1
|
Retnoningrum DS, Yoshida H, Pajatiwi I, Muliadi R, Utami RA, Artarini A, Ismaya WT. Introducing Intermolecular Interaction to Strengthen the Stability of MnSOD Dimer. Appl Biochem Biotechnol 2023:10.1007/s12010-023-04347-7. [PMID: 36701098 DOI: 10.1007/s12010-023-04347-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/10/2023] [Indexed: 01/27/2023]
Abstract
Manganese superoxide dismutase from Staphylococcus equorum (MnSODSeq) maintains its activity upon treatments like a wide range of pH, addition of detergent and denaturing agent, exposure to ultraviolet light, and heating up to 50 °C. The enzyme dimer dissociates at 52-55 °C, while its monomer unfolds at 63-67 °C. MnSOD dimeric form is indispensable for the enzyme activity; therefore, strengthening the interactions between the monomers is the most preferred strategy to improve the enzyme stability. However, to date, modification of MnSODSeq at the dimer interface has been unfruitful despite excluding the inner and outer sphere regions that are important to the enzyme activity. Here, a new strategy was developed and K38R-A121E/Y double substitutions were proposed. These mutants displayed similar enzyme activity to the wild type. K38R-A121E dimer was thermally more stable and its monomer stability was similar to the wild type. The thermal stability of K38R-A121Y dimer was similar to the wild type but its monomer was thermally less stable. In addition, the structure of the previously reported L169W mutant was also elucidated. The L169W mutant structure showed that intramolecular modification can decrease flexibility of the MnSODSeq monomer and leads to a less stable enzyme with similar activity to the wild type. Thus, while the enzyme activity depends on arrangement of residues in the dimer interface, the stability appears to depend more on its monomeric architecture. Furthermore, in the L169W structure in complex with azide, which is a specific inhibitor for MnSOD, one of the azide molecules was present in the dimer interface region that previously has been identified to involve in the enzymatic reaction. Nevertheless, the present results show that an MnSODSeq mutant with better thermal stability has been obtained.
Collapse
Affiliation(s)
- Debbie S Retnoningrum
- Laboratory of Pharmaceutical Biotechnology, Pharmaceutics Research Group, School of Pharmacy, Institut Teknologi Bandung, Ganesha 10, Bandung, 40132, West Java, Indonesia
| | - Hiromi Yoshida
- Department of Basic Life Science, Faculty of Medicine, Kagawa University, 1750-1 Ikenobe, Miki-Cho, Kita-Gun, Kagawa, 761-0793, Japan
| | - Ismiana Pajatiwi
- Laboratory of Pharmaceutical Biotechnology, Pharmaceutics Research Group, School of Pharmacy, Institut Teknologi Bandung, Ganesha 10, Bandung, 40132, West Java, Indonesia
| | - Rahmat Muliadi
- Laboratory of Pharmaceutical Biotechnology, Pharmaceutics Research Group, School of Pharmacy, Institut Teknologi Bandung, Ganesha 10, Bandung, 40132, West Java, Indonesia
| | - Ratna A Utami
- Laboratory of Pharmaceutical Biotechnology, Pharmaceutics Research Group, School of Pharmacy, Institut Teknologi Bandung, Ganesha 10, Bandung, 40132, West Java, Indonesia
| | - Anita Artarini
- Laboratory of Pharmaceutical Biotechnology, Pharmaceutics Research Group, School of Pharmacy, Institut Teknologi Bandung, Ganesha 10, Bandung, 40132, West Java, Indonesia.
| | - Wangsa T Ismaya
- Dexa Laboratories of Biomolecular Sciences, Dexa Medica, Industri Selatan V Blok PP-7, Cikarang, 17750, West Java, Indonesia
| |
Collapse
|
2
|
Zhang Y, Schöneich C. Visible Light Induces Site-Specific Oxidative Heavy Chain Fragmentation of a Monoclonal Antibody (IgG1) Mediated by an Iron(III)-Containing Histidine Buffer. Mol Pharm 2023; 20:650-662. [PMID: 36538763 DOI: 10.1021/acs.molpharmaceut.2c00840] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Fragmentation of therapeutic monoclonal antibodies represents a critical quality attribute. Here, we report a novel visible light-induced heavy chain fragmentation of IgG1 mediated by an Fe(III)-containing histidine (His) buffer. Based on non-reducing sodium dodecylsulfate-polyacrylamide gel electrophoresis and mass spectrometry analysis, IgG1 fragments with apparent molecular weights of ∼130, ∼110, and ∼22 kDa were detected in photo-irradiated samples and were mechanistically rationalized with an oxidative cleavage at Thr259. Specifically, the reactions are proposed to involve the generation of an intermediary alkoxyl radical, which undergoes β-cleavage to yield a glycyl radical. The latter either converts into Gly or adds oxygen and follows a peroxyl radical chemistry. The cleavage process requires the presence of His, while only negligible yields of cleavage products are formed when His is replaced by acetate, succinate, or phosphate buffer. Importantly, the fragmentation can be prevented by ethylenediaminetetraacetic acid (EDTA) only when the EDTA concentrations are in significant excess over the concentrations of Fe(III) and proteins, suggesting a strong binding between Fe(III) and IgG1.
Collapse
Affiliation(s)
- Yilue Zhang
- Department of Pharmaceutical Chemistry, University of Kansas, 2093 Constant Avenue, Lawrence, Kansas66047, United States
| | - Christian Schöneich
- Department of Pharmaceutical Chemistry, University of Kansas, 2093 Constant Avenue, Lawrence, Kansas66047, United States
| |
Collapse
|
3
|
Gill SP, Hunter WR, Coulson LE, Banat IM, Schelker J. Synthetic and biological surfactant effects on freshwater biofilm community composition and metabolic activity. Appl Microbiol Biotechnol 2022; 106:6847-6859. [PMID: 36121483 PMCID: PMC9529700 DOI: 10.1007/s00253-022-12179-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 09/02/2022] [Accepted: 09/08/2022] [Indexed: 11/06/2022]
Abstract
Abstract
Surfactants are used to control microbial biofilms in industrial and medical settings. Their known toxicity on aquatic biota, and their longevity in the environment, has encouraged research on biodegradable alternatives such as rhamnolipids. While previous research has investigated the effects of biological surfactants on single species biofilms, there remains a lack of information regarding the effects of synthetic and biological surfactants in freshwater ecosystems. We conducted a mesocosm experiment to test how the surfactant sodium dodecyl sulfate (SDS) and the biological surfactant rhamnolipid altered community composition and metabolic activity of freshwater biofilms. Biofilms were cultured in the flumes using lake water from Lake Lunz in Austria, under high (300 ppm) and low (150 ppm) concentrations of either surfactant over a four-week period. Our results show that both surfactants significantly affected microbial diversity. Up to 36% of microbial operational taxonomic units were lost after surfactant exposure. Rhamnolipid exposure also increased the production of the extracellular enzymes, leucine aminopeptidase, and glucosidase, while SDS exposure reduced leucine aminopeptidase and glucosidase. This study demonstrates that exposure of freshwater biofilms to chemical and biological surfactants caused a reduction of microbial diversity and changes in biofilm metabolism, exemplified by shifts in extracellular enzyme activities. Key points • Microbial biofilm diversity decreased significantly after surfactant exposure. • Exposure to either surfactant altered extracellular enzyme activity. • Overall metabolic activity was not altered, suggesting functional redundancy.
Collapse
Affiliation(s)
- Stephanie P Gill
- Department of Geography and Environmental Studies, Ulster University, Coleraine, BT52 1SA, N. Ireland, UK.
| | - William R Hunter
- Fisheries and Aquatic Ecosystems Branch, Agri-Food and Biosciences Institute, Belfast, N. Ireland, UK
| | - Laura E Coulson
- WasserCluster Lunz, Lunz am See, Austria.,Institute of Hydrobiology and Aquatic Ecosystem Management, University of Natural Resources and Life Sciences, Vienna, Austria
| | - Ibrahim M Banat
- School of Biomedical Sciences, Ulster University, Coleraine, N. Ireland, UK
| | - Jakob Schelker
- WasserCluster Lunz, Lunz am See, Austria.,Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria
| |
Collapse
|
4
|
Shen H, Shi H, Yang Y, Song J, Ding C, Yu S. Highly Efficient Synergistic Biocatalysis Driven by Stably Loaded Enzymes within Hierarchically Porous Iron/Cobalt Metal-Organic Framework via Biomimetic Mineralization. J Mater Chem B 2022; 10:1553-1560. [DOI: 10.1039/d1tb02596a] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The integration of multimodal chemo-/bio-catalysis for efficient cascade reactions has long provided broad prospects in the field of biotechnology for ages. In this work, we describe the synthesis of a...
Collapse
|
5
|
Samarasinghe TN, Zeng Y, Johnson CK. Comparison of separation modes for microchip electrophoresis of proteins. J Sep Sci 2020; 44:744-751. [PMID: 33226183 DOI: 10.1002/jssc.202000883] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2020] [Revised: 11/16/2020] [Accepted: 11/17/2020] [Indexed: 12/12/2022]
Abstract
Separation of a set of model proteins was tested on a microchip electrophoresis analytical platform capable of sample injection by two different electrokinetic mechanisms. A range of separation modes-microchip capillary zone electrophoresis, microchip micellar electrokinetic chromatography, and nanoparticle-based sieving-was tested on glass and polydimethylsiloxane/glass microchips and with silica-nanoparticle colloidal arrays. The model proteins calmodulin (18 kiloDalton), bovine serum albumin (66 kDa), and concanavalin (106 kDa) were labeled with Alexa Fluor 647 for laser-induced fluorescence detection. The best separation and resolution were obtained in a silica-nanoparticle colloidal array chip.
Collapse
Affiliation(s)
| | - Yong Zeng
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| | - Carey K Johnson
- Department of Chemistry, University of Kansas, Lawrence, Kansas, USA
| |
Collapse
|
6
|
Molina P, Schick AJ, Welch L, Niedringhaus T, Hierro GD, Deperalta G, Hieb A. Using differential scanning calorimetry for the development of non-reduced capillary electrophoresis sodium dodecyl sulfate methods for monoclonal antibodies. Anal Biochem 2020; 609:113948. [DOI: 10.1016/j.ab.2020.113948] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Revised: 08/29/2020] [Accepted: 09/04/2020] [Indexed: 02/04/2023]
|
7
|
Khan ZA, Park S. An Electrochemical Chip to Monitor In Vitro Glycation of Proteins and Screening of Antiglycation Potential of Drugs. Pharmaceutics 2020; 12:E1011. [PMID: 33113943 PMCID: PMC7690698 DOI: 10.3390/pharmaceutics12111011] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Accepted: 10/20/2020] [Indexed: 11/16/2022] Open
Abstract
Hyperglycemia and the production of advanced glycation end products (AGEs) are the primary factors for the development of chronic complications in diabetes. The level of protein glycation is proportional to the glucose concentration and represents mean glycemia. In this study, we present an electrochemical chip-based method for in vitro glycation monitoring and the efficacy evaluation of an antiglycation compound. An electrochemical chip consisting of five microchambers and embedded microelectrodes was designed for parallel measurements of capacitance signals from multiple solutions at different concentrations. The feasibility of glycation monitoring was then investigated by measuring the capacitance signal at 0.13 MHz with bovine serum albumin and gelatin samples in the presence of various glucose concentrations over 28 days. A significant change in the capacitance due to protein glycation was observed through measurements conducted within 30 s and 21 days of incubation. Finally, we demonstrated that the chip-based capacitance measurement can be utilized for the selection of an antiglycation compound by supplementing the protein solution and hyperglycemic concentration of glucose with an inhibitory concentration of the standard antiglycation agent aspirin. The lack of a significant change in the capacitance over 28 days proved that aspirin is capable of inhibiting protein glycation. Thus, a strong relationship exists between glycation and capacitance, suggesting the application of an electrochemical chip for evaluating glycation and novel antiglycation agents.
Collapse
Affiliation(s)
| | - Seungkyung Park
- School of Mechanical Engineering, Korea University of Technology and Education, Cheonan, Chunggnam 31253, Korea;
| |
Collapse
|
8
|
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
|
9
|
Enhancement of covalent aggregate quantification of protein therapeutics by non-reducing capillary gel electrophoresis using sodium hexadecyl sulfate (CE-SHS). J Chromatogr B Analyt Technol Biomed Life Sci 2020; 1152:122230. [DOI: 10.1016/j.jchromb.2020.122230] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2019] [Revised: 04/30/2020] [Accepted: 06/08/2020] [Indexed: 12/27/2022]
|
10
|
Lee JY, Selfridge KM, Kohn EM, Vaden TD, Caputo GA. Effects of Ionic Liquid Alkyl Chain Length on Denaturation of Myoglobin by Anionic, Cationic, and Zwitterionic Detergents. Biomolecules 2019; 9:biom9070264. [PMID: 31288435 PMCID: PMC6681400 DOI: 10.3390/biom9070264] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2019] [Revised: 06/30/2019] [Accepted: 07/01/2019] [Indexed: 12/19/2022] Open
Abstract
The unique electrochemical properties of ionic liquids (ILs) have motivated their use as solvents for organic synthesis and green energy applications. More recently, their potential in pharmaceutical chemistry has prompted investigation into their effects on biomolecules. There is evidence that some ILs can destabilize proteins via a detergent-like manner; however, the mechanism still remains unknown. Our hypothesis is that if ILs are denaturing proteins via a detergent-like mechanism, detergent-mediated protein unfolding should be enhanced in the presence of ILs. The properties of myoglobin was examined in the presence of a zwitterionic (N,N-dimethyl-N-dodecylglycine betaine (Empigen BB®, EBB)), cationic (tetradecyltrimethylammonium bromide (TTAB)), and anionic (sodium dodecyl sulfate (SDS)) detergent as well as ILs based on alkylated imidazolium chlorides. Protein structure was measured through a combination of absorbance, fluorescence, and circular dichroism (CD) spectroscopy: absorbance and CD were used to monitor heme complexation to myoglobin, and tryptophan fluorescence quenching was used as an indicator for heme dissociation. Notably, the detergents tested did not fully denature the protein but instead resulted in loss of the heme group. At low IL concentrations, heme dissociation remained a traditional, cooperative process; at high concentrations, ILs with increased detergent-like character exhibited a more complex pattern, which is most likely attributable to micellization of the ionic liquids or direct denaturation or heme dissociation induced by the ILs. These trends were consistent across all species of detergents. 1,6-diphenyl-1,3,5-hexatriene (DPH) fluorescence was further used to characterize micelle formation in aqueous solutions containing detergent and ionic liquid. The dissociation thermodynamics show that EBB- and TTAB-induced dissociation of heme is not significantly impacted by room temperature ionic liquids (RTILs), whereas SDS-induced dissociation is more dramatically impacted by all RTILs examined. Together, these results indicate a complex interaction of detergents, likely based on headgroup charge, and the active component of RTILs to influence heme dissociation and potentially protein denaturation.
Collapse
Affiliation(s)
- Joshua Y Lee
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA
- Bantivoglio Honors College, Rowan University, Glassboro, NJ 08028, USA
| | - Katherine M Selfridge
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA
| | - Eric M Kohn
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA
- Bantivoglio Honors College, Rowan University, Glassboro, NJ 08028, USA
| | - Timothy D Vaden
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA
| | - Gregory A Caputo
- Department of Chemistry and Biochemistry, Rowan University, Glassboro, NJ 08028, USA.
- Department of Molecular and Cellular Biosciences, Rowan University, Glassboro, NJ 08028 USA.
| |
Collapse
|
11
|
Chen G, Huang S, Kou X, Wei S, Huang S, Jiang S, Shen J, Zhu F, Ouyang G. A Convenient and Versatile Amino‐Acid‐Boosted Biomimetic Strategy for the Nondestructive Encapsulation of Biomacromolecules within Metal–Organic Frameworks. Angew Chem Int Ed Engl 2019; 58:1463-1467. [DOI: 10.1002/anie.201813060] [Citation(s) in RCA: 148] [Impact Index Per Article: 29.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2018] [Revised: 12/06/2018] [Indexed: 01/08/2023]
Affiliation(s)
- Guosheng Chen
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| | - Siming Huang
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
- Department of Radiology, Sun Yat-sen Memorial HospitalSun Yat-sen University Guangzhou 510120 Guangdong China
| | - Xiaoxue Kou
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| | - Songbo Wei
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| | - Shuyao Huang
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| | - Shuqi Jiang
- Department of Radiology, Sun Yat-sen Memorial HospitalSun Yat-sen University Guangzhou 510120 Guangdong China
| | - Jun Shen
- Department of Radiology, Sun Yat-sen Memorial HospitalSun Yat-sen University Guangzhou 510120 Guangdong China
| | - Fang Zhu
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| | - Gangfeng Ouyang
- MOE Key Laboratory of Bioinorganic and Synthetic ChemistrySchool of ChemistrySun Yat-sen University Guangzhou 510275 China
| |
Collapse
|
12
|
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
|
13
|
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]
|
14
|
Parkinson E, Aleksic M, Cubberley R, Kaur-Atwal G, Vissers JPC, Skipp P. Determination of Protein Haptenation by Chemical Sensitizers Within the Complexity of the Human Skin Proteome. Toxicol Sci 2018; 162:429-438. [PMID: 29267982 PMCID: PMC5889026 DOI: 10.1093/toxsci/kfx265] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Skin sensitization associated with the development of allergic contact dermatitis occurs via a number of specific key events at the cellular level. The molecular initiating event (MIE), the first in the sequence of these events, occurs after exposure of the skin to an electrophilic chemical, causing the irreversible haptenation of proteins within skin. Characterization of this MIE is a key step in elucidating the skin sensitization adverse outcome pathway and is essential to providing parameters for mathematical models to predict the capacity of a chemical to cause sensitization. As a first step to addressing this challenge, we have exposed complex protein lysates from a keratinocyte cell line and human skin tissue with a range of well characterized sensitizers, including dinitrochlorobenzene, 5-chloro-2-methylisothiazol-3-one, cinnamaldehyde, and the non (or weak) sensitizer 6-methyl coumarin. Using a novel stable isotope labeling approach combined with ion mobility-assisted data independent mass spectrometry (HDMSE), we have characterized the haptenome for these sensitizers. Although a significant proportion of highly abundant proteins were haptenated, we also observed the haptenation of low abundant proteins by all 3 of the chemical sensitizers tested, indicating that within a complex protein background, protein abundance is not the sole determinant driving haptenation, highlighting a relationship to tertiary protein structure and the amino acid specificity of these chemical sensitizers and sensitizer potency.
Collapse
Affiliation(s)
- Erika Parkinson
- Centre for Biological Sciences
- Centre for Proteomic Research, Institute for Life Sciences, University of Southampton, Southampton SO17 1BJ, UK
| | - Maja Aleksic
- Safety & Environmental Assurance Centre, Unilever, Colworth Science Park, Sharnbrook MK44 1LQ, UK
| | - Richard Cubberley
- Safety & Environmental Assurance Centre, Unilever, Colworth Science Park, Sharnbrook MK44 1LQ, UK
| | | | | | - Paul Skipp
- Centre for Biological Sciences
- Centre for Proteomic Research, Institute for Life Sciences, University of Southampton, Southampton SO17 1BJ, UK
| |
Collapse
|
15
|
Rahimi F. Aptamers Selected for Recognizing Amyloid β-Protein-A Case for Cautious Optimism. Int J Mol Sci 2018; 19:ijms19030668. [PMID: 29495486 PMCID: PMC5877529 DOI: 10.3390/ijms19030668] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2018] [Revised: 02/18/2018] [Accepted: 02/22/2018] [Indexed: 02/07/2023] Open
Abstract
Aptamers are versatile oligonucleotide ligands used for molecular recognition of diverse targets. However, application of aptamers to the field of amyloid β-protein (Aβ) has been limited so far. Aβ is an intrinsically disordered protein that exists in a dynamic conformational equilibrium, presenting time-dependent ensembles of short-lived, metastable structures and assemblies that have been generally difficult to isolate and characterize. Moreover, despite understanding of potential physiological roles of Aβ, this peptide has been linked to the pathogenesis of Alzheimer disease, and its pathogenic roles remain controversial. Accumulated scientific evidence thus far highlights undesirable or nonspecific interactions between selected aptamers and different Aβ assemblies likely due to the metastable nature of Aβ or inherent affinity of RNA oligonucleotides to β-sheet-rich fibrillar structures of amyloidogenic proteins. Accordingly, lessons drawn from Aβ–aptamer studies emphasize that purity and uniformity of the protein target and rigorous characterization of aptamers’ specificity are important for realizing and garnering the full potential of aptamers selected for recognizing Aβ or other intrinsically disordered proteins. This review summarizes studies of aptamers selected for recognizing different Aβ assemblies and highlights controversies, difficulties, and limitations of such studies.
Collapse
Affiliation(s)
- Farid Rahimi
- Division of Biomedical Science and Biochemistry, Research School of Biology, The Australian National University, Canberra, ACT 2601, Australia.
| |
Collapse
|
16
|
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
|
17
|
Wang Y, Yu W, Han F. Expression and characterization of a cold-adapted, thermotolerant and denaturant-stable GH5 endoglucanase Celal_2753 that withstands boiling from the psychrophilic bacterium Cellulophaga algicola IC166(T). Biotechnol Lett 2015; 38:285-90. [PMID: 26463370 DOI: 10.1007/s10529-015-1971-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2015] [Accepted: 09/30/2015] [Indexed: 10/23/2022]
Abstract
OBJECTIVES To characterize a novel endoglucanase, Celal_2753, from the psychrophilic bacterium Cellulophaga algicola IC166(T). RESULTS Celal_2753 was purified to homogeneity with a yield of 81 % and with a molecular weight of 40 kDa on SDS-PAGE. It had maximum hydrolytic activity towards carboxymethyl cellulose at 40 °C and pH 6. It showed 33 % of the maximum activity at 10 ºC. Its activity increased to 272-316 % in the presence of 0.25-2 M NaCl and KCl at 40 °C. Celal_2753 was stable in the presence of 10 % (v/v) Tween 20, 10 % (v/v) Triton X-100, 16 mM SDS, 6 M urea or 2 M guanidine hydrochloride. Celal_2753 that had been boiled for 5 min recovered 55 % of its initial activity by incubating at 30 °C for 60 min. CONCLUSION Because of its cold-adapted, thermotolerant and denaturant-stable properties, endoglucanase Celal_2753 is promising in detergent industry and bioethanol production.
Collapse
Affiliation(s)
- Ying Wang
- Key Laboratory of Marine Drugs, Chinese Ministry of Education, 5 Yushan Road, Qingdao, 266003, China.,Shandong Provincial Key Laboratory of Glycoscience & Glycotechnology, 5 Yushan Road, Qingdao, 266003, China.,School of Medicine and Pharmacy, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
| | - Wengong Yu
- Key Laboratory of Marine Drugs, Chinese Ministry of Education, 5 Yushan Road, Qingdao, 266003, China.,Shandong Provincial Key Laboratory of Glycoscience & Glycotechnology, 5 Yushan Road, Qingdao, 266003, China.,School of Medicine and Pharmacy, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China
| | - Feng Han
- Key Laboratory of Marine Drugs, Chinese Ministry of Education, 5 Yushan Road, Qingdao, 266003, China. .,Shandong Provincial Key Laboratory of Glycoscience & Glycotechnology, 5 Yushan Road, Qingdao, 266003, China. .,School of Medicine and Pharmacy, Ocean University of China, 5 Yushan Road, Qingdao, 266003, China.
| |
Collapse
|
18
|
Anderton GI, Bangerter AS, Davis TC, Feng Z, Furtak AJ, Larsen JO, Scroggin TL, Heemstra JM. Accelerating Strain-Promoted Azide-Alkyne Cycloaddition Using Micellar Catalysis. Bioconjug Chem 2015; 26:1687-91. [PMID: 26056848 DOI: 10.1021/acs.bioconjchem.5b00274] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Bioorthogonal conjugation reactions such as strain-promoted azide-alkyne cycloaddition (SPAAC) have become increasingly popular in recent years, as they enable site-specific labeling of complex biomolecules. However, despite a number of improvements to cyclooctyne design, reaction rates for SPAAC remain significantly lower than those of the related copper-catalyzed azide-alkyne cycloaddition (CuAAC) reaction. Here we explore micellar catalysis as a means to increase reaction rate between a cyclooctyne and hydrophobic azide. We find that anionic and cationic surfactants provide the most efficient catalysis, with rate enhancements of up to 179-fold for reaction of benzyl azide with DIBAC cyclooctyne. Additionally, we find that the presence of surfactant can provide up to 51-fold selectivity for reaction with a hydrophobic over hydrophilic azide. A more modest, but still substantial, 11-fold rate enhancement is observed for micellar catalysis of the reaction between benzyl azide and a DIBAC-functionalized DNA sequence, demonstrating that micellar catalysis can be successfully applied to hydrophilic biomolecules. Together, these results demonstrate that micellar catalysis can provide higher conjugation yields in reduced time when using hydrophobic SPAAC reagents.
Collapse
Affiliation(s)
- Grant I Anderton
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Alyssa S Bangerter
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Tyson C Davis
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Zhiyuan Feng
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Aric J Furtak
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Jared O Larsen
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Triniti L Scroggin
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Jennifer M Heemstra
- Department of Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| |
Collapse
|
19
|
Liang K, Ricco R, Doherty CM, Styles MJ, Bell S, Kirby N, Mudie S, Haylock D, Hill AJ, Doonan CJ, Falcaro P. Biomimetic mineralization of metal-organic frameworks as protective coatings for biomacromolecules. Nat Commun 2015; 6:7240. [PMID: 26041070 PMCID: PMC4468859 DOI: 10.1038/ncomms8240] [Citation(s) in RCA: 827] [Impact Index Per Article: 91.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2015] [Accepted: 04/20/2015] [Indexed: 12/22/2022] Open
Abstract
Enhancing the robustness of functional biomacromolecules is a critical challenge in biotechnology, which if addressed would enhance their use in pharmaceuticals, chemical processing and biostorage. Here we report a novel method, inspired by natural biomineralization processes, which provides unprecedented protection of biomacromolecules by encapsulating them within a class of porous materials termed metal-organic frameworks. We show that proteins, enzymes and DNA rapidly induce the formation of protective metal-organic framework coatings under physiological conditions by concentrating the framework building blocks and facilitating crystallization around the biomacromolecules. The resulting biocomposite is stable under conditions that would normally decompose many biological macromolecules. For example, urease and horseradish peroxidase protected within a metal-organic framework shell are found to retain bioactivity after being treated at 80 °C and boiled in dimethylformamide (153 °C), respectively. This rapid, low-cost biomimetic mineralization process gives rise to new possibilities for the exploitation of biomacromolecules.
Collapse
Affiliation(s)
- Kang Liang
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| | - Raffaele Ricco
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| | - Cara M. Doherty
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| | - Mark J. Styles
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| | - Stephen Bell
- Department of Chemistry, The University of Adelaide, Adelaide, South Australia 5005, Australia
| | - Nigel Kirby
- Australian Synchrotron, 800 Blackburn Road, Clayton, Victoria 3169, Australia
| | - Stephen Mudie
- Australian Synchrotron, 800 Blackburn Road, Clayton, Victoria 3169, Australia
| | - David Haylock
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
- The Australian Regenerative Medicine Institute, Monash University, Wellington Road, Clayton, Victoria 3800, Australia
| | - Anita J. Hill
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| | - Christian J. Doonan
- Department of Chemistry, The University of Adelaide, Adelaide, South Australia 5005, Australia
| | - Paolo Falcaro
- CSIRO Manufacturing Flagship, Private Bag 10, Clayton South, Victoria 3169, Australia
| |
Collapse
|
20
|
Ng DYW, Wu Y, Kuan SL, Weil T. Programming supramolecular biohybrids as precision therapeutics. Acc Chem Res 2014; 47:3471-80. [PMID: 25357135 DOI: 10.1021/ar5002445] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
CONSPECTUS: Chemical programming of macromolecular structures to instill a set of defined chemical properties designed to behave in a sequential and precise manner is a characteristic vision for creating next generation nanomaterials. In this context, biopolymers such as proteins and nucleic acids provide an attractive platform for the integration of complex chemical design due to their sequence specificity and geometric definition, which allows accurate translation of chemical functionalities to biological activity. Coupled with the advent of amino acid specific modification techniques, "programmable" areas of a protein chain become exclusively available for any synthetic customization. We envision that chemically reprogrammed hybrid proteins will bridge the vital link to overcome the limitations of synthetic and biological materials, providing a unique strategy for tailoring precision therapeutics. In this Account, we present our work toward the chemical design of protein- derived hybrid polymers and their supramolecular responsiveness, while summarizing their impact and the advancement in biomedicine. Proteins, in their native form, represent the central framework of all biological processes and are an unrivaled class of macromolecular drugs with immense specificity. Nonetheless, the route of administration of protein therapeutics is often vastly different from Nature's biosynthesis. Therefore, it is imperative to chemically reprogram these biopolymers to direct their entry and activity toward the designated target. As a consequence of the innate structural regularity of proteins, we show that supramolecular interactions facilitated by stimulus responsive chemistry can be intricately designed as a powerful tool to customize their functions, stability, activity profiles, and transportation capabilities. From another perspective, a protein in its denatured, unfolded form serves as a monodispersed, biodegradable polymer scaffold decorated with functional side chains available for grafting with molecules of interest. Additionally, we are equipped with analytical tools to map the fingerprint of the protein chain, directly elucidating the structure at the molecular level. Contrary to conventional polymers, these biopolymers facilitate a more systematic avenue to investigate engineered macromolecules, with greater detail and accuracy. In this regard, we focus on denaturing serum albumin, an abundant blood protein, and exploit its peptidic array of functionalities to program supramolecular architectures for bioimaging, drug and gene delivery. Ultimately, we seek to assimilate the evolutionary advantage of these protein based biopolymers with the limitless versatility of synthetic chemistry to merge the best of both worlds.
Collapse
Affiliation(s)
- David Yuen Wah Ng
- Institute of Organic Chemistry
III, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Yuzhou Wu
- Institute of Organic Chemistry
III, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Seah Ling Kuan
- Institute of Organic Chemistry
III, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| | - Tanja Weil
- Institute of Organic Chemistry
III, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany
| |
Collapse
|
21
|
Biver S, Stroobants A, Portetelle D, Vandenbol M. Two promising alkaline β-glucosidases isolated by functional metagenomics from agricultural soil, including one showing high tolerance towards harsh detergents, oxidants and glucose. ACTA ACUST UNITED AC 2014; 41:479-88. [DOI: 10.1007/s10295-014-1400-0] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2013] [Accepted: 01/01/2014] [Indexed: 01/07/2023]
Abstract
Abstract
New β-glucosidase activities were identified by screening metagenomic libraries constructed with DNA isolated from the topsoil of a winter wheat field. Two of the corresponding proteins, displaying an unusual preference for alkaline conditions, were selected for purification by Ni-NTA chromatography. AS-Esc6, a 762-amino-acid enzyme belonging to glycoside hydrolase family 3, proved to be a mesophilic aryl-β-glucosidase with maximal activity around pH 8 and 40 °C. A similar pH optimum was found for AS-Esc10, a 475-amino-acid GH1-family enzyme, but this enzyme remained significantly active across a wider pH range and was also markedly more stable than AS-Esc6 at pH greater than 10. AS-Esc10 was found to degrade cellobiose and diverse aryl glycosides, with an optimal temperature of 60 °C and good stability up to 50 °C. Unlike AS-Esc6, which showed a classically low inhibitory constant for glucose (14 mM), AS-Esc10 showed enhanced activity in the presence of molar concentrations of glucose. AS-Esc10 was highly tolerant to hydrogen peroxide and also to sodium dodecyl sulfate, this being indicative of kinetic stability. This unique combination of properties makes AS-Esc10 a particularly promising candidate whose potential in biotechnological applications is worth exploring further.
Collapse
Affiliation(s)
- Sophie Biver
- grid.4861.b 0000000108057253 Microbiology and Genomics Unit, Gembloux Agro-Bio Tech University of Liège Avenue Maréchal Juin 6 5030 Gembloux Belgium
| | - Aurore Stroobants
- grid.4861.b 0000000108057253 Microbiology and Genomics Unit, Gembloux Agro-Bio Tech University of Liège Avenue Maréchal Juin 6 5030 Gembloux Belgium
| | - Daniel Portetelle
- grid.4861.b 0000000108057253 Microbiology and Genomics Unit, Gembloux Agro-Bio Tech University of Liège Avenue Maréchal Juin 6 5030 Gembloux Belgium
| | - Micheline Vandenbol
- grid.4861.b 0000000108057253 Microbiology and Genomics Unit, Gembloux Agro-Bio Tech University of Liège Avenue Maréchal Juin 6 5030 Gembloux Belgium
| |
Collapse
|
22
|
Azadi G, Chauhan A, Tripathi A. Dilution of protein-surfactant complexes: a fluorescence study. Protein Sci 2013; 22:1258-65. [PMID: 23868358 DOI: 10.1002/pro.2313] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2013] [Revised: 06/25/2013] [Accepted: 07/08/2013] [Indexed: 11/11/2022]
Abstract
Dilution of protein-surfactant complexes is an integrated step in microfluidic protein sizing, where the contribution of free micelles to the overall fluorescence is reduced by dilution. This process can be further improved by establishing an optimum surfactant concentration and quantifying the amount of protein based on the fluorescence intensity. To this end, we study the interaction of proteins with anionic sodium dodecyl sulfate (SDS) and cationic hexadecyl trimethyl ammonium bromide (CTAB) using a hydrophobic fluorescent dye (sypro orange). We analyze these interactions fluourometrically with bovine serum albumin, carbonic anhydrase, and beta-galactosidase as model proteins. The fluorescent signature of protein-surfactant complexes at various dilution points shows three distinct regions, surfactant dominant, breakdown, and protein dominant region. Based on the dilution behavior of protein-surfactant complexes, we propose a fluorescence model to explain the contribution of free and bound micelles to the overall fluorescence. Our results show that protein peak is observed at 3 mM SDS as the optimum dilution concentration. Furthermore, we study the effect of protein concentration on fluorescence intensity. In a single protein model with a constant dye quantum yield, the peak height increases with protein concentration. Finally, addition of CTAB to the protein-SDS complex at mole fractions above 0.1 shifts the protein peak from 3 mM to 4 mM SDS. The knowledge of protein-surfactant interactions obtained from these studies provides significant insights for novel detection and quantification techniques in microfluidics.
Collapse
Affiliation(s)
- Glareh Azadi
- Center for Biomedical Engineering, School of Engineering, Brown University, Providence, Rhode Island, 02912
| | | | | |
Collapse
|
23
|
Roussel G, Tinti E, Perpète E, Michaux C. Refolding of SDS-denatured proteins using amphipathic cosolvents and osmolytes. ACTA ACUST UNITED AC 2013; Chapter 28:Unit28.5. [PMID: 23546624 DOI: 10.1002/0471140864.ps2805s72] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Currently, the investigation of protein refolding processes involves several time-consuming stages that require large amounts of protein and costly chemicals. Consequently, there is great interest in developing new approaches to the study of protein renaturation that are more technically and economically feasible. It has recently been reported that certain cosolvents are able to modulate the denaturing properties of sodium dodecyl sulfate (SDS) and induce the refolding of proteins. This unit presents a protocol to study and follow the renaturation of a protein (membrane or soluble) starting from a native or SDS-unfolded state using a variety of candidate cosolvents and osmolytes.
Collapse
Affiliation(s)
- Guillaume Roussel
- Department of Chemistry, Unité de Chimie Physique Théorique et Structurale, University of Namur, Namur, Belgium
| | | | | | | |
Collapse
|
24
|
Tian Q, Song P, Jiang L, Li S, Huang H. A novel cephalosporin deacetylating acetyl xylan esterase from Bacillus subtilis with high activity toward cephalosporin C and 7-aminocephalosporanic acid. Appl Microbiol Biotechnol 2013; 98:2081-9. [DOI: 10.1007/s00253-013-5056-x] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2013] [Revised: 06/12/2013] [Accepted: 06/13/2013] [Indexed: 10/26/2022]
|
25
|
de Kort BJ, de Jong GJ, Somsen GW. Potential of capillary electrophoresis with wavelength-resolved fluorescence detection for protein unfolding studies using β-lactoglobulin B as a test compound. Analyst 2013; 138:4550-7. [DOI: 10.1039/c3an00357d] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
|
26
|
Influence of co-monomer ratio on the chemical properties and cytotoxicity of poly[acrylonitrile-co-(N-vinylpyrrolidone)] nanoparticles. J Appl Biomater Funct Mater 2012; 10:308-14. [PMID: 23258562 DOI: 10.5301/jabfm.2012.10430] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/04/2012] [Indexed: 11/20/2022] Open
Abstract
PURPOSE A system of nanoparticles with varying hydrophilicities may include promising biomaterial candidates as they offer various cellular uptake properties and a range of drug encapsulation efficacies, which would be advantageous in regenerative therapies. Therefore, a model system of nanoparticles with varying hydrophilicities was synthesized and assessed for its candidacy as a biomaterial. METHODS Here, acrylonitrile (AN) was copolymerized with N-vinylpyrrolidone (NVP) in a mini-emulsion to form a family of nanoparticles, thereby enabling the systematic variation of the copolymer hydrophilicity. The nanoparticles based on these copolymers were prepared and characterized using 1H-NMR, dynamic light scattering, differential scanning calorimetry, and thermal gravimetric analysis. Finally, the cytotoxicity of the nanoparticles was assessed by conducting indirect tests using L929 fibroblasts. RESULTS The nanoparticles showed well controlled NVP/AN molar ratios as determined by 1H NMR, well defined diameters ranging from approximately 100 nm to 200 nm, and increasing glass transition temperatures with increasing molar NVP content. Finally, L929 fibroblasts only slightly changed their morphology upon incubation with material eluates. CONCLUSIONS Poly[acrylonitrile-co-(N-vinylpyrrolidone)] nanoparticles with varying amounts of NVP were shown to be a promising model system for further biological assessment.
Collapse
|
27
|
The effect of anionic surfactant on poliovirus particles during capillary electrophoresis. J Pharm Biomed Anal 2012; 71:79-88. [DOI: 10.1016/j.jpba.2012.07.033] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2012] [Revised: 07/26/2012] [Accepted: 07/30/2012] [Indexed: 11/21/2022]
|
28
|
Shaw BF, Schneider GF, Whitesides GM. Effect of surfactant hydrophobicity on the pathway for unfolding of ubiquitin. J Am Chem Soc 2012; 134:18739-45. [PMID: 23095057 DOI: 10.1021/ja3079863] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
This paper describes the interaction between ubiquitin (UBI) and three sodium n-alkyl sulfates (SC(n)S) that have the same charge (Z = -1) but different hydrophobicity (n = 10, 12, or 14). Increasing the hydrophobicity of the n-alkyl sulfate resulted in (i) an increase in the number of distinct intermediates (that is, complexes of UBI and surfactant) that form along the pathway of unfolding, (ii) a decrease in the minimum concentrations of surfactant at which intermediates begin to form (i.e., a more negative ΔG(binding) of surfactant for UBI), and (iii) an increase in the number of surfactant molecules bound to UBI in each intermediate or complex. These results demonstrate that small changes in the hydrophobicity of a surfactant can significantly alter the binding interactions with a folded or unfolded cytosolic protein.
Collapse
Affiliation(s)
- Bryan F Shaw
- Department of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts 02138, United States.
| | | | | |
Collapse
|
29
|
Roussel G, Perpète EA, Matagne A, Tinti E, Michaux C. Towards a universal method for protein refolding: The trimeric beta barrel membrane Omp2a as a test case. Biotechnol Bioeng 2012; 110:417-23. [DOI: 10.1002/bit.24722] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2012] [Revised: 08/09/2012] [Accepted: 08/20/2012] [Indexed: 12/31/2022]
|
30
|
Azadi G, Tripathi A. Surfactant-induced electroosmotic flow in microfluidic capillaries. Electrophoresis 2012; 33:2094-101. [DOI: 10.1002/elps.201100633] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
|
31
|
Bohlin ME, Johannesson I, Carlsson G, Heegaard NHH, Blomberg LG. Estimation of the amount of β2-glycoprotein I adsorbed at the inner surface of fused silica capillaries after acidic, neutral and alkaline pretreatment. Electrophoresis 2012; 33:1695-702. [DOI: 10.1002/elps.201100592] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2011] [Revised: 12/12/2011] [Accepted: 12/14/2011] [Indexed: 11/09/2022]
Affiliation(s)
- Maria E. Bohlin
- Department of Chemistry and Biomedical Sciences; Karlstad University; Karlstad; Sweden
| | - Ida Johannesson
- Department of Chemistry and Biomedical Sciences; Karlstad University; Karlstad; Sweden
| | - Gunilla Carlsson
- Department of Chemistry and Biomedical Sciences; Karlstad University; Karlstad; Sweden
| | - Niels H. H. Heegaard
- Department of Clinical Biochemistry and Immunology; Statens Serum Institut; Copenhagen S; Denmark
| | - Lars G. Blomberg
- Department of Chemistry and Biomedical Sciences; Karlstad University; Karlstad; Sweden
| |
Collapse
|
32
|
Cooper BT, Sanzgiri RD, Maxey SB. Probing the conformational behavior of a monoclonal antibody with surfactant affinity capillary electrophoresis (SurfACE). Analyst 2012; 137:5777-84. [DOI: 10.1039/c2an36060h] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
|
33
|
Shaw BF, Schneider GF, Arthanari H, Narovlyansky M, Moustakas D, Durazo A, Wagner G, Whitesides GM. Complexes of native ubiquitin and dodecyl sulfate illustrate the nature of hydrophobic and electrostatic interactions in the binding of proteins and surfactants. J Am Chem Soc 2011; 133:17681-95. [PMID: 21939262 DOI: 10.1021/ja205735q] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A previous study, using capillary electrophoresis (CE) [J. Am. Chem. Soc. 2008, 130, 17384-17393], reported that six discrete complexes of ubiquitin (UBI) and sodium dodecyl sulfate (SDS) form at different concentrations of SDS along the pathway to unfolding of UBI in solutions of SDS. One complex (which formed between 0.8 and 1.8 mM SDS) consisted of native UBI associated with approximately 11 molecules of SDS. The current study used CE and (15)N/(13)C-(1)H heteronuclear single quantum coherence (HSQC) NMR spectroscopy to identify residues in folded UBI that associate specifically with SDS at 0.8-1.8 mM SDS, and to correlate these associations with established biophysical and structural properties of this well-characterized protein. The ability of the surface charge and hydrophobicity of folded UBI to affect the association with SDS (at concentrations below the CMC) was studied, using CE, by converting lys-ε-NH(3)(+) to lys-ε-NHCOCH(3) groups. According to CE, the acetylation of lysine residues inhibited the binding of 11 SDS ([SDS] < 2 mM) and decreased the number of complexes of composition UBI-(NHAc)(8)·SDS(n) that formed on the pathway of unfolding of UBI-(NHAc)(8) in SDS. A comparison of (15)N-(1)H HSQC spectra at 0 mM and 1 mM SDS with calculated electrostatic surface potentials of folded UBI (e.g., solutions to the nonlinear Poisson-Boltzmann (PB) equation) suggested, however, that SDS binds preferentially to native UBI at hydrophobic residues that are formally neutral (i.e., Leu and Ile), but that have positive electrostatic surface potential (as predicted from solutions to nonlinear PB equations); SDS did not uniformly interact with residues that have formal positive charge (e.g., Lys or Arg). Cationic functional groups, therefore, promote the binding of SDS to folded UBI because these groups exert long-range effects on the positive electrostatic surface potential (which extend beyond their own van der Waals radii, as predicted from PB theory), and not because cationic groups are necessarily the site of ionic interactions with sulfate groups. Moreover, SDS associated with residues in native UBI without regard to their location in α-helix or β-sheet structure (although residues in hydrogen-bonded loops did not bind SDS). No correlation was observed between the association of an amino acid with SDS and the solvent accessibility of the residue or its rate of amide H/D exchange. This study establishes a few (of perhaps several) factors that control the simultaneous molecular recognition of multiple anionic amphiphiles by a folded cytosolic protein.
Collapse
Affiliation(s)
- Bryan F Shaw
- Department of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts 02138, United States.
| | | | | | | | | | | | | | | |
Collapse
|
34
|
Dolnik V, Gurske WA. Size separation of proteins by capillary zone electrophoresis with cationic hitchhiking. Electrophoresis 2011; 32:2884-92. [PMID: 21948216 PMCID: PMC3516881 DOI: 10.1002/elps.201100114] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2011] [Revised: 04/15/2011] [Accepted: 04/26/2011] [Indexed: 01/30/2023]
Abstract
The paper describes a method of size separation of proteins by capillary sieving electrophoresis with cationic surfactant. Proteins are separated within 12 min with repeatability of migration times better than 0.2%. Some proteins achieve the separation efficiency of 200,000 theoretical plates. The method can be used for determination of protein relative molecular masses. The accuracy of the determined relative molecular masses and the limitation of the method were investigated by the analysis of more than 60 proteins. The method also allows separation of protein oligomers. Proteins can be quantitated after the electrokinetic injection in the concentration range 0.07-0.43 g/L. The average detection limit is about 2 mg/L.
Collapse
|
35
|
Lee A, Tang SKY, Mace CR, Whitesides GM. Denaturation of proteins by SDS and tetraalkylammonium dodecyl sulfates. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:11560-74. [PMID: 21834533 PMCID: PMC3172379 DOI: 10.1021/la201832d] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
This article describes the use of capillary electrophoresis (CE) to examine the influence of different cations (C(+); C(+) = Na(+) and tetra-n-alkylammonium, NR(4)(+), where R = Me, Et, Pr, and Bu) on the rates of denaturation of bovine carbonic anhydrase II (BCA) in the presence of anionic surfactant dodecylsulfate (DS(-)). An analysis of the denaturation of BCA in solutions of Na(+)DS(-) and NR(4)(+)DS(-) (in Tris-Gly buffer) indicated that the rates of formation of complexes of denatured BCA with DS(-) (BCA(D)-DS(-)(n,sat)) are indistinguishable and independent of the cation below the critical micellar concentration (cmc) and independent of the total concentration of DS(-) above the cmc. At concentrations of C(+)DS(-) above the cmc, BCA denatured at rates that depended on the cation; the rates decreased by a factor >10(4) in the order of Na(+) ≈ NMe(4)(+) > NEt(4)(+) > NPr(4)(+) > NBu(4)(+), which is the same order as the values of the cmc (which decrease from 4.0 mM for Na(+)DS(-) to 0.9 mM for NBu(4)(+)DS(-) in Tris-Gly buffer). The relationship between the cmc values and the rates of formation of BCA(D)-DS(-)(n,sat()) suggested that the kinetics of denaturation of BCA involve the association of this protein with monomeric DS(-) rather than with micelles of (C(+)DS(-))(n). A less-detailed survey of seven other proteins (α-lactalbumin, β-lactoglobulin A, β-lactoglobulin B, carboxypeptidase B, creatine phosphokinase, myoglobin, and ubiquitin) showed that the difference between Na(+)DS(-) and NR(4)(+)DS(-) observed with BCA was not general. Instead, the influence of NR(4)(+) on the association of DS(-) with these proteins depended on the protein. The selection of the cation contributed to the properties (including the composition, electrophoretic mobility, and partitioning behavior in aqueous two-phase systems) of aggregates of denatured protein and DS(-). These results suggest that the variation in the behavior of NR(4)(+)DS(-) with changes in R may be exploited in methods used to analyze and separate mixtures of proteins.
Collapse
Affiliation(s)
- Andrew Lee
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts, USA
| | | | | | | |
Collapse
|
36
|
Otzen D. Protein–surfactant interactions: A tale of many states. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2011; 1814:562-91. [DOI: 10.1016/j.bbapap.2011.03.003] [Citation(s) in RCA: 362] [Impact Index Per Article: 27.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2010] [Revised: 02/23/2011] [Accepted: 03/04/2011] [Indexed: 10/18/2022]
|
37
|
Bohlin ME, Blomberg LG, Heegaard NHH. Effects of ionic strength, temperature and conformation on affinity interactions of β2-glycoprotein I monitored by capillary electrophoresis. Electrophoresis 2011; 32:728-37. [DOI: 10.1002/elps.201000538] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2010] [Revised: 12/11/2010] [Accepted: 12/27/2010] [Indexed: 11/06/2022]
|
38
|
Zhang S, Xia K, Chung WK, Cramer SM, Colón W. Identifying kinetically stable proteins with capillary electrophoresis. Protein Sci 2010; 19:888-92. [PMID: 20091769 DOI: 10.1002/pro.336] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Unlike most proteins, which are in equilibrium with partially and globally unfolded conformations, kinetically stable proteins (KSPs) are trapped in their native conformations and are often resistant to harsh environment. Based on a previous correlation between kinetic stability (KS) and a protein's resistance to sodium dodecyl sulfate (SDS), we show here a simple method to identify KSPs by SDS-capillary electrophoresis (CE). Control non-KSPs were fully denatured by SDS and formed protein:SDS complexes that exhibited similar mobility in CE. In contrast, KSPs bound fewer SDS molecules, and showed a very different migration time and peak pattern in CE, thereby providing some insight about the structural heterogeneity of SDS:protein complexes and the relative KS of the various proteins.
Collapse
Affiliation(s)
- Songjie Zhang
- Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, Troy, New York 12180, USA
| | | | | | | | | |
Collapse
|
39
|
Lorenz S, Hauser CP, Autenrieth B, Weiss CK, Landfester K, Mailänder V. The Softer and More Hydrophobic the Better: Influence of the Side Chain of Polymethacrylate Nanoparticles for Cellular Uptake. Macromol Biosci 2010; 10:1034-42. [DOI: 10.1002/mabi.201000099] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
|
40
|
Diress A, Lorbetskie B, Larocque L, Li X, Alteen M, Isbrucker R, Girard M. Study of aggregation, denaturation and reduction of interferon alpha-2 products by size-exclusion high-performance liquid chromatography with fluorescence detection and biological assays. J Chromatogr A 2009; 1217:3297-306. [PMID: 19931086 DOI: 10.1016/j.chroma.2009.10.081] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2009] [Revised: 10/21/2009] [Accepted: 10/27/2009] [Indexed: 11/25/2022]
Abstract
Interferon alpha-2 (IFN alpha-2) products have been widely used as antivirals for the treatment of serious diseases such as hepatitis B and C. However, reports of adverse reactions following treatment have prompted investigations into the cause of these undesirable events. In this study size-exclusion HPLC (SE-HPLC) methods coupled with intrinsic fluorescence detection were developed for evaluating the stability and degradation profiles of IFN alpha-2 drug substances and drug products. The method allowed baseline resolution of the active ingredient from the excipients present in the finished products that included large amounts of albumin. Limits of detection (S/N>or=3) for IFN alpha-2a and IFN alpha-2b were 32 ng/mL and 28 ng/mL, respectively and good repeatability of chromatographic profiles (%RSD<2.1) was obtained. High molecular weight (HMW) aggregates with apparent molecular weight of approximately 650 kDa as well as dimers, denatured and reduced variants were successfully identified and separated from native IFN alpha-2 proteins. This chromatographic method, which quantitatively measures physical and chemical changes taking place in solution formulations, was found to be capable of monitoring IFN alpha-2a and IFN alpha-2b stability. Potency assay results revealed up to 87% decrease in biological activity of the physically and chemically altered variants compared to the original IFNs.
Collapse
Affiliation(s)
- Abebaw Diress
- Centre for Biologics Research, Health Canada, Banting Bldg, Tunney's Pasture, Ottawa, ON K1A 0L2, Canada
| | | | | | | | | | | | | |
Collapse
|
41
|
Schneider GF, Shaw BF, Lee A, Carillho E, Whitesides GM. Pathway for unfolding of ubiquitin in sodium dodecyl sulfate, studied by capillary electrophoresis. J Am Chem Soc 2009; 130:17384-93. [PMID: 19035631 DOI: 10.1021/ja804736t] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
This paper characterizes the complexes formed by a small protein, ubiquitin (UBI), and a negatively charged surfactant, sodium dodecyl sulfate (SDS), using capillary electrophoresis (CE), circular dichroism (CD), and amide hydrogen-deuterium exchange (HDX; as monitored by mass spectroscopy, MS). Capillary electrophoresis of complexes of UBI and SDS, at apparent equilibrium, at concentrations of SDS ranging from sub-micellar and sub-denaturing to micellar and denaturing, revealed multiple complexes of UBI and SDS of the general composition UBI-SDS(n). Examination of electrophoretic mobilities of complexes of UBI and SDS as a function of the concentration of SDS provided a new way to characterize the interaction of this protein with SDS and established key characteristics of this system: e.g., the reversibility of the formation of the complexes, their approximate chemical compositions, and the pathway of SDS binding to UBI. The work identified, in addition to SDS-saturated UBI, at least six groups of complexes of UBI with SDS, within which four groups were populated with complexes of distinct stoichiometries: UBI-SDS(approximately 11), UBI-SDS(approximately 25), UBI-SDS(approximately 33), and UBI-SDS(approximately 42). CD spectroscopy and amide HDX of the UBI-SDS(n) complexes suggested that many of the UBI-SDS(n) complexes (n > 11) have greater alpha-helical content than native UBI. Capillary electrophoresis provides a level of detail about interactions of proteins and SDS that has not previously been accessible, and CE is an analytical and biophysical method for studies of interactions of proteins and surfactants that is both convenient and practical. This study sheds light on the formation of the enigmatic protein-SDS complexes formed during SDS polyacrylamide gel electrophoresis and brings a new tool to the study of proteins and detergents.
Collapse
Affiliation(s)
- Grégory F Schneider
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138, USA
| | | | | | | | | |
Collapse
|
42
|
Inactivation and unfolding of the hyperthermophilic inorganic pyrophosphatase from Thermus thermophilus by sodium dodecyl sulfate. Int J Mol Sci 2009; 10:2849-2859. [PMID: 19582233 PMCID: PMC2705520 DOI: 10.3390/ijms10062849] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2009] [Revised: 05/31/2009] [Accepted: 06/17/2009] [Indexed: 11/17/2022] Open
Abstract
Inorganic pyrophosphatase (PPase, EC 3.6.1.1) is an essential constitutive enzyme for energy metabolism and clearance of excess pyrophosphate. In this research, we investigated the sodium dodecyl sulfate (SDS)-induced inactivation and unfolding of PPase from Thermus thermophilus (T-PPase), a hyperthermophilic enzyme. The results indicated that like many other mesophilic enzymes, T-PPase could be fully inactivated at a low SDS concentration of 2 mM. Using an enzyme activity assay, SDS was shown to act as a mixed type reversible inhibitor, suggesting T-PPase contained specific SDS binding sites. At high SDS concentrations, T-PPase was denatured via a two-state process without the accumulation of any intermediate, as revealed by far-UV CD and intrinsic fluorescence. A comparison of the inactivation and unfolding data suggested that the inhibition might be caused by the specific binding of the SDS molecules to the enzyme, while the unfolding might be caused by the cooperative non-specific binding of SDS to T-PPase. The possible molecular mechanisms underlying the mixed type inhibition by SDS was proposed to be caused by the local conformational changes or altered charge distributions.
Collapse
|
43
|
The role of decorated SDS micelles in sub-CMC protein denaturation and association. J Mol Biol 2009; 391:207-26. [PMID: 19523473 DOI: 10.1016/j.jmb.2009.06.019] [Citation(s) in RCA: 119] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2009] [Revised: 05/28/2009] [Accepted: 06/04/2009] [Indexed: 11/21/2022]
Abstract
We have combined spectroscopy, chromatography, calorimetry, and small-angle X-ray scattering (SAXS) to provide a comprehensive structural and stoichiometric description of the sodium dodecyl sulfate (SDS)-induced denaturation of the 86-residue alpha-helical bovine acyl-coenzyme-A-binding protein (ACBP). Denaturation is a multistep process. Initial weak binding of 1-3 SDS molecules per protein molecule below 1.3 mM does not perturb the tertiary structure. Subsequent binding of approximately 13 SDS molecules per ACBP molecule leads to the formation of SDS aggregates on the protein and changes in both tertiary and secondary structures. SAXS data show that, at this stage, a decorated micelle links two ACBP molecules together, leaving about half of the polypeptide chain as a disordered region protruding into the solvent. Further titration with SDS leads to the additional uptake of 26 SDS molecules, which, according to SAXS, forms a larger decorated micelle bound to a single ACBP molecule. At the critical micelle concentration, we conclude from reduced mobility and increased fluorescence anisotropy that each ACBP molecule becomes associated with more than one micelle. At this point, 56-60 SDS molecules are bound per ACBP molecule. Our data provide key structural insights into decorated micelle complexes with proteins, revealing a remarkable diversity in the different conformations they can stabilize. The data highlight that a minimum decorated micelle size, which may be a key driving force for intermolecular protein association, exists. This may also provide a structural basis for the known ability of submicellar surfactant concentrations to induce protein aggregation and fibrillation.
Collapse
|
44
|
Hansen JH, Petersen SV, Andersen KK, Enghild JJ, Damhus T, Otzen D. Stable intermediates determine proteins' primary unfolding sites in the presence of surfactants. Biopolymers 2009; 91:221-31. [DOI: 10.1002/bip.21125] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
|
45
|
Lin CY, Tseng WL. Selective enrichment of albumin in biological samples by CE using segmental filling with sodium octyl sulfate in the background electrolyte. Electrophoresis 2009; 30:532-9. [DOI: 10.1002/elps.200800367] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
|
46
|
Ongay S, Puerta A, Díez-Masa JC, Bergquist J, de Frutos M. Development of CE methods to analyze potential components of the angiogenic glycoprotein vascular endothelial growth factor 165. Electrophoresis 2009; 30:315-24. [DOI: 10.1002/elps.200800140] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
|
47
|
Lin CY, Liu CH, Chang HC, Tseng WL. Enrichment and separation of acidic and basic proteins using the centrifugal ultrafiltration followed by nanoparticle-filled capillary electrophoresis. Electrophoresis 2008; 29:3024-31. [DOI: 10.1002/elps.200700879] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
|
48
|
Kostal V, Katzenmeyer J, Arriaga EA. Capillary electrophoresis in bioanalysis. Anal Chem 2008; 80:4533-50. [PMID: 18484738 DOI: 10.1021/ac8007384] [Citation(s) in RCA: 108] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Vratislav Kostal
- Department of Chemistry, University of Minnesota, Minneapolis, Minnesota 55455, USA
| | | | | |
Collapse
|
49
|
Byelashov OA, Kendall PA, Belk KE, Scanga JA, Sofos JN. Control of Listeria monocytogenes on vacuum-packaged frankfurters sprayed with lactic acid alone or in combination with sodium lauryl sulfate. J Food Prot 2008; 71:728-34. [PMID: 18468026 DOI: 10.4315/0362-028x-71.4.728] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
U.S. regulations require that processors employ lethal or inhibitory antimicrobial alternatives in production of ready-to-eat meat and poultry products that support growth of Listeria monocytogenes and may be exposed to the processing environment after a lethality treatment. In this study, lactic acid (LA; 5%, vol/vol) and sodium lauryl sulfate (SLS; 0.5%, wt/vol) were evaluated individually or as a mixture (LASLS) for control of L. monocytogenes on frankfurters. Frankfurters were inoculated with a 10-strain mixture of L. monocytogenes, sprayed for 10 s (20 bar, 23 +/- 2 degrees C) with antimicrobials or distilled water (DW) before (LASLS or DW) or after (LA, SLS, LASLS, or DW) inoculation (4.8 +/- 0.1 log CFU/cm2), vacuum packaged, and stored at 4 degrees C for 90 days. Samples were analyzed for numbers of the pathogen (on PALCAM agar) and for total microbial counts (on tryptic soy agar with yeast extract) during storage. Spraying with DW, LA, or SLS after inoculation reduced numbers of L. monocytogenes by 1.3 +/- 0.2, 1.8 +/- 0.5, and 2.0 +/- 0.4 log CFU/cm2, respectively. The LASLS mixture applied before or after inoculation reduced pathogen populations by 1.8 +/- 0.4 and 2.8 +/- 0.2 log CFU/cm2, respectively. No further reduction by any treatment was observed during storage. The bacterial growth curves (fitted by the model of Baranyi and Roberts) indicated that the lag-phase duration of the bacterium on control samples (13.85 to 15.18 days) was extended by spraying with all solutions containing LA. For example, LA suppressed growth of L. monocytogenes for 39.14 to 41.01 days. Pathogen growth rates also were lower on frankfurters sprayed after inoculation with LA or LASLS compared to those sprayed with DW. Therefore, spraying frankfurters with a mixture of LA and SLS may be a useful antilisterial alternative treatment for ready-to-eat meat and poultry products.
Collapse
Affiliation(s)
- Oleksandr A Byelashov
- Center for Meat Safety & Quality, Department of Animal Sciences, 1171 Campus Delivery, Colorado State University, Fort Collins, Colorado 80523, USA
| | | | | | | | | |
Collapse
|
50
|
Krishnamurthy VM, Kaufman GK, Urbach AR, Gitlin I, Gudiksen KL, Weibel DB, Whitesides GM. Carbonic anhydrase as a model for biophysical and physical-organic studies of proteins and protein-ligand binding. Chem Rev 2008; 108:946-1051. [PMID: 18335973 PMCID: PMC2740730 DOI: 10.1021/cr050262p] [Citation(s) in RCA: 561] [Impact Index Per Article: 35.1] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Vijay M. Krishnamurthy
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - George K. Kaufman
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - Adam R. Urbach
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - Irina Gitlin
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - Katherine L. Gudiksen
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - Douglas B. Weibel
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| | - George M. Whitesides
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138
| |
Collapse
|