1
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Jun T, Shin SH, Won YY. Engineered polymeric excipients for enhancing the stability of protein biologics: Poly(N-isopropylacrylamide)-poly(ethylene glycol) (PNIPAM-PEG) block copolymers. Int J Pharm 2024; 664:124636. [PMID: 39197798 DOI: 10.1016/j.ijpharm.2024.124636] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2024] [Revised: 07/24/2024] [Accepted: 08/22/2024] [Indexed: 09/01/2024]
Abstract
Protein therapeutics, particularly antibodies, depend on maintaining their native structures for optimal function. Hydrophobic interfaces, such as the air-water interface, can trigger protein aggregation and denaturation. While completely avoiding such interfacial exposures during manufacturing and storage is impractical, minimizing them is crucial for enhancing protein drug stability and extending shelf life. In the biologics industry, surfactants like polysorbates are commonly used as additives (excipients) to mitigate these undesirable interfacial exposures. However, polysorbates, the most prevalent choice, have recognized limitations in terms of polydispersity, purity, and stability, prompting the exploration of alternative excipients. The present study identifies poly(N-isopropylacrylamide)-poly(ethylene glycol) (PNIPAM-PEG) block copolymers as a promising alternative to polysorbates. Due to its stronger affinity for the air-water interface, PNIPAM-PEG significantly outperforms polysorbates in enhancing protein stability. This claim is supported by results from multiple tests. Accelerated dynamic light scattering (DLS) experiments demonstrate PNIPAM-PEG's exceptional efficacy in preserving IgG stability against surface-induced aggregation, surpassing conventional polysorbate excipients (Tween 80 and Tween 20) under high-temperature conditions. Additionally, circular dichroism (CD) spectroscopy results reveal conformational alterations associated with aggregation, with PNIPAM-PEG consistently demonstrates a greater protective effect by mitigating negative shifts at λ ≅ 220 nm, indicative of changes in secondary structure. Overall, this study positions PNIPAM-PEG as a promising excipient for antibody therapeutics, facilitating the development of more stable and effective biopharmaceuticals.
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Affiliation(s)
- Taesuk Jun
- Davidson School of Chemical Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - Sung-Ho Shin
- Davidson School of Chemical Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - You-Yeon Won
- Davidson School of Chemical Engineering, Purdue University, West Lafayette, IN 47907, USA; Purdue University Institute for Cancer Research, West Lafayette, IN 47907, USA.
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2
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Krishnamoorthy R, Adhikari P, Anaikutti P. Design, synthesis, and characterization of non-hemolytic antimicrobial peptides related to human cathelicidin LL-37. RSC Adv 2023; 13:15594-15605. [PMID: 37228679 PMCID: PMC10204126 DOI: 10.1039/d3ra02473c] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Accepted: 05/08/2023] [Indexed: 05/27/2023] Open
Abstract
We designed and synthesised the N-terminally labeled cationic and hydrophobic peptides, i.e., FFKKSKEKIGKEFKKIVQKI (P1) and FRRSRERIGREFRRIVQRI (P2) related to the human cathelicidin LL-37 peptide. The integrity and molecular weight of the peptides were confirmed by mass spectrometry. The purity and homogeneity of peptides P1 and P2 were determined by comparing LCMS or analytical HPLC chromatograms. The circular dichroism spectroscopy reveals the conformational transitions upon interaction with membranes. Predictably, peptides P1 and P2 showed a random coil structure in the buffer and formed α-helix secondary structure in TFE and SDS micelles. This assessment was further confirmed by 2D NMR spectroscopic methods. The analytical HPLC binding assay measurements revealed that peptides P1 and P2 display preferential interactions with the anionic lipid bilayer (POPC:POPG) moderately than zwitterionic (POPC). The efficacies of the peptides were tested against Gram-positive and Gram-negative bacteria. It is imperative to note here that the arginine-rich P2 exerted higher activity against all the test organisms as compared with that shown by the lysine-rich peptide P1. To test the toxicity of these peptides, a hemolytic assay was performed. P1 and P2 showed very little to no toxicity for a hemolytic assay, which is significant for P1 and P2 to be used as potential therapeutic agents in practical applications. Both peptides P1 and P2 were non-hemolytic and appeared to be more promising as they demonstrated wide-spectrum antimicrobial activity.
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Affiliation(s)
- Rajavenkatesh Krishnamoorthy
- Organic and Bioorganic Chemistry Laboratory, CSIR-CLRI Adyar Chennai-600020 Tamil Nadu India
- Department of Chemistry, Sethu Institute of Technology Kariapatti Virudunagar-626115 Tamil Nadu India
| | - Priyanka Adhikari
- Centre for GMP Extraction Facility (Dept. of Biotechnology), National Institute of Pharmaceutical Education and Research Guwahati-781101 Assam India
| | - Parthiban Anaikutti
- Centre for GMP Extraction Facility (Dept. of Biotechnology), National Institute of Pharmaceutical Education and Research Guwahati-781101 Assam India
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3
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Oba M, Shibuya M, Yamaberi Y, Yokoo H, Uchida S, Ueda A, Tanaka M. An Amphipathic Structure of a Dipropylglycine-Containing Helical Peptide with Sufficient Length Enables Safe and Effective Intracellular siRNA Delivery. Chem Pharm Bull (Tokyo) 2023; 71:250-256. [PMID: 36858531 DOI: 10.1248/cpb.c22-00852] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/03/2023]
Abstract
Amphipathic peptides composed of cationic amino acids and hydrophobic amino acids have cell-penetrating ability and are often used as a delivery tool for membrane-impermeable compounds. Small interfering RNA (siRNAs) are one of the delivery targets for such cell-penetrating peptides (CPPs). Cationic CPPs can associate with anionic siRNAs by electrostatic interactions resulting in the formation of nano-sized complexes, which can deliver siRNAs intracellularly. CPPs containing unnatural amino acids offer promising tools to siRNA delivery. However, the detailed structure-activity relationship in siRNA delivery has been rarely studied. In the current study, we designed peptides containing dipropylglycine (Dpg) and explored the cellular uptake and cytotoxicity of peptide/siRNA complexes. The amphipathic structure of the peptides played a key role in complexation with siRNAs and intracellular siRNA delivery. In the amphipathic peptides, cellular uptake of siRNA increased with increasing peptide length, but cytotoxicity was reduced. A peptide containing four Dpg exhibited an effective gene-silencing effect with small amounts of peptides without cytotoxicity in medium containing serum. These findings will be helpful for the design of novel CPPs for siRNA delivery.
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Affiliation(s)
- Makoto Oba
- Graduate School of Medical Science, Kyoto Prefectural University of Medicine
| | - Mika Shibuya
- Graduate School of Biomedical Sciences, Nagasaki University
| | - Yuto Yamaberi
- Graduate School of Biomedical Sciences, Nagasaki University
| | - Hidetomo Yokoo
- Graduate School of Medical Science, Kyoto Prefectural University of Medicine
| | - Satoshi Uchida
- Graduate School of Medical Science, Kyoto Prefectural University of Medicine
| | - Atsushi Ueda
- Graduate School of Biomedical Sciences, Nagasaki University
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4
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Liang S, Wu XL, Zong MH, Lou WY. Construction of Zn-heptapeptide bionanozymes with intrinsic hydrolase-like activity for degradation of di(2-ethylhexyl) phthalate. J Colloid Interface Sci 2022; 622:860-870. [PMID: 35561606 DOI: 10.1016/j.jcis.2022.04.122] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2022] [Revised: 04/20/2022] [Accepted: 04/21/2022] [Indexed: 11/28/2022]
Abstract
Nanozyme with intrinsic enzyme-like activity has emerged as favorite artificial catalyst during recent years. However, current nanozymes are mainly limited to inorganic-derived nanomaterials, while biomolecule-sourced nanozyme (bionanozyme) are rarely reported. Herein, inspired by the basic structure of natural hydrolase family, we constructed 3 oligopeptide-based bionanozymes with intrinsic hydrolase-like activity by implementing zinc induced self-assembly of histidine-rich heptapeptides. Under mild condition, divalent zinc (Zn2+) impelled the spontaneous assembly of short peptides (i.e. Ac-IHIHIQI-CONH2, Ac-IHIHIYI-CONH2, and Ac-IHVHLQI-CONH2), forming hydrolase-mimicking bionanozymes with β-sheet secondary conformation and nanofibrous architecture. As expected, the resultant bionanozymes were able to hydrolyze a serious of p-nitrophenyl esters, including not only the simple substrate with short side-chain (p-NPA), but also more complicated ones (p-NPB, p-NPH, p-NPO, and p-NPS). Moreover, the self-assembled Zn-heptapeptide bionanozymes were also proven to be capable of degrading di(2-ethylhexyl) phthalate (DEHP), a typical plasticizer, showing great potential for environmental remediation. Based on this study, we aim to provide theoretical references and exemplify a specific case for directing the construction and application of bionanozyme.
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Affiliation(s)
- Shan Liang
- Laboratory of Applied Biocatalysis, School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China
| | - Xiao-Ling Wu
- Laboratory of Applied Biocatalysis, School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China
| | - Min-Hua Zong
- Laboratory of Applied Biocatalysis, School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China
| | - Wen-Yong Lou
- Laboratory of Applied Biocatalysis, School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China; Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety, South China University of Technology, Guangzhou 510640, China.
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5
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Shiratori T, Goto S, Sakaguchi T, Kasai T, Otsuka Y, Higashi K, Makino K, Takahashi H, Komatsu K. Singular value decomposition analysis of the secondary structure features contributing to the circular dichroism spectra of model proteins. Biochem Biophys Rep 2021; 28:101153. [PMID: 34712848 PMCID: PMC8528683 DOI: 10.1016/j.bbrep.2021.101153] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Revised: 10/11/2021] [Accepted: 10/12/2021] [Indexed: 12/11/2022] Open
Abstract
Amyloid fibril formation occurs in restricted environment, such as the interface between intercellular fluids and bio-membranes. Conformational interconversion from α-helix to β-structure does not progress in fluids; however, it can occur after sedimentary aggregation during amyloid fibril formation induced by heat treatment of hen egg white lysozyme (HEWL). Secondary structures of various proteins and denatured proteins titrated with 2,2,2-trifluoroethanol (TFE) were examined using their CD spectra. Gaussian peak/trough and singular value decompositions (SVD) showed that the spectral pattern of the α-helix comprised a sharp trough at wavelength 207 nm and a broad trough at 220 nm. Conversely, we distinguished two patterns for β-sheet-a spread barrel type, corresponding to ConA, and a tightly weaved type, corresponding to the soybean trypsin inhibitor. Herein, we confirmed that the spectral/conformational interconversion of the heat-treated HEWL was not observed in the dissolved fluid.
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Affiliation(s)
- Tomoki Shiratori
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Satoru Goto
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Tomoyo Sakaguchi
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Takahiro Kasai
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Yuta Otsuka
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Kyohei Higashi
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Kosho Makino
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Hideyo Takahashi
- Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba, 278-8510, Japan
| | - Kazushi Komatsu
- Department of Mathematics, Faculty of Science, Kochi University, 2-5-1 Akebonocho, Kochi, 780-8520, Japan
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6
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Fei X, Zhang Y, Mei Y, Yue X, Jiang W, Ai L, Yu Y, Luo H, Li H, Luo W, Yang X, Lyv J, He R, Song W, Tong Z. Degradation of FA reduces Aβ neurotoxicity and Alzheimer-related phenotypes. Mol Psychiatry 2021; 26:5578-5591. [PMID: 33328587 DOI: 10.1038/s41380-020-00929-7] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Revised: 09/30/2020] [Accepted: 10/21/2020] [Indexed: 02/05/2023]
Abstract
Dysregulation of formaldehyde (FA) has been implicated in the development of Alzheimer's Disease (AD). Elevated FA levels in Alzheimer's patients and animal models are associated with impaired cognitive functions. However, the exact role of FA in AD remains unknown. We now identified that oxidative demethylation at serine8/26 of amyloid-beta protein (Aβ) induced FA generation and FA cross-linked with the lysine28 residue in the β-turn of Aβ monomer to form Aβ dimers, and then accelerated Aβ oligomerization and fibrillogenesis in vitro. However, Aβ42 mutation in serine8/26, lysine28 abolished Aβ self-aggregation. Furthermore, Aβ inhibited the activity of formaldehyde dehydrogenase (FDH), the enzyme for FA degradation, resulting in FA accumulation. In turn, excess of FA stimulated Aβ aggregation both in vitro and in vivo by increasing the formation of Aβ oligomers and fibrils. We found that degradation of FA by formaldehyde scavenger-NaHSO3 or coenzyme Q10 reduced Aβ aggregation and ameliorated the neurotoxicity, and improved the cognitive performance in APP/PS1 mice. Our study provides evidence that endogenous FA is essential for Aβ self-aggregation and scavenging FA could be an effective strategy for treating AD.
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Affiliation(s)
- Xuechao Fei
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
| | - Yun Zhang
- Advanced Innovation Center for Human Brain Protection, National Clinical Research Center for Geriatric Disorders, Xuanwu Hospital, Capital Medical University, 100053, Beijing, China
- Townsend Family Laboratories, Department of Psychiatry, The University of British Columbia, 2255 Wesbrook Mall, Vancouver, BC, V6T 1Z3, Canada
| | - Yufei Mei
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
- School of Basic Medical Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Xiangpei Yue
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
| | - Wenjing Jiang
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
- Center for Cognitive Disorders, Beijing Geriatric Hospital, 100095, Beijing, China
| | - Li Ai
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
| | - Yan Yu
- Chinese institute of Rehabilitation Science, China Rehabilitation Research Center, Beijing Key Laboratory of Neural Injury and Rehabilitation, 100068, Beijing, China
| | - Hongjun Luo
- Central Laboratory, Shantou University Medical College, Guangdong, 515041, China
| | - Hui Li
- Central Laboratory, Shantou University Medical College, Guangdong, 515041, China
| | - Wenhong Luo
- Central Laboratory, Shantou University Medical College, Guangdong, 515041, China
| | - Xu Yang
- Section of Environmental Biomedicine, Hubei Key Laboratory of Genetic Regulation and Integrative Biology, College of Life Sciences, Central China Normal University, Wuhan, 430079, China
| | - Jihui Lyv
- Center for Cognitive Disorders, Beijing Geriatric Hospital, 100095, Beijing, China
| | - Rongqiao He
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China
- State Key Lab of Brain and Cognitive Science and Key Lab of Mental Health, IBP, UCAS, Beijing, China
| | - Weihong Song
- Advanced Innovation Center for Human Brain Protection, National Clinical Research Center for Geriatric Disorders, Xuanwu Hospital, Capital Medical University, 100053, Beijing, China.
- Townsend Family Laboratories, Department of Psychiatry, The University of British Columbia, 2255 Wesbrook Mall, Vancouver, BC, V6T 1Z3, Canada.
| | - Zhiqian Tong
- Alzheimer's disease Center, Beijing Institute of Brain Disorders, Laboratory of Brain Disorders, Ministry of Science and Technology, Collaborative Innovation Center for Brain Disorders, Capital Medical University, 100069, Beijing, China.
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7
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Komorek P, Jachimska B, Brand I. Adsorption of lysozyme on gold surfaces in the presence of an external electric potential. Bioelectrochemistry 2021; 142:107946. [PMID: 34507162 DOI: 10.1016/j.bioelechem.2021.107946] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Revised: 07/30/2021] [Accepted: 08/29/2021] [Indexed: 10/20/2022]
Abstract
Adsorbed protein films consist of essential building blocks of many biotechnological and biomedical devices. The electrostatic potential may significantly modulate the protein behaviour on surfaces, affecting their structure and biological activity. In this study, lysozyme was used to investigate the effects of applied electric potentials on adsorption and the protein structure. The pH and the surface charge determine the amount and secondary structure of adsorbed lysozyme on a gold surface. In-situ measurements using polarization modulation infrared reflection absorption spectroscopy indicated that the concentration of both the adsorbed anions and the lysozyme led to conformational changes in the protein film, which was demonstrated by a greater amount of aggregated β-sheets in films fabricated at net positive charges of the Au electrode (Eads > Epzc). The changes in secondary structure involved two parallel processes. One comprised changes in the hydration/hydrogen-bond network at helices, leading to diverse helical structures: α-, 310- and/or π-helices. In the second process β-turns, β-sheets, and random coils displayed an ability to form aggregated β-sheet structures. The study illuminates the understanding of electrical potential-dependent changes involved in the protein misfolding process.
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Affiliation(s)
- Paulina Komorek
- Jerzy Haber Institute of Catalysis and Surface Chemistry Polish Academy of Sciences, Niezapominajek 8, 30-239 Cracow, Poland
| | - Barbara Jachimska
- Jerzy Haber Institute of Catalysis and Surface Chemistry Polish Academy of Sciences, Niezapominajek 8, 30-239 Cracow, Poland.
| | - Izabella Brand
- Department of Chemistry, University of Oldenburg, 26111 Oldenburg, Germany.
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8
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Xu L, Hou H, Farkas B, Keener KM, Garner AL, Tao B. High voltage atmospheric cold plasma modification of bovine serum albumin. Lebensm Wiss Technol 2021. [DOI: 10.1016/j.lwt.2021.111995] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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9
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Fuchigami T, Chiga T, Yoshida S, Oba M, Fukushima Y, Inoue H, Matsuura A, Toriba A, Nakayama M. Synthesis and Characterization of Radiogallium-Labeled Cationic Amphiphilic Peptides as Tumor Imaging Agents. Cancers (Basel) 2021; 13:cancers13102388. [PMID: 34069243 PMCID: PMC8155856 DOI: 10.3390/cancers13102388] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Revised: 05/08/2021] [Accepted: 05/10/2021] [Indexed: 11/16/2022] Open
Abstract
SVS-1 is a cationic amphiphilic peptide (CAP) that exhibits a preferential cytotoxicity towards cancer cells over normal cells. In this study, we developed radiogallium-labeled SVS-1 (67Ga-NOTA-KV6), as well as two SVS-1 derivatives, with the repeating KV residues replaced by RV or HV (67Ga-NOTA-RV6 and 67Ga-NOTA-HV6). All three peptides showed high accumulation in epidermoid carcinoma KB cells (53-143% uptake/mg protein). Though 67Ga-NOTA-RV6 showed the highest uptake among the three CAPs, its uptake in 3T3-L1 fibroblasts was just as high, indicating a low selectivity. In contrast, the uptake of 67Ga-NOTA-KV6 and 67Ga-NOTA-HV6 into 3T3-L1 cells was significantly lower than that in KB cells. An endocytosis inhibition study suggested that the three 67Ga-NOTA-CAPs follow distinct pathways for internalization. In the biodistribution study, the tumor uptakes were found to be 4.46%, 4.76%, and 3.18% injected dose/g of tissue (% ID/g) for 67Ga-NOTA-KV6, 67Ga-NOTA-RV6, and 67Ga-NOTA-HV6, respectively, 30 min after administration. Though the radioactivity of these peptides in tumor tissue decreased gradually, 67Ga-NOTA-KV6, 67Ga-NOTA-RV6, and 67Ga-NOTA-HV6 reached high tumor/blood ratios (7.7, 8.0, and 3.8, respectively) and tumor/muscle ratios (5.0, 3.3, and 4.0, respectively) 120 min after administration. 67Ga-NOTA-HV6 showed a lower tumor uptake than the two other tracers, but it exhibited very low levels of uptake into peripheral organs. Overall, the replacement of lysine in SVS-1 with other basic amino acids significantly influenced its binding and internalization into cancer cells, as well as its in vivo pharmacokinetic profile. The high accessibility of these peptides to tumors and their ability to target the surface membranes of cancer cells make radiolabeled CAPs excellent candidates for use in tumor theranostics.
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Affiliation(s)
- Takeshi Fuchigami
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
- Correspondence: (T.F.); (M.N.); Tel.: +81-95-819-2442 (T.F.)
| | - Takeshi Chiga
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Sakura Yoshida
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Makoto Oba
- Graduate School of Medical Science, Kyoto Prefectural University of Medicine, 1–5 Shimogamohangi-cho, Sakyo-ku, Kyoto 606-0823, Japan;
| | - Yu Fukushima
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Hiromi Inoue
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Akari Matsuura
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Akira Toriba
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
| | - Morio Nakayama
- Department of Hygienic Chemistry, Graduate School of Biomedical Sciences, Nagasaki University, 1–14 Bunkyo-machi, Nagasaki 852-8521, Japan; (T.C.); (S.Y.); (Y.F.); (H.I.); (A.M.); (A.T.)
- Correspondence: (T.F.); (M.N.); Tel.: +81-95-819-2442 (T.F.)
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10
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Wu KY, Yang TX, Li QY. The effects of pH and NaCl concentration on the structure of β-casein from buffalo milk. Food Sci Nutr 2021; 9:2436-2445. [PMID: 34026061 PMCID: PMC8121154 DOI: 10.1002/fsn3.2157] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Revised: 01/07/2021] [Accepted: 01/09/2021] [Indexed: 11/07/2022] Open
Abstract
In the present study, we aimed to investigate the effects of pH and sodium chloride (NaCl) concentration on the structure of β-casein (β-CN) purified from buffalo milk using circular dichroism (CD), intrinsic tryptophan, and anilino-8-naphthalene sulfonate (ANS) fluorescence spectroscopy. We found that NaCl concentration played a critical role in the stability of the secondary structure of β-CN. The CD negative peak had a redshift as the NaCl concentration was increased and accompanied by a decrease of β-sheet content and an increase of α-helix content. ANS fluorescence spectroscopy also indicated that higher NaCl concentration and lower pH significantly affected the tertiary structure of β-CN. Dynamic light scattering (DLS) results showed that the particle size of buffalo β-CN had a blueshift, and then a redshift within the pH range of 5.0-7.5, and it showed a redshift when the NaCl concentration was increased.
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Affiliation(s)
- Kong Yang Wu
- College of Life ScienceLuoyang Normal UniversityLuoyangChina
| | - Tong Xiang Yang
- College of Food and BioengineeringHenan University of Science and TechnologyLuoyangChina
| | - Quan Yang Li
- College of Light Industry and Food EngineeringGuangxi UniversityNanningChina
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11
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Li G, Eriani G, Wang ED, Zhou XL. Distinct pathogenic mechanisms of various RARS1 mutations in Pelizaeus-Merzbacher-like disease. SCIENCE CHINA-LIFE SCIENCES 2021; 64:1645-1660. [PMID: 33515434 DOI: 10.1007/s11427-020-1838-2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2020] [Accepted: 10/13/2020] [Indexed: 12/12/2022]
Abstract
Mutations of the genes encoding aminoacyl-tRNA synthetases are highly associated with various central nervous system disorders. Recurrent mutations, including c.5A>G, p.D2G; c.1367C>T, p.S456L; c.1535G>A, p.R512Q and c.1846_1847del, p. Y616Lfs*6 of RARS1 gene, which encodes two forms of human cytoplasmic arginyl-tRNA synthetase (hArgRS), are linked to Pelizaeus-Merzbacher-like disease (PMLD) with unclear pathogenesis. Among these mutations, c.5A>G is the most extensively reported mutation, leading to a p.D2G mutation in the N-terminal extension of the long-form hArgRS. Here, we showed the detrimental effects of R512Q substitution and ΔC mutations on the structure and function of hArgRS, while the most frequent mutation c.5A>G, p.D2G acted in a different manner without impairing hArgRS activity. The nucleotide substitution c.5A>G reduced translation of hArgRS mRNA, and an upstream open reading frame contributed to the suppressed translation of the downstream main ORF. Taken together, our results elucidated distinct pathogenic mechanisms of various RARS1 mutations in PMLD.
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Affiliation(s)
- Guang Li
- State Key Laboratory of Molecular Biology, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, 200031, China
| | - Gilbert Eriani
- Architecture et Réactivité de l'ARN, UPR9002 CNRS, Institut de Biologie Moléculaire et Cellulaire, Université de Strasbourg, 67084, Strasbourg, France
| | - En-Duo Wang
- State Key Laboratory of Molecular Biology, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, 200031, China. .,School of Life Science and Technology, ShanghaiTech University, Shanghai, 201210, China.
| | - Xiao-Long Zhou
- State Key Laboratory of Molecular Biology, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, 200031, China.
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12
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Koyama S, Nemoto Y, Ichikawa M, Oka D, Tsujii Y, Noguchi T, Takano K, Handa A. Effects of suppressing protein structural changes on the excellent gelling properties of dried egg white via dry-heat treatment. FOOD SCIENCE AND TECHNOLOGY RESEARCH 2021. [DOI: 10.3136/fstr.27.293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Shota Koyama
- Graduate School of Agriculture, Tokyo University of Agriculture
- Kewpie Research Division for Egg Innovation, Tokyo University of Agriculture
| | - Yuko Nemoto
- Graduate School of Agriculture, Tokyo University of Agriculture
| | | | - Daiki Oka
- Faculty of Applied Bioscience, Tokyo University of Agriculture
| | - Yoshimasa Tsujii
- Kewpie Research Division for Egg Innovation, Tokyo University of Agriculture
- Faculty of Applied Bioscience, Tokyo University of Agriculture
| | | | - Katsumi Takano
- Faculty of Applied Bioscience, Tokyo University of Agriculture
| | - Akihiro Handa
- Kewpie Research Division for Egg Innovation, Tokyo University of Agriculture
- R&D Division, Kewpie Corporation
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13
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Yu L, Fang W, He Y, Cai W, Wei W, Tian C. Secondary structure and transmembrane topology analysis of the N-terminal domain of the inner membrane protein EccE 1 from M. smegmatis using site-directed spin labeling EPR. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2020; 1863:183515. [PMID: 33245893 DOI: 10.1016/j.bbamem.2020.183515] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Revised: 10/29/2020] [Accepted: 11/20/2020] [Indexed: 10/22/2022]
Abstract
Protein EccE1 is an essential component of the mycobacterial ESX-1 secretion system, which plays a crucial part in the process of virulence factors secretion, especially for pathogenic mycobacteria such as Mycobacterium tuberculosis. While EccE1 was previously postulated to be the inner membrane pore-forming unit of a membrane complex through which substrates are transported, the structural properties of EccE1 remains to be explored. In the present study, systematic Site-Directed Spin Labeling (SDSL) and Electron Paramagnetic Resonance (EPR) spectroscopic studies was carried out to reveal the secondary structure and transmembrane topology of the N-terminal Domain of EccE1 protein (EccE1-NTD) from M. smegmatis in detergent micelles. EPR-based mobility and accessibility analysis of the R1 side chain for 64 residue positions of EccE1-NTD indicates that the transmembrane domain adopts two α-helices spanning Phe7-Cys30 and Leu36-Ile54. A tentative structural topology model of EccE1-NTD embedded in membrane is also suggested based on EPR spectroscopic data in this study, which will provide further insights into this protein and the ESX secretion systems of mycobacteria.
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Affiliation(s)
- Lu Yu
- High Magnetic Field Laboratory, Chinese Academy of Science, Hefei, Anhui 230031, China.
| | - Wei Fang
- Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Yao He
- Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Wenguang Cai
- School of Life Sciences, Anhui University, 111 Jiulong Road, Hefei, Anhui 230601, China
| | - Wei Wei
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Changlin Tian
- High Magnetic Field Laboratory, Chinese Academy of Science, Hefei, Anhui 230031, China; Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230026, China.
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14
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Peak Fitting Applied to Fourier Transform Infrared and Raman Spectroscopic Analysis of Proteins. APPLIED SCIENCES-BASEL 2020. [DOI: 10.3390/app10175918] [Citation(s) in RCA: 148] [Impact Index Per Article: 37.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
FTIR and Raman spectroscopy are often used to investigate the secondary structure of proteins. Focus is then often laid on the different features that can be distinguished in the Amide I band (1600–1700 cm−1) and, to a lesser extent, the Amide II band (1510–1580 cm−1), signature regions for C=O stretching/N-H bending, and N-H bending/C-N stretching vibrations, respectively. Proper investigation of all hidden and overlapping features/peaks is a necessary step to achieve reliable analysis of FTIR and FT-Raman spectra of proteins. This paper discusses a method to identify, separate, and quantify the hidden peaks in the amide I band region of infrared and Raman spectra of four globular proteins in aqueous solution as well as hydrated zein and gluten proteins. The globular proteins studied, which differ widely in terms of their secondary structures, include immunoglobulin G, concanavalin A, lysozyme, and trypsin. Peak finding was done by analysis of the second derivative of the original spectra. Peak separation and quantification was achieved by curve fitting using the Voigt function. Structural data derived from the FT-Raman and FTIR analyses were compared to literature reports on protein structure. This manuscript proposes an accurate method to analyze protein secondary structure based on the amide I band in vibrational spectra.
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15
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siRNA delivery using amphipathic cell-penetrating peptides into human hepatoma cells. Bioorg Med Chem 2020; 28:115402. [PMID: 32146061 DOI: 10.1016/j.bmc.2020.115402] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2019] [Revised: 02/18/2020] [Accepted: 02/21/2020] [Indexed: 11/21/2022]
Abstract
Cell-penetrating peptides (CPPs) are an attractive tool for delivering membrane-impermeable compounds, including anionic biomacromolecules such as DNA and RNA, into living cells. Amphipathic helical peptides composed of hydrophobic amino acids and cationic amino acids are typical CPPs. In the current study, we designed amphipathic helical 12-mer peptides containing α,α-disubstituted α-amino acids (dAAs), which are known to stabilize peptide secondary structures. The dominant secondary structures of peptides in aqueous solution differed according to the introduced dAAs. Peptides containing hydrophobic dAAs and adopting a helical structure exhibited a good cell-penetrating ability. As an application of amphipathic helical peptides, small interfering RNA (siRNA) delivery into living human hepatoma cells was investigated. One of the peptides containing dAAs dipropylglycine formed stable complexes with siRNA at appropriate zeta-potential and size for intracellular siRNA delivery. This peptide showed effective RNA interference efficiency at short peptide length and low concentrations of peptide and siRNA. These findings will be helpful for the design of amphipathic helical CPPs as intracellular siRNA delivery.
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16
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Migliore M, Bonvicini A, Tognetti V, Guilhaudis L, Baaden M, Oulyadi H, Joubert L, Ségalas-Milazzo I. Characterization of β-turns by electronic circular dichroism spectroscopy: a coupled molecular dynamics and time-dependent density functional theory computational study. Phys Chem Chem Phys 2020; 22:1611-1623. [PMID: 31894790 DOI: 10.1039/c9cp05776e] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Electronic circular dichroism is one of the most used spectroscopic techniques for peptide and protein structural characterization. However, while valuable experimental spectra exist for α-helix, β-sheet and random coil secondary structures, previous studies showed important discrepancies for β-turns, limiting their use as a reference for structural studies. In this paper, we simulated circular dichroism spectra for the best-characterized β-turns in peptides, namely types I, II, I' and II'. In particular, by combining classical molecular dynamics simulations and state-of-the-art quantum time-dependent density functional theory (with the polarizable embedding multiscale model) computations, two common electronic circular dichroism patterns were found for couples of β-turn types (namely, type I/type II' and type II/type I'), at first for a minimal di-peptide model (Ace-Ala-Ala-NHMe), but also for all sequences tested with non-aromatic residues in the central positions. On the other hand, as expected, aromatic substitution causes important perturbations to the previously found ECD patterns. Finally, by applying suitable approximations, these patterns were subsequently rationalized based on the exciton chirality rule. All these results provide useful predictions and pave the way for a possible experimental characterization of β-turns based on circular dichroism spectroscopy.
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Affiliation(s)
- Mattia Migliore
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Andrea Bonvicini
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Vincent Tognetti
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Laure Guilhaudis
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Marc Baaden
- Laboratoire de Biochimie Théorique, CNRS, UPR9080, Univ. Paris Diderot, Sorbonne Paris Cité, PSL Research University, 13 rue Pierre et Marie Curie, 75005 Paris, France
| | - Hassan Oulyadi
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Laurent Joubert
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
| | - Isabelle Ségalas-Milazzo
- Normandy Univ., COBRA UMR 6014 & FR 3038, Université de Rouen, INSA Rouen, CNRS, 1 rue Tesnière, 76821 Mont St Aignan, Cedex, France.
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17
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Zhang J, An X, Zheng Y, Chen Y, Wu C, Wang S. Injectable Ovalbumin‐Based Composite Implant for Photothermal Tumor Therapy. Chembiochem 2019; 21:865-873. [DOI: 10.1002/cbic.201900556] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2019] [Indexed: 12/16/2022]
Affiliation(s)
- Jing Zhang
- College of ScienceUniversity of Shanghai for Science and Technology No. 334 Jungong Road Shanghai 200093 P. R. China
| | - Xiao An
- Shanghai General HospitalShanghai Jiao Tong University School of Medicine No. 100 Haining Road Shanghai 200080 P. R. China
| | - Yuting Zheng
- College of ScienceUniversity of Shanghai for Science and Technology No. 334 Jungong Road Shanghai 200093 P. R. China
| | - Yongkang Chen
- College of ScienceUniversity of Shanghai for Science and Technology No. 334 Jungong Road Shanghai 200093 P. R. China
| | - Chenyao Wu
- College of ScienceUniversity of Shanghai for Science and Technology No. 334 Jungong Road Shanghai 200093 P. R. China
| | - Shige Wang
- College of ScienceUniversity of Shanghai for Science and Technology No. 334 Jungong Road Shanghai 200093 P. R. China
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18
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Oba M, Ito Y, Umeno T, Kato T, Tanaka M. Plasmid DNA Delivery Using Cell-Penetrating Peptide Foldamers Composed of Arg–Arg–Aib Repeating Sequences. ACS Biomater Sci Eng 2019; 5:5660-5668. [DOI: 10.1021/acsbiomaterials.8b01451] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Makoto Oba
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Yurika Ito
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Tomohiro Umeno
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Takuma Kato
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
- Osaka University of Pharmaceutical Sciences, 40-20-1 Nasahara, Takatsuki, Osaka 569-1094, Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
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19
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Structure of amyloid β 25-35 in lipid environment and cholesterol-dependent membrane pore formation. Sci Rep 2019; 9:2689. [PMID: 30804528 PMCID: PMC6389947 DOI: 10.1038/s41598-019-38749-7] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Accepted: 01/08/2019] [Indexed: 01/14/2023] Open
Abstract
The amyloid β (Aβ) peptide and its shorter variants, including a highly cytotoxic Aβ25–35 peptide, exert their neurotoxic effect during Alzheimer’s disease by various mechanisms, including cellular membrane permeabilization. The intrinsic polymorphism of Aβ has prevented the identification of the molecular basis of Aβ pore formation by direct structural methods, and computational studies have led to highly divergent pore models. Here, we have employed a set of biophysical techniques to directly monitor Ca2+-transporting Aβ25–35 pores in lipid membranes, to quantitatively characterize pore formation, and to identify the key structural features of the pore. Moreover, the effect of membrane cholesterol on pore formation and the structure of Aβ25–35 has been elucidated. The data suggest that the membrane-embedded peptide forms 6- or 8-stranded β-barrel like structures. The 8-stranded barrels may conduct Ca2+ ions through an inner cavity, whereas the tightly packed 6-stranded barrels need to assemble into supramolecular structures to form a central pore. Cholesterol affects Aβ25–35 pore formation by a dual mechanism, i.e., by direct interaction with the peptide and by affecting membrane structure. Collectively, our data illuminate the molecular basis of Aβ membrane pore formation, which should advance both basic and clinical research on Alzheimer’s disease and membrane-associated pathologies in general.
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20
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Activation and conformational changes of chitinase induced by ultrasound. Food Chem 2019; 285:355-362. [PMID: 30797357 DOI: 10.1016/j.foodchem.2019.01.180] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Revised: 12/27/2018] [Accepted: 01/28/2019] [Indexed: 12/19/2022]
Abstract
This study investigated the effect of ultrasound on chitinase activity and conformational changes. Results revealed that ultrasound activated chitinase with a maximum enhancement of 19.17% compared with the untreated chitinase. Furthermore, an increase of Vmax and a decrease of Km after sonication were obtained, illustrating that the affinity between chitinase and substrate was intensified. No obvious effect on the tolerance to most metal ions was exhibited whether sonicated or not (p > 0.05). The conformational changes of chitinase were analyzed by circular dichroism (CD), Fourier transform infrared (FTIR), Raman and fluorescence spectroscopy. Results indicated that the activation of chitinase induced by ultrasound was presumably due to the decrease of tryptophan on the chitinase surface and the increase of β-sheet and random coil in chitinase secondary conformation. In brief, ultrasound is a possible way to activate chitinase to increase its application in food industry.
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21
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Oba M, Nagano Y, Kato T, Tanaka M. Secondary structures and cell-penetrating abilities of arginine-rich peptide foldamers. Sci Rep 2019; 9:1349. [PMID: 30718681 PMCID: PMC6362038 DOI: 10.1038/s41598-018-38063-8] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2018] [Accepted: 12/19/2018] [Indexed: 11/09/2022] Open
Abstract
Foldamers, which are folded oligomers with well-defined conformations, have been recently reported to have a good cell-penetrating ability. α,α-Disubstituted α-amino acids are one such promising tool for the design of peptide foldamers. Here, we prepared four types of L-arginine-rich nonapeptides containing L-leucine or α,α-disubstituted α-amino acids, and evaluated their secondary structures and cell-penetrating abilities in order to elucidate a correlation between them. Peptides containing α,α-disubstituted α-amino acids had similar resistance to protease digestion but showed different secondary structures. Intracellular uptake assays revealed that the helicity of peptides was important for their cell-penetrating abilities. These findings suggested that a peptide foldamer with a stable helical structure could be promising for the design of cell-penetrating peptides.
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Affiliation(s)
- Makoto Oba
- Graduate School Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki, 852-8521, Japan.
| | - Yu Nagano
- Graduate School Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki, 852-8521, Japan
| | - Takuma Kato
- Graduate School Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki, 852-8521, Japan
- Osaka University of Pharmaceutical Sciences, 40-20-1 Nasahara, Takatsuki, Osaka, 569-1094, Japan
| | - Masakazu Tanaka
- Graduate School Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki, 852-8521, Japan
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22
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Kato T, Oba M, Nishida K, Tanaka M. Cell-Penetrating Peptides Using Cyclic α,α-Disubstituted α-Amino Acids with Basic Functional Groups. ACS Biomater Sci Eng 2018; 4:1368-1376. [PMID: 33418667 DOI: 10.1021/acsbiomaterials.8b00180] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
In the delivery of cell-impermeable molecules, cell-penetrating peptides (CPPs) have been attracting increasing attention as intracellular delivery tools. In the present study, we designed four types of cyclic α,α-disubstituted α-amino acids (dAAs) with basic functional groups on their five-membered rings and different chiralities at the α-position and introduced them into arginine (Arg)-rich peptides. The evaluation of cell-penetrating abilities indicated that these peptides exhibited better cell permeabilities than an Arg nonapeptide. Furthermore, peptides containing dAAs delivered plasmid DNA (pDNA) better than a commercially available transfection reagent with a longer incubation time. These results demonstrate that the introduction of cyclic dAAs with basic functional groups into Arg-rich peptides is an effective strategy for the design of CPPs as a pDNA delivery tool.
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Affiliation(s)
- Takuma Kato
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan.,Osaka University of Pharmaceutical Sciences, 40-20-1 Nasahara, Takatsuki, Osaka 569-1094, Japan
| | - Makoto Oba
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Koyo Nishida
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
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23
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Oba M, Ito C, Tanaka M. Effects of five-membered ring amino acid incorporation into peptides for coiled coil formation. Bioorg Med Chem Lett 2018; 28:875-877. [PMID: 29433922 DOI: 10.1016/j.bmcl.2018.02.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Accepted: 02/01/2018] [Indexed: 12/22/2022]
Abstract
A five-membered ring amino acid (Ac5c), the peptides of which exhibit a preference for helical secondary structures, was introduced into peptides for the purpose of designing coiled coil peptides with high binding affinities. We prepared five types of peptides containing Ac5c with different numbers or at different positions. The incorporation of Ac5c into peptides enhanced their α-helicities; however, in contrast to our expectations, it did not result in stable coiled coil formation. The structures of side chains in hydrophobic amino acids, not α-helicities appeared to be important for stable hydrophobic interactions between peptides. Although we were unable to develop coiled coil peptides with high binding affinities, the present results will be useful for designing novel coiled coil peptides.
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Affiliation(s)
- Makoto Oba
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan.
| | - Chika Ito
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences, Nagasaki University, 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
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24
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Keçili R, Çelikoğlu U, Mil S, Ersöz A, Say R. Concanavalin A photocross-linked affinity cryogels for the purification of horseradish peroxidase. ADSORPT SCI TECHNOL 2018. [DOI: 10.1177/0263617418760637] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The present study describes an easy and efficient procedure for the purification of horseradish peroxidase from horseradish roots. For this purpose, supermacroporous cryogels having Concanavalin A were prepared by photosensitive cross-linking polymerization. Horseradish peroxidase binding and elution from the prepared cryogels were carried out changing various parameters such as initial peroxidase concentration and pH. The best binding performance was obtained at pH 7.0. The maximum horseradish peroxidase binding of the cryogels was found to be 3.85 mg g−1 cryogel. Horseradish peroxidase purification from crude extract resulted in 115.1-fold. SDS-PAGE analysis and circular dichroism measurements indicated that the horseradish peroxidase purification from horseradish roots was successfully carried out.
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Affiliation(s)
- Rüstem Keçili
- Anadolu University, Department of Medical Services and Techniques, Eskisehir, Turkey
| | - Umut Çelikoğlu
- Anadolu University, Chemistry Department, Eskisehir, Turkey
| | - Sevgi Mil
- Anadolu University, Chemistry Department, Eskisehir, Turkey
| | - Arzu Ersöz
- Anadolu University, Chemistry Department, Eskisehir, Turkey; Bionkit Ltd., Eskisehir, Turkey
| | - Rıdvan Say
- Anadolu University, Chemistry Department, Eskisehir, Turkey; Bionkit Ltd., Eskisehir, Turkey
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25
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Ali A, Le Potier I, Huang N, Rosilio V, Cheron M, Faivre V, Turbica I, Agnely F, Mekhloufi G. Effect of high pressure homogenization on the structure and the interfacial and emulsifying properties of β-lactoglobulin. Int J Pharm 2018; 537:111-121. [DOI: 10.1016/j.ijpharm.2017.12.019] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2017] [Revised: 12/05/2017] [Accepted: 12/09/2017] [Indexed: 12/25/2022]
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26
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Kraiem H, Zouari F, Abderrazek RB, Manon Y, Ayeb ME, Fillaudeau L, Bedoui J, Bouhaouala-Zahar B. Two-Dimensional Isoelectric Focusing OFFGEL, Micro-Fluidic Lab-on-Chip Electrophoresis and FTIR for Assessment of Long-Term Stability of rhG-CSF Formulation. IEEE Trans Nanobioscience 2017; 16:694-702. [PMID: 29053450 DOI: 10.1109/tnb.2017.2763779] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Recombinant human granulocyte colony-stimulating factor (rhG-CSF) has been increasingly recognized from among one of the most abundant families of biosimilars. Upon long-term storage, the rhG-CSF is subject to subtle chemical modifications that rapidly occur and, in particular, produce deaminated variants with divergent charge. Indeed, changes in charge from glutamine deamination may alter the way rhG-SCF will refold and the structure of resulting molecule. To assess this charge heterogeneity, 2-D gel electrophoresis has limited application. Recent micro-fluidic- based technical advances offer a great alternative method to better control liquid volumes on a minute scale. Here, we used IEF OFFGEL-lab-on-chip electrophoresis for 2-D separation of the rhG-CSF peptides according to their isoelectric point (pI) and molecular weight (kDa). We used an rhG-CSF commercial therapeutic formulation, kept refrigerated 24 months after expiry. The samples were analyzed for particulate matter and charge variants. Subsequently, the secondary structure was assessed by FTIR spectroscopy and residual biological activity was recorded. Interestingly, we showed an additional band in the acidic gel area above and below the most intense protein band (fractions 10, 11, and 12 at 22.84s). This observation reveals the presence of the rhG-CSF variant charges without any additional high molecular weight impurity or biological activity decrease. We conclude that after two years of storage, the rhG-CSF solution maintained its native secondary structure with little -sheet deviation, as reflected in the 1622 cm-1 and 1695 cm-1. These data demonstrated that a combined strategy is a more suitable and accurate analytical assessment of the rhG-CSF and recombinant protein-based biosimilars.
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27
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Scale-up and inhibitory studies on productivity of lipase from Acinetobacter radioresistens PR8. J Biosci Bioeng 2017; 124:150-155. [DOI: 10.1016/j.jbiosc.2017.03.005] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2016] [Accepted: 03/09/2017] [Indexed: 11/21/2022]
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28
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Guo M, Liu S, Ismail M, Farid MM, Ji H, Mao W, Gao J, Li C. Changes in the myosin secondary structure and shrimp surimi gel strength induced by dense phase carbon dioxide. Food Chem 2017; 227:219-226. [DOI: 10.1016/j.foodchem.2017.01.050] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2016] [Revised: 11/14/2016] [Accepted: 01/11/2017] [Indexed: 12/16/2022]
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29
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Das S, Purkayastha P. Gold Nanocluster Protection of Protein from UVC Radiation: A Model Study on Bovine Serum Albumin. ACS OMEGA 2017; 2:2451-2458. [PMID: 31457592 PMCID: PMC6641133 DOI: 10.1021/acsomega.7b00302] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Accepted: 05/19/2017] [Indexed: 05/05/2023]
Abstract
Harmful UVC (200-280 nm) radiation is entirely screened by a combination of dioxygen and ozone in the stratosphere. However, because of environmental pollution, depletion of stratospheric ozone layer is increasing alarmingly, ensuing danger of penetration of the harmful UVC through the earth's atmosphere to reach the living world. Studies have shown that UVC radiation accelerates aging of albumin solutions along with other qualitative changes. Herein, we have used in situ grown and ex situ added gold nanoclusters (AuNCs) to minimize the damage in the protein structure caused by long-term UVC exposure. The effects were demonstrated in the absence and presence of lipid vesicles to mimic the biological environment. Bovine serum albumin (BSA) has been used as the model protein that contains ∼50-60% helicity. It is observed that UVC converts most of α-helix into β-sheet, leading to the aggregation of protein. The ingrown AuNCs could provide about 23-40% protection to the secondary structure, whereas the externally added AuNCs preserved almost 73-82%. To generalize this finding, we have also studied the effect of AuNC protection on the UVC-exposed lysozyme protein. The results show that the proposed method is indeed helpful for life.
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Zhang B, Shi W, Li J, Liao C, Yang L, Huang W, Qian H. Synthesis and biological evaluation of novel peptides based on antimicrobial peptides as potential agents with antitumor and multidrug resistance-reversing activities. Chem Biol Drug Des 2017; 90:972-980. [DOI: 10.1111/cbdd.13023] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Revised: 04/28/2017] [Accepted: 05/08/2017] [Indexed: 02/02/2023]
Affiliation(s)
- Bo Zhang
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
| | - Wei Shi
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
| | - Jieming Li
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
| | - Chen Liao
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
| | - Limei Yang
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
| | - Wenlong Huang
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
- Jiangsu Key Laboratory of Drug Discovery for Metabolic Disease; China Pharmaceutical University; Nanjing China
| | - Hai Qian
- Center of Drug Discovery; State Key Laboratory of Natural Medicines; China Pharmaceutical University; Nanjing China
- Jiangsu Key Laboratory of Drug Discovery for Metabolic Disease; China Pharmaceutical University; Nanjing China
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Oba M, Kunitake M, Kato T, Ueda A, Tanaka M. Enhanced and Prolonged Cell-Penetrating Abilities of Arginine-Rich Peptides by Introducing Cyclic α,α-Disubstituted α-Amino Acids with Stapling. Bioconjug Chem 2017; 28:1801-1806. [PMID: 28603971 DOI: 10.1021/acs.bioconjchem.7b00190] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Cell-penetrating peptides are receiving increasing attention as drug delivery tools, and the search for peptides with high cell-penetrating ability and negligible cytotoxicity has become a critical research topic. Herein, cyclic α,α-disubstituted α-amino acids were introduced into arginine-rich peptides and an additional staple was provided in the side chain. The peptides designed in the present study showed more enhanced and prolonged cell-penetrating abilities than an arginine nonapeptide due to high resistance to protease and conformationally stable helical structures.
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Affiliation(s)
- Makoto Oba
- Graduate School of Biomedical Sciences, Nagasaki University , 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Masayuki Kunitake
- Graduate School of Biomedical Sciences, Nagasaki University , 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Takuma Kato
- Graduate School of Biomedical Sciences, Nagasaki University , 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Atsushi Ueda
- Graduate School of Biomedical Sciences, Nagasaki University , 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences, Nagasaki University , 1-14 Bunkyo-machi, Nagasaki 852-8521, Japan
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Becerra J, Sudre G, Royaud I, Montserret R, Verrier B, Rochas C, Delair T, David L. Tuning the Hydrophilic/Hydrophobic Balance to Control the Structure of Chitosan Films and Their Protein Release Behavior. AAPS PharmSciTech 2017; 18:1070-1083. [PMID: 27975192 DOI: 10.1208/s12249-016-0678-9] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2016] [Accepted: 11/22/2016] [Indexed: 11/30/2022] Open
Abstract
The control over the crystallinity of chitosan and chitosan/ovalbumin films can be achieved via an appropriate balance of the hydrophilic/hydrophobic interactions during the film formation process, which then controls the release kinetics of ovalbumin. Chitosan films were prepared by solvent casting. The presence of the anhydrous allomorph can be viewed as a probe of the hydrophobic conditions at the neutralization step. The semicrystalline structure, the swelling behavior of the films, the protein/chitosan interactions, and the release behavior of the films were impacted by the DA and the film processing parameters. At low DAs, the chitosan films neutralized in the solid state corresponded to the most hydrophobic environment, inducing the crystallization of the anhydrous allomorph with and without protein. The most hydrophilic conditions, leading to the hydrated allomorph, corresponded to non-neutralized films for the highest DAs. For the non-neutralized chitosan acetate (amorphous) films, the swelling increased when the DA decreased, whereas for the neutralized chitosan films, the swelling decreased. The in vitro release of ovalbumin (model protein) from chitosan films was controlled by their swelling behavior. For fast swelling films (DA = 45%), a burst effect was observed. On the contrary, a lag time was evidenced for DA = 2.5% with a limited release of the protein. Furthermore, by blending chitosans (DA = 2.5% and 45%), the release behavior was improved by reducing the burst effect and the lag time. The secondary structure of ovalbumin was partially maintained in the solid state, and the ovalbumin was released under its native form.
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33
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Temsirolimus induced structural transition of cancerous renal cystatin to normal form in rats: In vitro mechanistic approach underlying renal cancer prevention. Int J Biol Macromol 2017; 96:19-25. [DOI: 10.1016/j.ijbiomac.2016.12.019] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2016] [Accepted: 12/08/2016] [Indexed: 02/01/2023]
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34
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Shamsi A, Ahmed A, Bano B. Structural transition of kidney cystatin induced by silicon dioxide nanoparticles: An implication for renal diseases. Int J Biol Macromol 2017; 94:754-761. [DOI: 10.1016/j.ijbiomac.2016.10.019] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2016] [Revised: 10/04/2016] [Accepted: 10/07/2016] [Indexed: 01/30/2023]
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35
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Genji M, Yano Y, Hoshino M, Matsuzaki K. Aromaticity of Phenylalanine Residues Is Essential for Amyloid Formation by Alzheimer’s Amyloid β-Peptide. Chem Pharm Bull (Tokyo) 2017; 65:668-673. [DOI: 10.1248/cpb.c17-00203] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Affiliation(s)
- Mayumi Genji
- Graduate School of Pharmaceutical Sciences, Kyoto University
| | - Yoshiaki Yano
- Graduate School of Pharmaceutical Sciences, Kyoto University
| | - Masaru Hoshino
- Graduate School of Pharmaceutical Sciences, Kyoto University
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36
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Furukawa K, Oba M, Toyama K, Opiyo GO, Demizu Y, Kurihara M, Doi M, Tanaka M. Low pH-triggering changes in peptide secondary structures. Org Biomol Chem 2017; 15:6302-6305. [DOI: 10.1039/c7ob01374d] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
An acidic treatment of cyclic α,α-disubstituted α-amino acid-containing peptides changes their conformation from a helical to a random structure.
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Affiliation(s)
- Kaori Furukawa
- Graduate School of Biomedical Sciences
- Nagasaki University
- Nagasaki 852-8521
- Japan
| | - Makoto Oba
- Graduate School of Biomedical Sciences
- Nagasaki University
- Nagasaki 852-8521
- Japan
| | - Kotomi Toyama
- Graduate School of Biomedical Sciences
- Nagasaki University
- Nagasaki 852-8521
- Japan
| | - George Ouma Opiyo
- Graduate School of Biomedical Sciences
- Nagasaki University
- Nagasaki 852-8521
- Japan
| | - Yosuke Demizu
- National Institute of Health Sciences
- Tokyo 158-8501
- Japan
| | - Masaaki Kurihara
- Department of Pharmaceutical Sciences
- International University of Health and Welfare
- Ohtawara
- Japan
| | - Mitsunobu Doi
- Osaka University of Pharmaceutical Sciences
- Osaka 569-1094
- Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences
- Nagasaki University
- Nagasaki 852-8521
- Japan
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37
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Furukawa K, Oba M, Opiyo GO, Doi M, Tanaka M. Cyclic α,α-Disubstituted α-Amino Acids with Menthone in Their Side-Chains Linked through an Acetal Moiety and Helical Structures of Their Peptides. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600241] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Kaori Furukawa
- Graduate School of Biomedical Sciences; Nagasaki University; 852-8521 Nagasaki Japan
| | - Makoto Oba
- Graduate School of Biomedical Sciences; Nagasaki University; 852-8521 Nagasaki Japan
| | - George Ouma Opiyo
- Graduate School of Biomedical Sciences; Nagasaki University; 852-8521 Nagasaki Japan
| | - Mitsunobu Doi
- Osaka University of Pharmaceutical Sciences; 569-1094 Osaka Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences; Nagasaki University; 852-8521 Nagasaki Japan
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38
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Rao W, Li X, Wang Z, Yang Y, Qu Y, Gao Y, Chen L, Zhang D. Dense Phase Carbon Dioxide Combined with Mild Heating Induced Myosin Denaturation, Texture Improvement and Gel Properties of Sausage. J FOOD PROCESS ENG 2016. [DOI: 10.1111/jfpe.12404] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Weili Rao
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Xin Li
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Zhenyu Wang
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Yang Yang
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Yalin Qu
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Yuan Gao
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Li Chen
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
| | - Dequan Zhang
- Lab of Meat Science and Technology; Institute of Food Science and Technology; Chinese Academy of Agricultural Sciences/Key Laboratory of Agro-Products Processing Ministry of Agriculture; Beijing 100193 China
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39
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Yang X, Chen G, Du H, Miao M, Feng B. Behavior of Yarrowia lipolytica Lipase Lip2 under high hydrostatic pressure: Conformational changes and isokineticity diagram. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.molcatb.2016.02.011] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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40
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Shamsi A, Ahmed A, Bano B. Structural transition of kidney cystatin in dimethylnitrosamine-induced renal cancer in rats: identification as a novel biomarker for kidney cancer and prognosis. J Biomol Struct Dyn 2016; 35:1020-1029. [DOI: 10.1080/07391102.2016.1166988] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Affiliation(s)
- Anas Shamsi
- Faculty of Life Science, Department of Biochemistry, Aligarh Muslim University , Aligarh 202 002, India
| | - Azaj Ahmed
- Faculty of Life Science, Department of Biochemistry, Aligarh Muslim University , Aligarh 202 002, India
| | - Bilqees Bano
- Faculty of Life Science, Department of Biochemistry, Aligarh Muslim University , Aligarh 202 002, India
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41
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Zhou H, Wang C, Ye J, Chen H, Tao R, Cao F. Effects of high hydrostatic pressure treatment on structural, allergenicity, and functional properties of proteins from ginkgo seeds. INNOV FOOD SCI EMERG 2016. [DOI: 10.1016/j.ifset.2016.02.001] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
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42
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Oba M, Nonaka H, Doi M, Tanaka M. Conformational studies on peptides having dipropylglycine (Dpg) or 1-aminocycloheptanecarboxylic acid (Ac7c) within the sequence ofl-leucine (Leu) residues. Biopolymers 2016; 106:210-218. [DOI: 10.1002/bip.22810] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2015] [Revised: 11/09/2015] [Accepted: 01/10/2016] [Indexed: 01/12/2023]
Affiliation(s)
- Makoto Oba
- Graduate School of Biomedical Sciences; Nagasaki University; Nagasaki 852-8521 Japan
| | - Hikaru Nonaka
- Graduate School of Biomedical Sciences; Nagasaki University; Nagasaki 852-8521 Japan
| | - Mitsunobu Doi
- Osaka University of Pharmaceutical Sciences; Osaka 569-1094 Japan
| | - Masakazu Tanaka
- Graduate School of Biomedical Sciences; Nagasaki University; Nagasaki 852-8521 Japan
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43
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Effect of nitric oxide on conformational changes of ovalbumin accompanying self-assembly into non-disease-associated fibrils. Nitric Oxide 2015; 47:1-9. [DOI: 10.1016/j.niox.2015.02.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2014] [Revised: 01/29/2015] [Accepted: 02/05/2015] [Indexed: 11/22/2022]
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44
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CW-EPR studies revealed different motional properties and oligomeric states of the integrin β1a transmembrane domain in detergent micelles or liposomes. Sci Rep 2015; 5:7848. [PMID: 25597475 PMCID: PMC4297981 DOI: 10.1038/srep07848] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2014] [Accepted: 12/16/2014] [Indexed: 12/15/2022] Open
Abstract
Integrins are heterodimeric membrane proteins that regulate essential processes: cell migration, cell growth, extracellular matrix assembly and tumor metastasis. Each integrin α or β subunit contains a large extracellular domain, a single transmembrane (TM) domain, and a short cytoplasmic tail. The integrin TM domains are important for heterodimeric association and dissociation during the conversion from inactive to active states. Moreover, integrin clustering occurs by homo-oligomeric interactions between the TM helices. Here, the transmembrane and cytoplasmic (TMC) domains of integrin β1a were overexpressed, and the protein was purified in detergent micelles and/or reconstituted in liposomes. To investigate the TM domain conformational properties of integrin β1a, 26 consecutive single cysteine mutants were generated for site-directed spin labeling and continuous-wave electron paramagnetic resonance (CW-EPR) mobility and accessibility analyses. The mobility analysis identified two integrin β1a-TM regions with different motional properties in micelles and a non-continuous integrin β1a-TM helix with high immobility in liposomes. The accessibility analysis verified the TM range (Val737-Lys752) of the integrin β1a-TMC in micelles. Further mobility and accessibility comparisons of the integrin β1a-TMC domains in micelles or liposomes identified distinctively different oligomeric states of integrin β1a-TM, namely a monomer embedded in detergent micelles and leucine-zipper-like homo-oligomeric clusters in liposomes.
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45
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Wang J, Zhao C, Zhao A, Li M, Ren J, Qu X. New Insights in Amyloid Beta Interactions with Human Telomerase. J Am Chem Soc 2015; 137:1213-9. [DOI: 10.1021/ja511030s] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Jiasi Wang
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Chuanqi Zhao
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Andong Zhao
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Meng Li
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Jinsong Ren
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
| | - Xiaogang Qu
- Laboratory
of Chemical Biology
and Division of Biological Inorganic Chemistry, State Key Laboratory
of Rare Earth Resource Utilization, Changchun Institute of Applied
Chemistry, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Changchun, Jilin 130022, China
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46
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Abstract
Circular dichroism (CD) spectroscopy is a useful technique for studying protein-protein interactions in solution. CD in the far ultraviolet region (178-260 nm) arises from the amides of the protein backbone and is sensitive to the conformation of the protein. Thus, CD can determine whether there are changes in the conformation of proteins when they interact. Changes in the conformation of the protein complexes as a function of temperature or added denaturants, compared to the individual proteins, can be used to determine binding constants. CD bands in the near ultraviolet (350-260 nm) and visible regions arise from aromatic amino acid side chains and prosthetic groups. There are often changes in these regions when proteins bind to each other. Because CD is a quantitative technique, these changes are directly proportional to the amount of the protein-protein complexes formed and thus also can be used to estimate binding constants.
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Affiliation(s)
- Norma J Greenfield
- Associate Professor (retired), Department of Neuroscience and Cell Biology, Robert Wood Johnson Medical School, Rutgers University, 675 Hoes Lane West, Piscataway, NJ, 08854-8021, USA,
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47
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Deng X, Qiu Q, Ma K, Wang X, Huang W, Qian H. Aliphatic acid-conjugated antimicrobial peptides – potential agents with anti-tumor, multidrug resistance-reversing activity and enhanced stability. Org Biomol Chem 2015; 13:7673-80. [DOI: 10.1039/c5ob00752f] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have designed and synthesized a series of aliphatic acid-conjugated peptides. Biological evaluation revealed that these peptides showed improved anti-tumor activity, plasma stability over the lead compound, and also multidrug resistance-reversing effects on multidrug-resistant cells.
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Affiliation(s)
- Xin Deng
- Center of Drug Discovery
- State Key Laboratory of Natural Medicines
- China Pharmaceutical University
- Nanjing 210009
- China
| | - Qianqian Qiu
- Center of Drug Discovery
- State Key Laboratory of Natural Medicines
- China Pharmaceutical University
- Nanjing 210009
- China
| | - Ke Ma
- Atherosclerosis Research Center
- Key Laboratory of Cardiovascular Disease and Molecular Intervention
- Nanjing Medical University
- Nanjing 210029
- China
| | - Xuekun Wang
- Center of Drug Discovery
- State Key Laboratory of Natural Medicines
- China Pharmaceutical University
- Nanjing 210009
- China
| | - Wenlong Huang
- Center of Drug Discovery
- State Key Laboratory of Natural Medicines
- China Pharmaceutical University
- Nanjing 210009
- China
| | - Hai Qian
- Center of Drug Discovery
- State Key Laboratory of Natural Medicines
- China Pharmaceutical University
- Nanjing 210009
- China
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48
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Lei M, Kao YH, Schöneich C. Using lysine-reactive fluorescent dye for surface characterization of a mAb. J Pharm Sci 2014; 104:995-1004. [PMID: 25538029 DOI: 10.1002/jps.24308] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2014] [Revised: 11/18/2014] [Accepted: 11/19/2014] [Indexed: 12/26/2022]
Abstract
The biopharmaceutical industry increasingly demands thorough characterization of protein conformation and conformational dynamics to ensure product quality and consistency. Here, we present a chromatography-based method that is able to characterize protein conformation and conformational dynamics at peptide level resolution in a high-throughput manner. The surface lysine residues of the protein were labeled with a fluorescent dye prior to enzyme digestion. The resulting peptide maps were monitored by fluorescence detection where fluorescence peak area indicates higher solvent accessibility at a specific site. The peptides of reactivity difference and the extent of the difference can be detected by HPLC with fluorescent detector alone, whereas the identity of these peptides can then be determined by mass spectrometry if desired. We first demonstrated this method is suitable for probing protein surface/conformation by studying the effect of deglycosylation on a recombinant mAb, IgG 1. We then applied our method to study the interaction of the mAb with a common excipient, polysorbate-20 (PS-20). The presence of PS-20 increased the fluorescent labeling of several lysine residues on the mAb. This result provides a first insight into PS20-mAb interaction at peptide level resolution.
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Affiliation(s)
- Ming Lei
- Protein Analytical Chemistry, Genentech, Inc, South San Francisco, California, 94080
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49
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Clifton MC, Simon MJ, Erramilli SK, Zhang H, Zaitseva J, Hermodson MA, Stauffacher CV. In vitro reassembly of the ribose ATP-binding cassette transporter reveals a distinct set of transport complexes. J Biol Chem 2014; 290:5555-65. [PMID: 25533465 DOI: 10.1074/jbc.m114.621573] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
Bacterial ATP-binding cassette (ABC) importers are primary active transporters that are critical for nutrient uptake. Based on structural and functional studies, ABC importers can be divided into two distinct classes, type I and type II. Type I importers follow a strict alternating access mechanism that is driven by the presence of the substrate. Type II importers accept substrates in a nucleotide-free state, with hydrolysis driving an inward facing conformation. The ribose transporter in Escherichia coli is a tripartite complex consisting of a cytoplasmic ATP-binding cassette protein, RbsA, with fused nucleotide binding domains; a transmembrane domain homodimer, RbsC2; and a periplasmic substrate binding protein, RbsB. To investigate the transport mechanism of the complex RbsABC2, we probed intersubunit interactions by varying the presence of the substrate ribose and the hydrolysis cofactors, ATP/ADP and Mg(2+). We were able to purify a full complex, RbsABC2, in the presence of stable, transition state mimics (ATP, Mg(2+), and VO4); a RbsAC complex in the presence of ADP and Mg(2+); and a heretofore unobserved RbsBC complex in the absence of cofactors. The presence of excess ribose also destabilized complex formation between RbsB and RbsC. These observations suggest that RbsABC2 shares functional traits with both type I and type II importers, as well as possessing unique features, and employs a distinct mechanism relative to other ABC transporters.
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Affiliation(s)
- Matthew C Clifton
- From the Department of Biological Sciences and the Purdue Center for Cancer Research and
| | - Michael J Simon
- From the Department of Biological Sciences and the Purdue Center for Cancer Research and
| | - Satchal K Erramilli
- From the Department of Biological Sciences and the Purdue Center for Cancer Research and
| | - Huide Zhang
- the Department of Biochemistry, Purdue University, West Lafayette, Indiana 47907
| | - Jelena Zaitseva
- the Department of Biochemistry, Purdue University, West Lafayette, Indiana 47907
| | - Mark A Hermodson
- the Department of Biochemistry, Purdue University, West Lafayette, Indiana 47907
| | - Cynthia V Stauffacher
- From the Department of Biological Sciences and the Purdue Center for Cancer Research and
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50
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Lopes JLS, Miles AJ, Whitmore L, Wallace BA. Distinct circular dichroism spectroscopic signatures of polyproline II and unordered secondary structures: applications in secondary structure analyses. Protein Sci 2014; 23:1765-72. [PMID: 25262612 DOI: 10.1002/pro.2558] [Citation(s) in RCA: 136] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2014] [Accepted: 09/23/2014] [Indexed: 11/10/2022]
Abstract
Circular dichroism (CD) spectroscopy is a valuable method for defining canonical secondary structure contents of proteins based on empirically-defined spectroscopic signatures derived from proteins with known three-dimensional structures. Many proteins identified as being "Intrinsically Disordered Proteins" have a significant amount of their structure that is neither sheet, helix, nor turn; this type of structure is often classified by CD as "other", "random coil", "unordered", or "disordered". However the "other" category can also include polyproline II (PPII)-type structures, whose spectral properties have not been well-distinguished from those of unordered structures. In this study, synchrotron radiation circular dichroism spectroscopy was used to investigate the spectral properties of collagen and polyproline, which both contain PPII-type structures. Their native spectra were compared as representatives of PPII structures. In addition, their spectra before and after treatment with various conditions to produce unfolded or denatured structures were also compared, with the aim of defining the differences between CD spectra of PPII and disordered structures. We conclude that the spectral features of collagen are more appropriate than those of polyproline for use as the representative spectrum for PPII structures present in typical amino acid-containing proteins, and that the single most characteristic spectroscopic feature distinguishing a PPII structure from a disordered structure is the presence of a positive peak around 220nm in the former but not in the latter. These spectra are now available for inclusion in new reference data sets used for CD analyses of the secondary structures of soluble proteins.
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Affiliation(s)
- Jose L S Lopes
- Institute of Structural and Molecular Biology, Birkbeck College, University of London, London, United Kingdom
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