones TS, Walker RP. Unusual Stability of Anabaena Sensory Rhodopsin Transducer from Anabaena PCC7120. THE INTERNATIONAL JOURNAL OF ENGINEERING AND SCIENCE 2017; 6:35-40. [PMID: 29400346 PMCID: PMC5791768] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Advances in biotechnology generated wide range of microbial genome and their related protein database. Freshwater cyanobacterium Anabaena PCC7120 sensory rhodopsin, ASR in contrast to classical haloarchaeal sensory rhodopsins interacts with putative soluble transducer, ASRT. The 125 amino acid transducer exists as a soluble protein and is involved in photoreceptor binding. Recombinant DNA tools in biotechnology conventionally support the use of affinity tags for ease of protein purification and subsequent studies. The ASRT exists as a stable tetramer. Both X-ray crystal structure and solution NMR results with ASRT utilizing hexa-histidine affinity tag reveal it as a primarily β-stranded protein We have observed that the affinity tagged ASRT exhibits altered oligomeric stability. In this communication we outlined the effect of commonly used denaturant, Sodium Dodecyl Sulfate (SDS) on the tetrameric packing of ASRT. Our results support that N-terminus hexa-histidine tagged ASRT displayed unusual SDS-resistant structure. The unusual stability of ASRT and its homologues present in other microbial population could provide further insight towards their role in receptor, other ligand binding and signaling.
Collapse
Affiliation(s)
- Vishwa D Trivedi
- Department of Natural Science, College of Science, Engineering and Mathematics, Bethune Cookman University, 640 Dr. Mary McLeod Bethune Blvd., Daytona Beach, Florida 32114, USA
| | - Tashmay S Jones
- Department of Natural Science, College of Science, Engineering and Mathematics, Bethune Cookman University, 640 Dr. Mary McLeod Bethune Blvd., Daytona Beach, Florida 32114, USA
| | - Renee P Walker
- Department of Natural Science, College of Science, Engineering and Mathematics, Bethune Cookman University, 640 Dr. Mary McLeod Bethune Blvd., Daytona Beach, Florida 32114, USA
| |
Collapse
|
41
|
Chaotropes trigger conformational rearrangements differently in Concanavalin A. J CHEM SCI 2017. [DOI: 10.1007/s12039-017-1333-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
|
42
|
Kopec AM, Rivera PD, Lacagnina MJ, Hanamsagar R, Bilbo SD. Optimized solubilization of TRIzol-precipitated protein permits Western blotting analysis to maximize data available from brain tissue. J Neurosci Methods 2017; 280:64-76. [PMID: 28192129 DOI: 10.1016/j.jneumeth.2017.02.002] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2016] [Revised: 01/24/2017] [Accepted: 02/06/2017] [Indexed: 01/02/2023]
Abstract
BACKGROUND Techniques simultaneously assessing multiple levels of molecular processing are appealing because molecular signaling underlying complex neural phenomena occurs at complementary levels. The TRIzol method isolates RNA and DNA, but protein retrieval is difficult due to inefficient solubilization of precipitated protein pellets. NEW METHOD We optimized a buffer for the efficient solubilization of protein from TRIzol-precipitated brain tissue for Western blotting analysis, which was also more effective at directly homogenizing brain tissue than RIPA buffer. RESULTS Protein yield during solubilization, in addition to protein yield via direct homogenization, is increased by optimizing concentrations of chemicals in a standard lysis buffer. Effective incubation parameters for both total protein yield and the analysis of post-translational modifications is remarkably flexible. Importantly, different neural cell types and protein classes are represented in solubilized protein samples. Moreover, we used dissociated mouse brain tissue to isolate microglia from other cell types and successfully resolved cell type-specific proteins from these small and difficult to attain samples. COMPARISON WITH EXISTING METHOD(S) Solubilization buffers to date have been comprised primarily of SDS or urea; the data herein demonstrate that components common to lysis buffers can also enhance protein solubilization both after direct homogenization and after precipitation. CONCLUSIONS This method is suitable for assessing gene and protein expression from a single brain sample, allowing for a more comprehensive evaluation of neural phenomena while minimizing the number of subjects.
Collapse
Affiliation(s)
- Ashley M Kopec
- Department of Psychology & Neuroscience, Duke University, Durham, NC, USA; Department of Pediatrics, Harvard Medical School, Boston, MA, USA.
| | - Phillip D Rivera
- Department of Psychology & Neuroscience, Duke University, Durham, NC, USA; Department of Pediatrics, Harvard Medical School, Boston, MA, USA
| | | | - Richa Hanamsagar
- Department of Psychology & Neuroscience, Duke University, Durham, NC, USA; Department of Pediatrics, Harvard Medical School, Boston, MA, USA
| | - Staci D Bilbo
- Department of Psychology & Neuroscience, Duke University, Durham, NC, USA; Department of Pediatrics, Harvard Medical School, Boston, MA, USA
| |
Collapse
|
43
|
Structure and chain conformation of a neutral polysaccharide from sclerotia of Polyporus umbellatus. Carbohydr Polym 2017; 155:61-67. [DOI: 10.1016/j.carbpol.2016.08.041] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2016] [Accepted: 08/15/2016] [Indexed: 11/19/2022]
|
44
|
Saha P, Sikdar S, Manna C, Chakrabarti J, Ghosh M. SDS induced dissociation of STY3178 oligomer: experimental and molecular dynamics studies. RSC Adv 2017. [DOI: 10.1039/c6ra25737b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
STY3178 the yfdX Salmonella Typhi protein dissociates reversibly in presence of sodium dodecyl sulphate from trimer to monomer.
Collapse
Affiliation(s)
- Paramita Saha
- Department of Chemical
- Biological and Macromolecular Sciences
- S. N. Bose National Centre for Basic Sciences
- Kolkata 700106
- India
| | - Samapan Sikdar
- Department of Chemical
- Biological and Macromolecular Sciences
- S. N. Bose National Centre for Basic Sciences
- Kolkata 700106
- India
| | - Camelia Manna
- Department of Chemical
- Biological and Macromolecular Sciences
- S. N. Bose National Centre for Basic Sciences
- Kolkata 700106
- India
| | - Jaydeb Chakrabarti
- Department of Chemical
- Biological and Macromolecular Sciences
- S. N. Bose National Centre for Basic Sciences
- Kolkata 700106
- India
| | - Mahua Ghosh
- Department of Chemical
- Biological and Macromolecular Sciences
- S. N. Bose National Centre for Basic Sciences
- Kolkata 700106
- India
| |
Collapse
|
45
|
Andersen KK, Vad BS, Scavenius C, Enghild JJ, Otzen DE. Human Lysozyme Peptidase Resistance Is Perturbed by the Anionic Glycolipid Biosurfactant Rhamnolipid Produced by the Opportunistic Pathogen Pseudomonas aeruginosa. Biochemistry 2016; 56:260-270. [DOI: 10.1021/acs.biochem.6b01009] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Kell K. Andersen
- Interdisciplinary Nanoscience Center (iNANO),
Department of Molecular Biology and Genetics, Aarhus University, Gustav
Wieds Vej 14, DK-8000 Aarhus C, Denmark
| | - Brian S. Vad
- Interdisciplinary Nanoscience Center (iNANO),
Department of Molecular Biology and Genetics, Aarhus University, Gustav
Wieds Vej 14, DK-8000 Aarhus C, Denmark
| | - Carsten Scavenius
- Interdisciplinary Nanoscience Center (iNANO),
Department of Molecular Biology and Genetics, Aarhus University, Gustav
Wieds Vej 14, DK-8000 Aarhus C, Denmark
| | - Jan J. Enghild
- Interdisciplinary Nanoscience Center (iNANO),
Department of Molecular Biology and Genetics, Aarhus University, Gustav
Wieds Vej 14, DK-8000 Aarhus C, Denmark
| | - Daniel E. Otzen
- Interdisciplinary Nanoscience Center (iNANO),
Department of Molecular Biology and Genetics, Aarhus University, Gustav
Wieds Vej 14, DK-8000 Aarhus C, Denmark
| |
Collapse
|
46
|
Lee JJ, Kang JA, Ryu Y, Han SS, Nam YR, Rho JK, Choi DS, Kang SW, Lee DE, Kim HS. Genetically engineered and self-assembled oncolytic protein nanoparticles for targeted cancer therapy. Biomaterials 2016; 120:22-31. [PMID: 28024232 DOI: 10.1016/j.biomaterials.2016.12.014] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2016] [Revised: 12/14/2016] [Accepted: 12/18/2016] [Indexed: 12/31/2022]
Abstract
The integration of a targeted delivery with a tumour-selective agent has been considered an ideal platform for achieving high therapeutic efficacy and negligible side effects in cancer therapy. Here, we present engineered protein nanoparticles comprising a tumour-selective oncolytic protein and a targeting moiety as a new format for the targeted cancer therapy. Apoptin from chicken anaemia virus (CAV) was used as a tumour-selective apoptotic protein. An EGFR-specific repebody, which is composed of LRR (Leucine-rich repeat) modules, was employed to play a dual role as a tumour-targeting moiety and a fusion partner for producing apoptin nanoparticles in E. coli, respectively. The repebody was genetically fused to apoptin, and the resulting fusion protein was shown to self-assemble into supramolecular repebody-apoptin nanoparticles with high homogeneity and stability as a soluble form when expressed in E. coli. The repebody-apoptin nanoparticles showed a remarkable anti-tumour activity with negligible side effects in xenograft mice through a cooperative action of the two protein components with distinct functional roles. The repebody-apoptin nanoparticles can be developed as a systemic injectable and tumour-selective therapeutic protein for targeted cancer treatment.
Collapse
Affiliation(s)
- Joong-Jae Lee
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, South Korea
| | - Jung Ae Kang
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup, Jeonbuk 580-185, South Korea
| | - Yiseul Ryu
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, South Korea
| | - Sang-Soo Han
- Predictive Model Research Center, Korea Institute of Toxicology (KIT), Daejeon 34114, South Korea
| | - You Ree Nam
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup, Jeonbuk 580-185, South Korea
| | - Jong Kook Rho
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup, Jeonbuk 580-185, South Korea
| | - Dae Seong Choi
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup, Jeonbuk 580-185, South Korea
| | - Sun-Woong Kang
- Predictive Model Research Center, Korea Institute of Toxicology (KIT), Daejeon 34114, South Korea; Department of Human and Environmental Toxicology, University of Science and Technology (UST), Daejeon 34113, South Korea
| | - Dong-Eun Lee
- Advanced Radiation Technology Institute, Korea Atomic Energy Research Institute (KAERI), Jeongeup, Jeonbuk 580-185, South Korea.
| | - Hak-Sung Kim
- Department of Biological Sciences, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, South Korea.
| |
Collapse
|
47
|
Misra PK, Meher J, Maharana S. Investigation on the gelatin-surfactant interaction and physiochemical characteristics of the mixture. J Mol Liq 2016. [DOI: 10.1016/j.molliq.2016.10.043] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
|
48
|
Jafari M, Mehrnejad F. Molecular Insight into Human Lysozyme and Its Ability to Form Amyloid Fibrils in High Concentrations of Sodium Dodecyl Sulfate: A View from Molecular Dynamics Simulations. PLoS One 2016; 11:e0165213. [PMID: 27768744 PMCID: PMC5074503 DOI: 10.1371/journal.pone.0165213] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2016] [Accepted: 10/07/2016] [Indexed: 11/18/2022] Open
Abstract
Changes in the tertiary structure of proteins and the resultant fibrillary aggregation could result in fatal heredity diseases, such as lysozyme systemic amyloidosis. Human lysozyme is a globular protein with antimicrobial properties with tendencies to fibrillate and hence is known as a fibril-forming protein. Therefore, its behavior under different ambient conditions is of great importance. In this study, we conducted two 500000 ps molecular dynamics (MD) simulations of human lysozyme in sodium dodecyl sulfate (SDS) at two ambient temperatures. To achieve comparative results, we also performed two 500000 ps human lysozyme MD simulations in pure water as controls. The aim of this study was to provide further molecular insight into all interactions in the lysozyme-SDS complexes and to provide a perspective on the ability of human lysozyme to form amyloid fibrils in the presence of SDS surfactant molecules. SDS, which is an anionic detergent, contains a hydrophobic tail with 12 carbon atoms and a negatively charged head group. The SDS surfactant is known to be a stabilizer for helical structures above the critical micelle concentration (CMC) [1]. During the 500000 ps MD simulations, the helical structures were maintained by the SDS surfactant above its CMC at 300 K, while at 370 K, human lysozyme lost most of its helices and gained β-sheets. Therefore, we suggest that future studies investigate the β-amyloid formation of human lysozyme at SDS concentrations above the CMC and at high temperatures.
Collapse
Affiliation(s)
- Majid Jafari
- Department of Life Sciences Engineering, Faculty of New Sciences & Technologies, University of Tehran, Tehran, Iran
| | - Faramarz Mehrnejad
- Department of Life Sciences Engineering, Faculty of New Sciences & Technologies, University of Tehran, Tehran, Iran
- * E-mail:
| |
Collapse
|
49
|
Henke K, Welte W, Hauser K. Direct Monitoring of β-Sheet Formation in the Outer Membrane Protein TtoA Assisted by TtOmp85. Biochemistry 2016; 55:4333-43. [PMID: 27400268 DOI: 10.1021/acs.biochem.6b00691] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Attenuated total reflection Fourier-transform infrared (ATR-FTIR) spectroscopy was applied to investigate the folding of an outer membrane protein, TtoA, assisted by TtOmp85, both from the thermophilic eubacterium Thermus thermophilus. To directly monitor the formation of β-sheet structure in TtoA and to analyze the function of TtOmp85, we immobilized unfolded TtoA on an ATR crystal. Interaction with TtOmp85 initiated TtoA folding as shown by time-dependent spectra recorded during the folding process. Our ATR-FTIR experiments prove that TtOmp85 possesses specific functionality to assist β-sheet formation of TtoA. We demonstrate the potential of this spectroscopic approach to study the interaction of outer membrane proteins in vitro and in a time-resolved manner.
Collapse
Affiliation(s)
- Katharina Henke
- Department of Chemistry, ‡Department of Biology, and §Konstanz Research School Chemical Biology, University of Konstanz , 78457 Konstanz, Germany
| | - Wolfram Welte
- Department of Chemistry, ‡Department of Biology, and §Konstanz Research School Chemical Biology, University of Konstanz , 78457 Konstanz, Germany
| | - Karin Hauser
- Department of Chemistry, ‡Department of Biology, and §Konstanz Research School Chemical Biology, University of Konstanz , 78457 Konstanz, Germany
| |
Collapse
|
50
|
Schneider D, Schneider T, Aschenbrenner J, Mortensen F, Scheffner M, Marx A. Anionic surfactants enhance click reaction-mediated protein conjugation with ubiquitin. Bioorg Med Chem 2016; 24:995-1001. [DOI: 10.1016/j.bmc.2016.01.027] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2015] [Revised: 01/13/2016] [Accepted: 01/14/2016] [Indexed: 10/22/2022]
|