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Kataoka T, Liu Z, Yamada I, Galindo TGP, Tagaya M. Surface functionalization of hydroxyapatite nanoparticles for biomedical applications. J Mater Chem B 2024; 12:6805-6826. [PMID: 38919049 DOI: 10.1039/d4tb00551a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/27/2024]
Abstract
This review completely covers the various aspects of hydroxyapatite (HAp) nanoparticles and their role in different biological situations, and provides the surface and interface contents on (i) hydroxyapatite nanoparticles and their hybridization with organic molecules, (ii) surface designing of hydroxyapatite nanoparticles to provide their biocompatibility and photofunction, and (iii) coating technology of hydroxyapatite nanoparticles. In particular, we summarized how the HAp nanoparticles interact with the different ions and molecules and highlighted the potential for hybridization between HAp nanoparticles and organic molecules, which is driven by the interactions of the HAp nanoparticle surface ions with several functional groups of biological molecules. In addition, we highlighted the studies focusing on the interfacial interactions between the HAp nanoparticles and proteins for exploring the enhanced biocompatibility. Such studies focus on how these interactions affect the hydration layers and protein adsorption. However, the hydration layer state involves diverse molecular interactions that can alter the shape of the adsorbed proteins, thereby affecting cell adhesion and spreading on the surfaces. We also summarized the relationship between the surface properties of the HAp nanoparticles and the hydration layer. Furthermore, we spotlighted the cytocompatible photoluminescent probes that can be developed by designing HAp/organic nanohybrid structures. We then emphasized the importance of photofunctionalization in theranostics, which involves the integration of diagnostics and therapy based on the surface design of the HAp nanoparticles. Furthermore, the coating techniques using HAp nanoparticles and HAp nanoparticle/polymer composites were outlined for fusing base biomaterials with biological tissues. The advantages of HAp/biocompatible polymer composite coatings include the ability to effectively cover porous or irregularly shaped surfaces while controlling the thickness of the coating layer, and the addition of HAp nanoparticles to the polymer matrix improves the mechanical properties, increases the roughness, and forms the morphologies that mimic bone nanostructures. Therefore, the fundamental design of hydroxyapatite nanoparticles and their surfaces was suggested from various aspects for biomedical applications.
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Affiliation(s)
- Takuya Kataoka
- Faculty of Interdisciplinary Science and Engineering in Health Systems, Okayama University, 3-1-1 Tsushima-naka, Kita-ku, Okayama 700-8530, Japan
| | - Zizhen Liu
- Department of Materials Science and Bioengineering, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
- Research Fellow of the Japan Society for the Promotion of Science (DC), 5-3-1 Kojimachi, Chiyoda-ku, Tokyo 102-0083, Japan
| | - Iori Yamada
- Department of Materials Science and Bioengineering, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
| | - Tania Guadalupe Peñaflor Galindo
- Department of General Education, National Institute of Technology, Nagaoka College, 888 Nishikatakai, Nagaoka, Niigata 940-8532, Japan
| | - Motohiro Tagaya
- Department of Materials Science and Bioengineering, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
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2
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Guleken Z, Aday A, Bayrak AG, Hindilerden İY, Nalçacı M, Cebulski J, Depciuch J. Relationship between amide ratio assessed by Fourier-transform infrared spectroscopy: A biomarker candidate for polycythemia vera disease. JOURNAL OF BIOPHOTONICS 2024:e202400162. [PMID: 38978265 DOI: 10.1002/jbio.202400162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2024] [Revised: 06/10/2024] [Accepted: 06/21/2024] [Indexed: 07/10/2024]
Abstract
The study utilized Fourier transform infrared (FTIR) spectroscopy coupled with chemometrics to investigate protein composition and structural changes in the blood serum of patients with polycythemia vera (PV). Principal component analysis (PCA) revealed distinct biochemical properties, highlighting elevated absorbance of phospholipids, amides, and lipids in PV patients compared to healthy controls. Ratios of amide I/amide II and amide I/amide III indicated alterations in protein structures. Support vector machine analysis and receiver operating characteristic curves identified amide I as a crucial predictor of PV, achieving 100% accuracy, sensitivity, and specificity, while amide III showed a lower predictive value (70%). PCA analysis demonstrated effective differentiation between PV patients and controls, with key wavenumbers including amide II, amide I, and CH lipid vibrations. These findings underscore the potential of FTIR spectroscopy for diagnosing and monitoring PV.
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Affiliation(s)
- Zozan Guleken
- Faculty of Medicine, Department of Physiology, Gaziantep University of Islam Science and Technology, Gaziantep, Turkey
| | - Aynur Aday
- Faculty of Medicine, Department of Internal Medicine, Division of Medical Genetics, Istanbul University, Istanbul, Turkey
| | - Ayşe Gül Bayrak
- Faculty of Medicine, Department of Internal Medicine, Division of Medical Genetics, Istanbul University, Istanbul, Turkey
| | - İpek Yönal Hindilerden
- Department of Internal Medicine, Division of Hematology, Istanbul University Istanbul Faculty of Medicine, Istanbul, Turkey
| | - Meliha Nalçacı
- Department of Internal Medicine, Division of Hematology, Istanbul University Istanbul Faculty of Medicine, Istanbul, Turkey
| | - Jozef Cebulski
- Institute of Physics, University of Rzeszow, Rzeszow, Poland
| | - Joanna Depciuch
- Institute of Nuclear Physics, Krakow, Poland
- Department of Biochemistry and Molecular Biology, Medical University of Lublin, Lublin, Poland
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3
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ATR-FTIR Biosensors for Antibody Detection and Analysis. Int J Mol Sci 2022; 23:ijms231911895. [PMID: 36233197 PMCID: PMC9570191 DOI: 10.3390/ijms231911895] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2022] [Revised: 09/29/2022] [Accepted: 10/04/2022] [Indexed: 11/17/2022] Open
Abstract
Quality control of drug products is of paramount importance in the pharmaceutical world. It ensures product safety, efficiency, and consistency. In the case of complex biomolecules such as therapeutic proteins, small variations in bioprocess parameters can induce substantial variations in terms of structure, impacting the drug product quality. Conditions for obtaining highly reproducible grafting of 11-mercaptoundecanoic acid were determined. On that basis, we developed an easy-to-use, cost effective, and timesaving biosensor based on ATR-FTIR spectroscopy able to detect immunoglobulins during their production. A germanium crystal, used as an internal reflection element (IRE) for FTIR spectroscopy, was covalently coated with immunoglobulin-binding proteins. This thereby functionalized surface could bind only immunoglobulins present in complex media such as culture media or biopharmaceutical products. The potential subsequent analysis of their structure by ATR-FTIR spectroscopy makes this biosensor a powerful tool to monitor the production of biotherapeutics and assess important critical quality attributes (CQAs) such as high-order structure and aggregation level.
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Liu Z, Yamada S, Otsuka Y, Peñaflor Galindo TG, Tagaya M. Surface modification of hydroxyapatite nanoparticles for bone regeneration by controlling their surface hydration and protein adsorption states. Dalton Trans 2022; 51:9572-9583. [PMID: 35699123 DOI: 10.1039/d2dt00969b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Autogenous bone and metallic implant grafting has been used to repair and regenerate bone defects. However, there are still many unresolved problems. It is suggested that bioceramic nanoparticles should be developed and designed to promote effective bone regeneration. In addition, it is necessary to synthesize bioceramic nanoparticles that can support proteins related to bone repair and regeneration such as collagen and albumin. As the protein-interactive bioceramic, hydroxyapatite (HA) deserves to be mentioned and has several attractive properties that are useful in biomedical fields (e.g., biocompatibility, protein adsorption capacity and stability in the physiological environment). In order to prepare novel HA nanoparticles with high biocompatibility, it can be considered that human bones are mainly composed of HA and contain a small amount of silicate, and therefore, the design of coexistence of HA with silicate can be focused. Moreover, it is proposed that the state of the hydration layer on the nanoparticle surfaces can be controlled by introducing heteroelements and polymer chains, which have a great influence on the subsequent protein adsorption and cell adhesion. In this perspective, in order to develop novel bioceramic nanoparticles for the treatment of bone defect, the design of highly biocompatible HA nanoparticles and the control of the hydration layer and protein adsorption states on the surfaces were systematically discussed based on their surface modification techniques, which are very important for the proper understanding of the interface between cells and bioceramics, leading to the further application in biomedical fields.
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Affiliation(s)
- Zizhen Liu
- Department of Materials Science and Technology, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
| | - Shota Yamada
- Department of Materials Science and Technology, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
| | - Yuichi Otsuka
- Department of System Safety, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan
| | - Tania Guadalupe Peñaflor Galindo
- Department of General Education, National Institute of Technology, Nagaoka College, 888 Nishikatakai, Nagaoka, Niigata 940-8532, Japan
| | - Motohiro Tagaya
- Department of Materials Science and Technology, Graduate School of Engineering, Nagaoka University of Technology, 1603-1 Kamitomioka, Nagaoka, Niigata 940-2188, Japan.
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5
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Ekal NS, Patil R, Ranjan N, Bahadur P, Tiwari S. Oxidation state of graphene oxide nanosheets drives their interaction with proteins: A case of bovine serum albumin. Colloids Surf B Biointerfaces 2022; 212:112367. [PMID: 35114436 DOI: 10.1016/j.colsurfb.2022.112367] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2021] [Revised: 01/09/2022] [Accepted: 01/23/2022] [Indexed: 02/08/2023]
Abstract
In the present study, we explored the interaction of bovine serum albumin (BSA) with oxidized graphene oxide (GO) nanosheets. Nanosheets, synthesized with 4, 6, 8, 10 and 12 wt equivalents of KMnO4 as oxidant, were coded as GO-4, GO-6, GO-8, GO-10 and GO-12, respectively. After incubating sheets with a fixed concentration of BSA at room temperature, interactions were monitored with time. The analysis is based on UV-vis spectroscopy, fluorescence quenching, dynamic light scattering (DLS), small angle neutron scattering (SANS), Fourier transform infrared (FTIR) spectroscopy and circular dichroism (CD) techniques. Binding of BSA over sheets was recorded in the following order; GO-04 >> GO-06 > GO-08 > GO-10 ≈ GO-12. Our observations suggest that these interactions are largely regulated by the availability of pure graphitic domains and density of oxygen functionalities on sheet surface. This led us to the conclusion that GO-protein interactions can be minimized by modulating the extent of sheet oxidation. Moreover, we show that adsorption of proteins as colloidal aggregates contributes to improved biosafety of sheets. The protein molecule did not exhibit depletive changes in its conformation. However, from the viewpoint of drug delivery applications, density of oxygen groups must be optimized for maximizing the loading efficiency of oxidized sheets.
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Affiliation(s)
- Neha S Ekal
- Department of Pharmaceutics, National Institute of Pharmaceutical Education and Research (NIPER) - Raebareli, Lucknow 226002, Uttar Pradesh, India
| | - Rahul Patil
- Shree Dhanvantary Pharmacy College, Surat 394110, Gujarat, India
| | - Nihar Ranjan
- Department of Medicinal Chemistry, National Institute of Pharmaceutical Education and Research (NIPER) - Raebareli, Lucknow 226002, Uttar Pradesh, India
| | - Pratap Bahadur
- Department of Chemistry, Veer Narmad South Gujarat University, Surat 395007, Gujarat, India
| | - Sanjay Tiwari
- Department of Pharmaceutics, National Institute of Pharmaceutical Education and Research (NIPER) - Raebareli, Lucknow 226002, Uttar Pradesh, India.
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Yang S, Zhang Q, Yang H, Shi H, Dong A, Wang L, Yu S. Progress in infrared spectroscopy as an efficient tool for predicting protein secondary structure. Int J Biol Macromol 2022; 206:175-187. [PMID: 35217087 DOI: 10.1016/j.ijbiomac.2022.02.104] [Citation(s) in RCA: 52] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Revised: 02/14/2022] [Accepted: 02/17/2022] [Indexed: 12/21/2022]
Abstract
Infrared (IR) spectroscopy is a highly sensitive technique that provides complete information on chemical compositions. The IR spectra of proteins or peptides give rise to nine characteristic IR absorption bands. The amide I bands are the most prominent and sensitive vibrational bands and widely used to predict protein secondary structures. The interference of H2O absorbance is the greatest challenge for IR protein secondary structure prediction. Much effort has been made to reduce/eliminate the interference of H2O, simplify operation steps, and increase prediction accuracy. Progress in sampling and equipment has rendered the Fourier transform infrared (FTIR) technique suitable for determining the protein secondary structure in broader concentration ranges, greatly simplifying the operating steps. This review highlights the recent progress in sample preparation, data analysis, and equipment development of FTIR in A/T mode, with a focus on recent applications of FTIR spectroscopy in the prediction of protein secondary structure. This review also provides a brief introduction of the progress in ATR-FTIR for predicting protein secondary structure and discusses some combined IR methods, such as AFM-based IR spectroscopy, that are used to analyze protein structural dynamics and protein aggregation.
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Affiliation(s)
- Shouning Yang
- Zhejiang Provincial Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang 315211, China
| | | | - Huayan Yang
- Zhejiang Provincial Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang 315211, China
| | - Haimei Shi
- Zhejiang Provincial Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang 315211, China
| | - Aichun Dong
- Department of Chemistry and Biochemistry, University of Northern Colorado, Greeley, CO, USA.
| | - Li Wang
- Kweichow Moutai Group, Renhuai, Guizhou 564501, China.
| | - Shaoning Yu
- Zhejiang Provincial Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang 315211, China.
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Pinto Corujo M, Olamoyesan A, Tukova A, Ang D, Goormaghtigh E, Peterson J, Sharov V, Chmel N, Rodger A. SOMSpec as a General Purpose Validated Self-Organising Map Tool for Rapid Protein Secondary Structure Prediction From Infrared Absorbance Data. Front Chem 2022; 9:784625. [PMID: 35155377 PMCID: PMC8830495 DOI: 10.3389/fchem.2021.784625] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 12/06/2021] [Indexed: 11/13/2022] Open
Abstract
A protein's structure is the key to its function. As protein structure can vary with environment, it is important to be able to determine it over a wide range of concentrations, temperatures, formulation vehicles, and states. Robust reproducible validated methods are required for applications including batch-batch comparisons of biopharmaceutical products. Circular dichroism is widely used for this purpose, but an alternative is required for concentrations above 10 mg/mL or for solutions with chiral buffer components that absorb far UV light. Infrared (IR) protein absorbance spectra of the Amide I region (1,600-1700 cm-1) contain information about secondary structure and require higher concentrations than circular dichroism often with complementary spectral windows. In this paper, we consider a number of approaches to extract structural information from a protein infrared spectrum and determine their reliability for regulatory and research purpose. In particular, we compare direct and second derivative band-fitting with a self-organising map (SOM) approach applied to a number of different reference sets. The self-organising map (SOM) approach proved significantly more accurate than the band-fitting approaches for solution spectra. As there is no validated benchmark method available for infrared structure fitting, SOMSpec was implemented in a leave-one-out validation (LOOV) approach for solid-state transmission and thin-film attenuated total reflectance (ATR) reference sets. We then tested SOMSpec and the thin-film ATR reference set against 68 solution spectra and found the average prediction error for helix (α + 310) and β-sheet was less than 6% for proteins with less than 40% helix. This is quantitatively better than other available approaches. The visual output format of SOMSpec aids identification of poor predictions. We also demonstrated how to convert aqueous ATR spectra to and from transmission spectra for structure fitting. Fourier self-deconvolution did not improve the average structure predictions.
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Affiliation(s)
- Marco Pinto Corujo
- Department of Chemistry, University of Warwick, Coventry, United Kingdom
| | - Adewale Olamoyesan
- Department of Molecular Sciences, Macquarie University, Sydney, NSW, Australia
| | - Anastasiia Tukova
- Department of Molecular Sciences, Macquarie University, Sydney, NSW, Australia
| | - Dale Ang
- Department of Molecular Sciences, Macquarie University, Sydney, NSW, Australia
| | - Erik Goormaghtigh
- Center for Structural Biology and Bioinformatics, Laboratory for the Structure and Function of Biological Membranes, Campus Plaine, Université Libre de Bruxelles, Brussels, Belgium
| | | | | | - Nikola Chmel
- Department of Chemistry, University of Warwick, Coventry, United Kingdom
| | - Alison Rodger
- Department of Chemistry, University of Warwick, Coventry, United Kingdom
- Department of Molecular Sciences, Macquarie University, Sydney, NSW, Australia
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8
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Davidov T, Efraim Y, Hayam R, Oieni J, Baruch L, Machluf M. Extracellular Matrix Hydrogels Originated from Different Organs Mediate Tissue-Specific Properties and Function. Int J Mol Sci 2021; 22:ijms222111624. [PMID: 34769054 PMCID: PMC8583810 DOI: 10.3390/ijms222111624] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2021] [Revised: 10/22/2021] [Accepted: 10/24/2021] [Indexed: 12/29/2022] Open
Abstract
Porcine extracellular matrix (pECM)-derived hydrogels were introduced, in recent years, aiming to benefit the pECM’s microstructure and bioactivity, while controlling the biomaterial’s physical and mechanical properties. The use of pECM from different tissues, however, offers tissue-specific features that can better serve different applications. In this study, pECM hydrogels derived from cardiac, artery, pancreas, and adipose tissues were compared in terms of composition, structure, and mechanical properties. While major similarities were demonstrated between all the pECM hydrogels, their distinctive attributes were also identified, and their substantial effects on cell-ECM interactions were revealed. Furthermore, through comprehensive protein and gene expression analyses, we show, for the first time, that each pECM hydrogel supports the spontaneous differentiation of induced pluripotent stem cells towards the resident cells of its origin tissue. These findings imply that the origin of ECM should be carefully considered when designing a biomedical platform, to achieve a maximal bioactive impact.
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Lu Y, Wang C, Jiang B, Sun CC, Hoag SW. Effects of compaction and storage conditions on stability of intravenous immunoglobulin - Implication on developing oral tablets of biologics. Int J Pharm 2021; 604:120737. [PMID: 34048928 DOI: 10.1016/j.ijpharm.2021.120737] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 05/15/2021] [Accepted: 05/23/2021] [Indexed: 12/13/2022]
Abstract
Biological products, such as therapeutic proteins, vaccines and cell - based therapeutics have a rapidly growing global market. Monoclonal antibody represents a major portion of the biologics market. For biologics that target gastrointestinal tract, the oral delivery route offers many advantages, such as better patient compliance, easy administration and increased stability, over the parental route of administration. To lay the ground work for the oral delivery of biologics, we studied the solid state properties and effects of compaction pressure, particle size, and storage relative humidity on the stability of immunoglobulin G (IVIG). We employed complementary analytical and biophysical techniques, such as size exclusion chromatography and Dynamic light scattering to characterize the aggregates, circular dichroism and solid state Fourier-transform infrared spectroscopy to evaluate protein secondary structure and nano-DSC to probe thermal stability of protein conformations. Our results showed storage relative humidity could induce conformational changes and aggregation of IVIG. However, the IVIG binding activity did not significantly change with relative humidity. The commonly used compaction pressures did not promote protein aggregation, but noticeably reduced binding activity.
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Affiliation(s)
- Yuwei Lu
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore, MN 21201, United States
| | - Chenguang Wang
- Pharmaceutical Materials Science and Engineering Laboratory, Department of Pharmaceutics, University of Minnesota, Minneapolis, MN 55455, United States
| | - Bowen Jiang
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore, MN 21201, United States
| | - Changquan Calvin Sun
- Pharmaceutical Materials Science and Engineering Laboratory, Department of Pharmaceutics, University of Minnesota, Minneapolis, MN 55455, United States.
| | - Stephen W Hoag
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore, MN 21201, United States.
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10
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Amino acid side chain contribution to protein FTIR spectra: impact on secondary structure evaluation. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2021; 50:641-651. [PMID: 33558954 PMCID: PMC8189991 DOI: 10.1007/s00249-021-01507-7] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/11/2020] [Revised: 01/13/2021] [Accepted: 01/25/2021] [Indexed: 01/25/2023]
Abstract
Prediction of protein secondary structure from FTIR spectra usually relies on the absorbance in the amide I–amide II region of the spectrum. It assumes that the absorbance in this spectral region, i.e., roughly 1700–1500 cm−1 is solely arising from amide contributions. Yet, it is accepted that, on the average, about 20% of the absorbance is due to amino acid side chains. The present paper evaluates the contribution of amino acid side chains in this spectral region and the potential to improve secondary structure prediction after correcting for their contribution. We show that the β-sheet content prediction is improved upon subtraction of amino acid side chain contributions in the amide I–amide II spectral range. Improvement is relatively important, for instance, the error of prediction of β-sheet content decreases from 5.42 to 4.97% when evaluated by ascending stepwise regression. Other methods tested such as partial least square regression and support vector machine have also improved accuracy for β-sheet content evaluation. The other structures such as α-helix do not significantly benefit from side chain contribution subtraction, in some cases prediction is even degraded. We show that co-linearity between secondary structure content and amino acid composition is not a main limitation for improving secondary structure prediction. We also show that, even though based on different criteria, secondary structures defined by DSSP and XTLSSTR both arrive at the same conclusion: only the β-sheet structure clearly benefits from side chain subtraction. It must be concluded that side chain contribution subtraction benefit for the evaluation of other secondary structure contents is limited by the very rough description of side chain absorbance which does not take into account the variations related to their environment. The study was performed on a large protein set. To deal with the large number of proteins present, we worked on protein microarrays deposited on BaF2 slides and FTIR spectra were acquired with an imaging system.
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11
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Evaluation of protein secondary structure from FTIR spectra improved after partial deuteration. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2021; 50:613-628. [PMID: 33534058 PMCID: PMC8189984 DOI: 10.1007/s00249-021-01502-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Revised: 01/08/2021] [Accepted: 01/13/2021] [Indexed: 11/11/2022]
Abstract
FTIR spectroscopy has become a major tool to determine protein secondary structure. One of the identified obstacle for reaching better predictions is the strong overlap of bands assigned to different secondary structures. Yet, while for instance disordered structures and α-helical structures absorb almost at the same wavenumber, the absorbance bands are differentially shifted upon deuteration, in part because exchange is much faster for disordered structures. We recorded the FTIR spectra of 85 proteins at different stages of hydrogen/deuterium exchange process using protein microarrays and infrared imaging for high throughput measurements. Several methods were used to relate spectral shape to secondary structure content. While in absolute terms, β-sheet is always better predicted than α-helix content, results consistently indicate an improvement of secondary structure predictions essentially for the α-helix and the category called “Others” (grouping random, turns, bends, etc.) after 15 min of exchange. On the contrary, the β-sheet fraction is better predicted in non-deuterated conditions. Using partial least square regression, the error of prediction for the α-helix content is reduced after 15-min deuteration. Further deuteration degrades the prediction. Error on the prediction for the “Others” structures also decreases after 15-min deuteration. Cross-validation or a single 25-protein test set result in the same overall conclusions.
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12
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De Meutter J, Goormaghtigh E. Searching for a Better Match between Protein Secondary Structure Definitions and Protein FTIR Spectra. Anal Chem 2021; 93:1561-1568. [PMID: 33332103 DOI: 10.1021/acs.analchem.0c03943] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Obtaining protein secondary structure content from high-resolution structures requires definitions and thresholds for the various parameters involved, typically hydrogen bond energy or length/angle and backbone φ/ψ angles. Several definitions are currently used and can have a profound impact on secondary structure content. Fourier transform infrared (FTIR) spectroscopy has its own sensitivity to molecular geometry. It is, therefore, important to select a set of definitions that matches this sensitivity. Here, we used a new protein set consisting of 92 proteins designed for the calibration of spectroscopic methods. Spectra have been obtained from protein microarrays in a high throughput process. The potential for improving secondary structure predictions from FTIR spectra has been tested using 71 structures determined according to different definitions. The paper demonstrates that different secondary structure definitions result in large variations in secondary structure content that are not equivalent in view of the protein FTIR spectra. The prediction quality factor ζ can be improved by ca. 20-50% by selecting an adequate definition set. The results also indicate that the dictionary of secondary structure of proteins (DSSP) algorithm, which is currently widely used to evaluate protein secondary structure content, is a good choice when dealing with FTIR spectra.
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Affiliation(s)
- Joëlle De Meutter
- Center for Structural Biology and Bioinformatics, Laboratory for the Structure and Function of Biological Membranes, Université Libre de Bruxelles, Campus Plaine CP206/2, B1050 Brussels, Belgium
| | - Erik Goormaghtigh
- Center for Structural Biology and Bioinformatics, Laboratory for the Structure and Function of Biological Membranes, Université Libre de Bruxelles, Campus Plaine CP206/2, B1050 Brussels, Belgium
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13
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Ghimire H, Garlapati C, Janssen EAM, Krishnamurti U, Qin G, Aneja R, Perera AGU. Protein Conformational Changes in Breast Cancer Sera Using Infrared Spectroscopic Analysis. Cancers (Basel) 2020; 12:E1708. [PMID: 32605072 PMCID: PMC7407230 DOI: 10.3390/cancers12071708] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Revised: 06/19/2020] [Accepted: 06/25/2020] [Indexed: 01/08/2023] Open
Abstract
Protein structural alterations, including misfolding and aggregation, are a hallmark of several diseases, including cancer. However, the possible clinical application of protein conformational analysis using infrared spectroscopy to detect cancer-associated structural changes in proteins has not been established yet. The present study investigates the applicability of Fourier transform infrared spectroscopy in distinguishing the sera of healthy individuals and breast cancer patients. The cancer-associated alterations in the protein structure were analyzed by fitting the amide I (1600-1700 cm-1) band of experimental curves, as well as by comparing the ratio of the absorbance values at the amide II and amide III bands, assigning those as the infrared spectral signatures. The snapshot of the breast cancer-associated alteration in circulating DNA and RNA was also evaluated by extending the spectral fitting protocol to the complex region of carbohydrates and nucleic acids, 1140-1000 cm-1. The sensitivity and specificity of these signatures, representing the ratio of the α-helix and β-pleated sheet in proteins, were both 90%. Likewise, the ratio of amides II and amide III (I1556/I1295) had a sensitivity and specificity of 100% and 80%, respectively. Thus, infrared spectroscopy can serve as a powerful tool to understand the protein structural alterations besides distinguishing breast cancer and healthy serum samples.
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Affiliation(s)
- Hemendra Ghimire
- Department of Physics and Astronomy, Georgia State University, Atlanta, GA 30303, USA;
| | | | - Emiel A. M. Janssen
- Department of Pathology, Stavanger University Hospital, Stavanger NO-4068, Norway;
| | - Uma Krishnamurti
- Department of Pathology, Emory University School of Medicine, Atlanta, GA 30322, USA;
| | - Gengsheng Qin
- Department of Mathematics and Statistics, Georgia State University, Atlanta, GA 30303, USA;
| | - Ritu Aneja
- Department of Biology, Georgia State University, Atlanta, GA 30303, USA; (C.G.); (R.A.)
- Center for Diagnostics and Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - A. G. Unil Perera
- Department of Physics and Astronomy, Georgia State University, Atlanta, GA 30303, USA;
- Center for Diagnostics and Therapeutics, Georgia State University, Atlanta, GA 30303, USA
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14
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On the Secondary Structure of Silk Fibroin Nanoparticles Obtained Using Ionic Liquids: An Infrared Spectroscopy Study. Polymers (Basel) 2020; 12:polym12061294. [PMID: 32516911 PMCID: PMC7361871 DOI: 10.3390/polym12061294] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Revised: 05/27/2020] [Accepted: 06/02/2020] [Indexed: 12/30/2022] Open
Abstract
Silk fibroin from Bombyx mori caterpillar is an outstanding biocompatible polymer for the production of biomaterials. Its impressive combination of strength, flexibility, and degradability are related to the protein’s secondary structure, which may be altered during the manufacture of the biomaterial. The present study looks at the silk fibroin secondary structure during nanoparticle production using ionic liquids and high-power ultrasound using novel infrared spectroscopic approaches. The infrared spectrum of silk fibroin fibers shows that they are composed of 58% β-sheet, 9% turns, and 33% irregular and/or turn-like structures. When fibroin was dissolved in ionic liquids, its amide I band resembled that of soluble silk and no β-sheet absorption was detected. Silk fibroin nanoparticles regenerated from the ionic liquid solution exhibited an amide I band that resembled that of the silk fibers but had a reduced β-sheet content and a corresponding higher content of turns, suggesting an incomplete turn-to-sheet transition during the regeneration process. Both the analysis of the experimental infrared spectrum and spectrum calculations suggest a particular type of β-sheet structure that was involved in this deficiency, whereas the two other types of β-sheet structure found in silk fibroin fibers were readily formed.
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15
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Keiderling TA. Structure of Condensed Phase Peptides: Insights from Vibrational Circular Dichroism and Raman Optical Activity Techniques. Chem Rev 2020; 120:3381-3419. [DOI: 10.1021/acs.chemrev.9b00636] [Citation(s) in RCA: 50] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Timothy A. Keiderling
- Department of Chemistry, University of Illinois at Chicago 845 West Taylor Street m/c 111, Chicago, Illinois 60607-7061, United States
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16
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Terpugov EL. Fourier Transform Infrared Emission Spectroscopy in the Study of Biological Molecules. Biophysics (Nagoya-shi) 2020. [DOI: 10.1134/s0006350920010212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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17
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Wang Q, He H, Li B, Lin H, Zhang Y, Zhang J, Wang Z. UV-Vis and ATR-FTIR spectroscopic investigations of postmortem interval based on the changes in rabbit plasma. PLoS One 2017; 12:e0182161. [PMID: 28753641 PMCID: PMC5533326 DOI: 10.1371/journal.pone.0182161] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2017] [Accepted: 07/13/2017] [Indexed: 11/23/2022] Open
Abstract
Estimating PMI is of great importance in forensic investigations. Although many methods are used to estimate the PMI, a few investigations focus on the postmortem redistribution. In this study, ultraviolet-visible (UV-Vis) measurement combined with visual inspection indicated a regular diffusion of hemoglobin into plasma after death showing the redistribution of postmortem components in blood. Thereafter, attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy was used to confirm the variations caused by this phenomenon. First, full-spectrum partial least-squares (PLS) and genetic algorithm combined with PLS (GA-PLS) models were constructed to predict the PMI. The performance of GA-PLS model was better than that of full-spectrum PLS model based on its root mean square error (RMSE) of cross-validation of 3.46 h (R2 = 0.95) and the RMSE of prediction of 3.46 h (R2 = 0.94). The investigation on the similarity of spectra between blood plasma and formed elements also supported the role of redistribution of components in spectral changes in postmortem plasma. These results demonstrated that ATR-FTIR spectroscopy coupled with the advanced mathematical methods could serve as a convenient and reliable tool to study the redistribution of postmortem components and estimate the PMI.
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Affiliation(s)
- Qi Wang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Haijun He
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Bing Li
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Hancheng Lin
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Yinming Zhang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Ji Zhang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
| | - Zhenyuan Wang
- Department of Forensic Pathology, College of Forensic Medicine, Xi’an Jiaotong University, Xi’an, Shaanxi, China
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18
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Zhang J, Zhang X, Zhang F, Yu S. Solid-film sampling method for the determination of protein secondary structure by Fourier transform infrared spectroscopy. Anal Bioanal Chem 2017; 409:4459-4465. [PMID: 28526999 DOI: 10.1007/s00216-017-0390-y] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2017] [Revised: 04/23/2017] [Accepted: 05/02/2017] [Indexed: 10/19/2022]
Abstract
Fourier transform infrared (FTIR) spectroscopy is one of the widely used vibrational spectroscopic methods in protein structural analysis. The protein solution sample loaded in demountable CaF2 liquid cell presents a challenge and is limited to high concentrations. Some researchers attempted the simpler solid-film sampling method for the collection of protein FTIR spectra. In this study, the solid-film sampling FTIR method was studied in detail. The secondary structure components of some globular proteins were determined by this sampling method, and the results were consistent with those data determined by the traditional solution sampling FTIR method and X-ray crystallography, indicating that this sampling method is feasible and efficient for the structural characterization of proteins. Furthermore, much lower protein concentrations (~0.5 mg/mL) were needed to obtain high-quality FTIR spectra, which expands the application of FTIR spectroscopy to almost the same concentration range used for circular dichroism and fluorescence spectroscopy, making comparisons among three commonly used techniques possible in protein studies. Graphical Abstract ᅟ.
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Affiliation(s)
- Junting Zhang
- Department of Chemistry, Fudan University, Shanghai, 200433, China
| | - Xiaoning Zhang
- Department of Chemistry, Fudan University, Shanghai, 200433, China
| | - Fan Zhang
- Zhejiang BioHarmonious SciTech. Co. LTD., Hangzhou, Zhejiang, 310018, China
| | - Shaoning Yu
- Department of Chemistry, Fudan University, Shanghai, 200433, China.
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19
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Dong X, Li Y, Li Y, Song L, Cheng S, Li D, Zhu BW, Zhou D, Tan M. Combination of NMR and MRI Techniques for Non-invasive Assessment of Sea Cucumber (Stichopus japonicas) Tenderization During Low-Temperature Heating Process. FOOD ANAL METHOD 2017. [DOI: 10.1007/s12161-016-0770-5] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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20
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Zhao L, Liu X, Hu Z, Li L, Li B. Molecular Structure Evaluation of Wheat Gluten during Frozen Storage. FOOD BIOPHYS 2016. [DOI: 10.1007/s11483-016-9463-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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21
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Jose KVJ, Raghavachari K. Molecules-in-molecules fragment-based method for the calculation of chiroptical spectra of large molecules: Vibrational circular dichroism and Raman optical activity spectra of alanine polypeptides. Chirality 2016; 28:755-768. [DOI: 10.1002/chir.22651] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2016] [Revised: 08/29/2016] [Accepted: 08/30/2016] [Indexed: 12/17/2022]
Affiliation(s)
- K. V. Jovan Jose
- Department of Chemistry; Indiana University; Bloomington Indiana USA
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22
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Dong XP, Li Y, Song L, Wang Y, Tan MQ, Zhu BW. Changes of Water Distribution and Physicochemical Properties of Abalone (Haliotis discus
) Myofibrillar Proteins during Heat-Induced Gelation. J FOOD PROCESS PRES 2016. [DOI: 10.1111/jfpp.13069] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Xiu Ping Dong
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
| | - Yan Li
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
| | - Liang Song
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
| | - Yang Wang
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
| | - Ming Qian Tan
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
| | - Bei Wei Zhu
- School of Food Science and Technology; Dalian Polytechnic University, National Engineering Research Center of Seafood; Dalian 116034 People's Republic of China
- National R&D Branch Center for Shellfish Processing (Dalian); Dalian 116034 People's Republic of China
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23
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Mid-infrared spectroscopy for protein analysis: potential and challenges. Anal Bioanal Chem 2016; 408:2875-89. [PMID: 26879650 DOI: 10.1007/s00216-016-9375-5] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Revised: 01/22/2016] [Accepted: 01/28/2016] [Indexed: 12/11/2022]
Abstract
Mid-infrared (MIR) spectroscopy investigates the interaction of MIR photons with both organic and inorganic molecules via the excitation of vibrational and rotational modes, providing inherent molecular selectivity. In general, infrared (IR) spectroscopy is particularly sensitive to protein structure and structural changes via vibrational resonances originating from the polypeptide backbone or side chains; hence information on the secondary structure of proteins can be obtained in a label-free fashion. In this review, the challenges for IR spectroscopy for protein analysis are discussed as are the potential and limitations of different IR spectroscopic techniques enabling protein analysis. In particular, the amide I spectral range has been widely used to study protein secondary structure, conformational changes, protein aggregation, protein adsorption, and the formation of amyloid fibrils. In addition to representative examples of the potential of IR spectroscopy in various fields related to protein analysis, the potential of protein analysis taking advantage of miniaturized MIR systems, including waveguide-enhanced MIR sensors, is detailed.
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24
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Borowski P, Gac W, Pulay P, Woliński K. The vibrational spectrum of 1,4-dioxane in aqueous solution – theory and experiment. NEW J CHEM 2016. [DOI: 10.1039/c6nj01198e] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
Frequency shifts in dioxane–water mixtures were studied using conductor-like screening and explicit solvation models, showing predominance of the latter one.
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Affiliation(s)
- Piotr Borowski
- Faculty of Chemistry
- Maria Curie-Sklodowska University
- 20-031 Lublin
- Poland
| | - Wojciech Gac
- Faculty of Chemistry
- Maria Curie-Sklodowska University
- 20-031 Lublin
- Poland
| | - Peter Pulay
- Department of Chemistry and Biochemistry
- University of Arkansas
- Fayetteville 72701
- USA
| | - Krzysztof Woliński
- Faculty of Chemistry
- Maria Curie-Sklodowska University
- 20-031 Lublin
- Poland
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25
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Nawrocka A, Miś A, Szymańska-Chargot M. Characteristics of Relationships Between Structure of Gluten Proteins and Dough Rheology – Influence of Dietary Fibres Studied by FT-Raman Spectroscopy. FOOD BIOPHYS 2015. [DOI: 10.1007/s11483-015-9419-y] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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26
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Coe JV, Nystrom SV, Chen Z, Li R, Verreault D, Hitchcock CL, Martin EW, Allen HC. Extracting Infrared Spectra of Protein Secondary Structures Using a Library of Protein Spectra and the Ramachandran Plot. J Phys Chem B 2015; 119:13079-92. [PMID: 26397941 DOI: 10.1021/acs.jpcb.5b08052] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Infrared (IR) spectra from 1200 to 1800 cm(-1) of the pure α-helix and β-sheet secondary structures have been extracted using a covariant least-squares procedure which relates a library of 40 infrared (IR) solution protein spectra from the work of Dong, Carpenter, and Caughey and amino acid fractions of the proteins based on assignments by STRIDE (secondary structure identification) of Eisenhaber and Argos. The excitonic splitting of the β-sheet structures is determined for this library of solution proteins. The method is extended to find a set of spectral basis functions that analyze IR spectra of protein samples for α-helix and β-sheet content. A rigorous error analysis including covariance, the correlations between the input library spectra, was used to justify the results and avoid less meaningful results. The utility of the results on α-helix and β-sheet regions is demonstrated by detecting protein changes due to cancer in imaging Fourier transform IR (FTIR) spectra of liver tissue slices. This work ends with a method to extract IR spectra of less prominent torsional angle distributions.
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Affiliation(s)
- James V Coe
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States
| | - Steven V Nystrom
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States
| | - Zhaomin Chen
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States
| | - Ran Li
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States
| | - Dominique Verreault
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States
| | - Charles L Hitchcock
- Department of Pathology, The Ohio State University , 4132 Graves Hall, 333 West 10th Avenue, Columbus, Ohio 43210, United States
| | - Edward W Martin
- Department of Surgery, Division of Surgical Oncology, The Ohio State University , 410 West 10th Avenue, Columbus, Ohio 43210, United States
| | - Heather C Allen
- Department of Chemistry and Biochemistry, The Ohio State University , 100 West 18th Avenue, Columbus, Ohio 43210-1173, United States.,Department of Pathology, The Ohio State University , 4132 Graves Hall, 333 West 10th Avenue, Columbus, Ohio 43210, United States
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27
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Vanga SK, Singh A, Kalkan F, Gariepy Y, Orsat V, Raghavan V. Effect of Thermal and High Electric Fields on Secondary Structure of Peanut Protein. INTERNATIONAL JOURNAL OF FOOD PROPERTIES 2015. [DOI: 10.1080/10942912.2015.1071841] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Sai Kranthi Vanga
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
| | - Ashutosh Singh
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
| | - Fatih Kalkan
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
| | - Yvan Gariepy
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
| | - Valerie Orsat
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
| | - Vijaya Raghavan
- Department of Bioresource Engineering, Faculty of Agriculture and Environmental Studies, McGill University, Sainte-Anne-de-Bellevue, Quebec, Canada
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28
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Yang H, Yang S, Kong J, Dong A, Yu S. Obtaining information about protein secondary structures in aqueous solution using Fourier transform IR spectroscopy. Nat Protoc 2015; 10:382-96. [PMID: 25654756 DOI: 10.1038/nprot.2015.024] [Citation(s) in RCA: 667] [Impact Index Per Article: 74.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Fourier transform IR (FTIR) spectroscopy is a nondestructive technique for structural characterization of proteins and polypeptides. The IR spectral data of polymers are usually interpreted in terms of the vibrations of a structural repeat. The repeat units in proteins give rise to nine characteristic IR absorption bands (amides A, B and I-VII). Amide I bands (1,700-1,600 cm(-1)) are the most prominent and sensitive vibrational bands of the protein backbone, and they relate to protein secondary structural components. In this protocol, we have detailed the principles that underlie the determination of protein secondary structure by FTIR spectroscopy, as well as the basic steps involved in protein sample preparation, instrument operation, FTIR spectra collection and spectra analysis in order to estimate protein secondary-structural components in aqueous (both H2O and deuterium oxide (D2O)) solution using algorithms, such as second-derivative, deconvolution and curve fitting. Small amounts of high-purity (>95%) proteins at high concentrations (>3 mg ml(-1)) are needed in this protocol; typically, the procedure can be completed in 1-2 d.
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Affiliation(s)
- Huayan Yang
- Department of Chemistry, Fudan University, Shanghai, China
| | - Shouning Yang
- Department of Chemistry, Fudan University, Shanghai, China
| | - Jilie Kong
- Department of Chemistry, Fudan University, Shanghai, China
| | - Aichun Dong
- Department of Chemistry and Biochemistry, University of Northern Colorado, Greeley, Colorado, USA
| | - Shaoning Yu
- Department of Chemistry, Fudan University, Shanghai, China
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29
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Vinogradov VV, Avnir D. Exceptional thermal stability of industrially-important enzymes by entrapment within nano-boehmite derived alumina. RSC Adv 2015. [DOI: 10.1039/c4ra10944a] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We developed an alumina sol–gel matrix based on boehmite nanorods as a superior carrier for enzyme immobilization.
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Affiliation(s)
- Vladimir V. Vinogradov
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology
- The Hebrew University of Jerusalem
- Jerusalem 91904
- Israel
- Laboratory of Solution Chemistry of Advanced Materials and Technologies
| | - David Avnir
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology
- The Hebrew University of Jerusalem
- Jerusalem 91904
- Israel
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30
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Zou Y, Ma G. A new criterion to evaluate water vapor interference in protein secondary structural analysis by FTIR spectroscopy. Int J Mol Sci 2014; 15:10018-33. [PMID: 24901531 PMCID: PMC4100137 DOI: 10.3390/ijms150610018] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2014] [Revised: 05/26/2014] [Accepted: 05/27/2014] [Indexed: 01/14/2023] Open
Abstract
Second derivative and Fourier self-deconvolution (FSD) are two commonly used techniques to resolve the overlapped component peaks from the often featureless amide I band in Fourier transform infrared (FTIR) curve-fitting approach for protein secondary structural analysis. Yet, the reliability of these two techniques is greatly affected by the omnipresent water vapor in the atmosphere. Several criteria are currently in use as quality controls to ensure the protein absorption spectrum is negligibly affected by water vapor interference. In this study, through a second derivative study of liquid water, we first argue that the previously established criteria cannot guarantee a reliable evaluation of water vapor interference due to a phenomenon that we refer to as sample's absorbance-dependent water vapor interference. Then, through a comparative study of protein and liquid water, we show that a protein absorption spectrum can still be significantly affected by water vapor interference even though it satisfies the established criteria. At last, we propose to use the comparison between the second derivative spectra of protein and liquid water as a new criterion to better evaluate water vapor interference for more reliable second derivative and FSD treatments on the protein amide I band.
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Affiliation(s)
- Ye Zou
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, College of Chemistry and Environmental Science, Hebei University, Baoding 071002, China.
| | - Gang Ma
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, College of Chemistry and Environmental Science, Hebei University, Baoding 071002, China.
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31
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Chen Y, Wang HS, Morisawa Y, Ozaki Y. Concept and properties of an infrared hybrid single-beam spectrum and its application to eliminate solvent bands and other background interferences. Talanta 2014; 119:105-10. [PMID: 24401391 DOI: 10.1016/j.talanta.2013.10.058] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2013] [Revised: 10/24/2013] [Accepted: 10/25/2013] [Indexed: 11/19/2022]
Abstract
For infrared (IR) spectral measurements, if a quality single-beam background spectrum with desired intensity could be obtained, the contributions from solvent and other background components could be completely suppressed and their bands would not appear in a final transmittance/absorbance spectrum. In order to achieve this ideal but difficult goal, the concept of hybrid single-beam spectrum is introduced in this paper. The hybrid single-beam spectrum (φ h) is defined as a mixture of two single-beam spectra (φ b1 and φ b2) of the same sample but with different pathlengths (b1 and b2), namely, φ h = αφ b1+(1-α)φ b2, where α (0 ≤ α ≤ 1) is the component factor. The properties of the hybrid spectrum have been investigated. Under conditions of b2 > b1 ≥ 0.7 b2 and A max ≤ 0.60 (Amax is the maximum absorbance of b2 sample in the spectral range of interest), all the synthesized hybrid spectra are free from significant distortion regardless of the component factor. Therefore, the hybrid single-beam spectrum with desired intensity can be easily obtained simply by choosing an appropriate component factor. The proposed methodology has been demonstrated experimentally by the complete removal of the interference from the atmospheric water vapor and solvent.
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Affiliation(s)
- Yujing Chen
- School of Chemistry and Chemical Engineering, The Key Laboratory of Fuel Cell Technology of Guangdong Province, South China University of Technology, Guangzhou 510640, China
| | - Hai-Shui Wang
- School of Chemistry and Chemical Engineering, The Key Laboratory of Fuel Cell Technology of Guangdong Province, South China University of Technology, Guangzhou 510640, China.
| | - Yusuke Morisawa
- Department of Chemistry, School of Science and Engineering, Kinki University, Osaka 577-8502, Japan
| | - Yukihiro Ozaki
- Department of Chemistry, School of Science and Technology, Kwansei Gakuin University, 2-1 Gukuen, Sanda, Hyogo 669-1337, Japan
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32
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Li C, Kumar S, Montigny C, le Maire M, Barth A. Quality assessment of recombinant proteins by infrared spectroscopy. Characterisation of a protein aggregation related band of the Ca2+-ATPase. Analyst 2014; 139:4231-40. [DOI: 10.1039/c4an00483c] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
FTIR spectroscopy detects aggregates of recombinantly produced protein and can therefore be used for quality control.
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Affiliation(s)
- Chenge Li
- Department of Biochemistry and Biophysics
- Arrhenius Laboratories
- Stockholm University
- SE-106 91 Stockholm, Sweden
| | - Saroj Kumar
- Department of Biochemistry and Biophysics
- Arrhenius Laboratories
- Stockholm University
- SE-106 91 Stockholm, Sweden
| | | | | | - Andreas Barth
- Department of Biochemistry and Biophysics
- Arrhenius Laboratories
- Stockholm University
- SE-106 91 Stockholm, Sweden
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33
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Relating the variation of secondary structure of gelatin at fish oil–water interface to adsorption kinetics, dynamic interfacial tension and emulsion stability. Food Chem 2014; 143:484-91. [DOI: 10.1016/j.foodchem.2013.07.130] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2013] [Revised: 07/08/2013] [Accepted: 07/29/2013] [Indexed: 11/22/2022]
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34
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Soares S, Fonte P, Costa A, Andrade J, Seabra V, Ferreira D, Reis S, Sarmento B. Effect of freeze-drying, cryoprotectants and storage conditions on the stability of secondary structure of insulin-loaded solid lipid nanoparticles. Int J Pharm 2013; 456:370-81. [DOI: 10.1016/j.ijpharm.2013.08.076] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2013] [Revised: 08/27/2013] [Accepted: 08/28/2013] [Indexed: 12/31/2022]
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35
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Zanetti-Polzi L, Aschi M, Amadei A, Daidone I. Simulation of the Amide I Infrared Spectrum in Photoinduced Peptide Folding/Unfolding Transitions. J Phys Chem B 2013; 117:12383-90. [DOI: 10.1021/jp406708p] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Affiliation(s)
- Laura Zanetti-Polzi
- Dipartimento
di Scienze Fisiche e Chimiche, University of L’Aquila, via
Vetoio (Coppito 1), 67010 Coppito (AQ), Italy
- Center
S3, Institute of Nanoscience - CNR, Via Campi 213/A, 41125 Modena, Italy
| | - Massimiliano Aschi
- Dipartimento
di Scienze Fisiche e Chimiche, University of L’Aquila, via
Vetoio (Coppito 1), 67010 Coppito (AQ), Italy
| | - Andrea Amadei
- Dipartimento
di Scienze e Tecnologie Chimiche, University of Rome ”Tor Vergata”, via della Ricerca Scientifica 1, 00133 Rome, Italy
| | - Isabella Daidone
- Dipartimento
di Scienze Fisiche e Chimiche, University of L’Aquila, via
Vetoio (Coppito 1), 67010 Coppito (AQ), Italy
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Wang J, Su Y, Jia F, Jin H. Characterization of casein hydrolysates derived from enzymatic hydrolysis. Chem Cent J 2013; 7:62. [PMID: 23556455 PMCID: PMC3626679 DOI: 10.1186/1752-153x-7-62] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2013] [Accepted: 04/01/2013] [Indexed: 11/24/2022] Open
Abstract
Background Casein is the main proteinaceous component of milk and has made us interest due to its wide applications in the food, drug, and cosmetic industries as well as to its importance as an investigation material for elucidating essential questions regarding the protein chemistry. Enzymatic hydrolysis is an important method commonly used in the modification of protein structure in order to enhance the functional properties of proteins. The relationship between enzymatic hydrolysis and structure change of casein need to make more study. Results During hydrolysis, degree of hydrolysis in the casein hydrolysates increased rapidly in the initial 20 minutes, reached a plateau after 45 minutes, and then kept relative constant for the rest of the hydrolysis. The relative percentage of the released peptides with molecular weight of over 50 kD significantly decreased with hydrolyzation, while those with MW of 30–50 kD and below 20 kD increased significantly. The contents of a-helix and β-turn in the hydrolysates increased compared to the original casein. Moreover, the molecular flexibilities of the casein hydrolysates, estimated by the ratio of α-helix to β-structure, were lower than that of original casein protein. Conclusions The significant changes in molecular weight distribution and structure characteristics of casein hydrolysates were found compared to the control sample. This change should be the basis of enhancement of functional properties.
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Affiliation(s)
- Jinshui Wang
- College of Biological Engineering, Henan University of Technology, Zhengzhou, 450001, People's Republic of China.
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37
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Overestimated accuracy of circular dichroism in determining protein secondary structure. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2013; 42:455-61. [PMID: 23467783 DOI: 10.1007/s00249-013-0896-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2012] [Revised: 01/22/2013] [Accepted: 02/19/2013] [Indexed: 10/27/2022]
Abstract
Circular dichroism (CD) is a spectroscopic technique widely used for estimating protein secondary structures in aqueous solution, but its accuracy has been doubted in recent work. In the present paper, the contents of nine globular proteins with known secondary structures were determined by CD spectroscopy and Fourier transform infrared spectroscopy (FTIR) in aqueous solution. A large deviation was found between the CD spectra and X-ray data, even when the experimental conditions were optimized. The content determined by FTIR was in good agreement with the X-ray crystallography data. Therefore, CD spectra are not recommended for directly calculating the content of a protein's secondary structure.
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Majzner K, Wrobel TP, Fedorowicz A, Chlopicki S, Baranska M. Secondary structure of proteins analyzed ex vivo in vascular wall in diabetic animals using FT-IR spectroscopy. Analyst 2013; 138:7400-10. [DOI: 10.1039/c3an00455d] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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39
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Müller M, Werner C, Grundke K, Eichhorn KJ, Jacobasch HJ. Spectroscopic and thermodynamic characterization of the adsorption of plasma proteins onto cellulosic substrates. ACTA ACUST UNITED AC 2011. [DOI: 10.1002/masy.19961030108] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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40
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Joly D, Govindachary S, Fragata M. Photosystem II reconstitution into proteoliposomes and methodologies for structure-function characterization. Methods Mol Biol 2011; 684:217-45. [PMID: 20960133 DOI: 10.1007/978-1-60761-925-3_18] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
This chapter discusses the photosystem II (PSII) reconstitution into proteoliposomes. In the first part of the chapter, protocols are outlined for the preparation of lipid bilayer vesicles (liposomes) constituted of individual thylakoid lipids or their mixtures, for the preparation of PSII particles, and for the incorporation of the PSII particles into the liposomes. In the second part of the chapter, methodologies are described for the structure-function characterization of the PSII-lipid complexes (proteoliposomes). This includes the sodium dodecylsulfate-polyacrylamide gel electrophoresis determination of the PSII proteins, the measurement of oxygen-evolving activity of PSII in the proteoliposomes, the study of structural changes of the PSII proteins upon their incorporation into the lipid bilayers by Fourier transform infrared (FT-IR) spectroscopy, and the characterization of the PSII activity by fluorescence induction.
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Affiliation(s)
- David Joly
- Département de chimie biologie (GRBV), Université du Québec à Trois-Rivières, Trois-Rivières, QC, Canada
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41
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Characterization of protein in old myocardial infarction by FTIR micro-spectroscopy. ACTA ACUST UNITED AC 2010; 30:546-50. [DOI: 10.1007/s11596-010-0466-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2010] [Indexed: 11/25/2022]
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42
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Vonhoff S, Condliffe J, Schiffter H. Implementation of an FTIR calibration curve for fast and objective determination of changes in protein secondary structure during formulation development. J Pharm Biomed Anal 2010; 51:39-45. [DOI: 10.1016/j.jpba.2009.07.031] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2009] [Revised: 07/22/2009] [Accepted: 07/27/2009] [Indexed: 11/29/2022]
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43
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Yuno-Ohta N, Yamada M, Inomata M, Konagai H, Kataoka T. Gluten Gel and Film Properties in the Presence of Cysteine and Sodium Alginate. J Food Sci 2009; 74:E285-90. [DOI: 10.1111/j.1750-3841.2009.01197.x] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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44
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Shariati-Rad M, Hasani M. Application of multivariate curve resolution-alternating least squares (MCR-ALS) for secondary structure resolving of proteins. Biochimie 2009; 91:850-6. [DOI: 10.1016/j.biochi.2009.04.005] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2009] [Accepted: 04/09/2009] [Indexed: 10/20/2022]
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45
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Goormaghtigh E, Gasper R, Bénard A, Goldsztein A, Raussens V. Protein secondary structure content in solution, films and tissues: redundancy and complementarity of the information content in circular dichroism, transmission and ATR FTIR spectra. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2009; 1794:1332-43. [PMID: 19540367 DOI: 10.1016/j.bbapap.2009.06.007] [Citation(s) in RCA: 84] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2009] [Revised: 05/25/2009] [Accepted: 06/03/2009] [Indexed: 11/27/2022]
Abstract
The paper presents a simple and robust method to determine protein secondary structure from circular dichroism, transmission and attenuated total reflection (ATR) Fourier transform infrared spectra. It is found that the different spectroscopic methods bring valuable but roughly identical information on the secondary structure of proteins. ATR and transmission FTIR spectra display distinct differences, yet the secondary structure can be predicted from their spectra with roughly the same success. It is also found that one wavenumber or wavelength includes the large majority of the information correlated with secondary structure content and no more than 3 significant independent wavenumbers/wavelengths could be found for any of the spectroscopic data. This finding indicates that more complex linear combinations of the absorbance or ellipticities will not further improve secondary structure predictions. Furthermore, the information content in CD, transmission and ATR FTIR spectra is largely redundant. If combining CD and FTIR results in some improvement of structure prediction quality, the improvement is too modest to prompt spectroscopists to collect different spectroscopic data for structure prediction purposes. On the other hand, the data collected show that the quality of the FTIR spectrometers is such that biosensors or imaging methods sampling from 10(-9) to 10(-15) g yield spectra of sufficient quality to analyze protein secondary structure. These new techniques open the way to a new area of research, both in protein conformational response to ligand and imaging at sub-cellular scales.
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Affiliation(s)
- Erik Goormaghtigh
- Center for Structural Biology and Bioinformatics, Laboratory for the Structure and Function of Biological Membranes, Campus Plaine CP206/02; Université Libre de Bruxelles, Bld du Triomphe 2, CP206/2, B1050 Brussels, Belgium.
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46
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Secondary structure of food proteins by Fourier transform spectroscopy in the mid-infrared region. Amino Acids 2009; 38:679-90. [PMID: 19350368 DOI: 10.1007/s00726-009-0274-3] [Citation(s) in RCA: 285] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2008] [Accepted: 03/11/2009] [Indexed: 10/20/2022]
Abstract
Fourier transform spectroscopy in the mid-infrared (400-5,000 cm(-1)) (FT-IR) is being recognized as a powerful tool for analyzing chemical composition of food, with special concern to molecular architecture of food proteins. Unlike other spectroscopic techniques, it provides high-quality spectra with very small amount of protein, in various environments irrespective of the molecular mass. The fraction of peptide bonds in alpha-helical, beta-pleated sheet, turns and aperiodic conformations can be accurately estimated by analysis of the amide I band (1,600-1,700 cm(-1)) in the mid-IR region. In addition, FT-IR measurement of secondary structure highlights the mechanism of protein aggregation and stability, making this technique of strategic importance in the food proteomic field. Examples of applications of FT-IR spectroscopy in the study of structural features of food proteins critical of nutritional and technological performance are discussed.
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47
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Hierarchical band-target entropy minimization curve resolution and Pearson VII curve-fitting analysis of cellular protein infrared imaging spectra. Anal Biochem 2009; 387:42-53. [DOI: 10.1016/j.ab.2008.12.026] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2008] [Revised: 12/04/2008] [Accepted: 12/14/2008] [Indexed: 11/24/2022]
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48
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Sivaraman B, Fears KP, Latour RA. Investigation of the effects of surface chemistry and solution concentration on the conformation of adsorbed proteins using an improved circular dichroism method. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2009; 25:3050-6. [PMID: 19437712 PMCID: PMC2891683 DOI: 10.1021/la8036814] [Citation(s) in RCA: 105] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
In this paper we present the development of methods using circular dichroism spectropolarimetry with a custom-designed cuvette to increase the signal-to-noise ratio for the measurement of the secondary structure of adsorbed proteins, thus providing enhanced sensitivity and reproducibility. These methods were then applied to investigate how surface chemistry and solution concentration influence both the amount of adsorbed proteins and their secondary structure. Human fibrinogen and albumin were adsorbed onto alkanethiol self-assembled monolayers (SAMs) on gold with CH3, OCH2-CF3, NH2, COOH, and OH terminal groups from both dilute (0.1 mg/mL) and moderately concentrated (1.0 mg/mL) solutions. An increase in surface hydrophobicity was found to cause an increase in both the amount of the protein adsorbed and the degree of structural change that was caused by the adsorption process, while an increase in solution concentration caused an increase in the amount of protein adsorbed but a decrease in the degree of conformational change, with these effects being more pronounced on the more hydrophobic surfaces. The combined use of these two parameters (i.e., surface chemistry and solution concentration) thus provides ameans of independently varying the degree of structural change following adsorption from the amount of adsorbed protein. Further studies are underway to examine which of these factors most strongly influences platelet response, with the overall goal of developing a better understanding of the fundamental factors governing the hemocompatibility of biomaterial surfaces.
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Wang Y, Boysen RI, Wood BR, Kansiz M, McNaughton D, Hearn MTW. Determination of the secondary structure of proteins in different environments by FTIR-ATR spectroscopy and PLS regression. Biopolymers 2008; 89:895-905. [DOI: 10.1002/bip.21022] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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50
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Toyran N, Severcan F, Severcan M, Turan B. Effects of selenium supplementation on rat heart apex and right ventricle myocardia by using FTIR spectroscopy: A cluster analysis and neural network approach. Food Chem 2008. [DOI: 10.1016/j.foodchem.2008.02.044] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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