1
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Hakata Y, Yamashita K, Hashimoto S, Ohtsuki T, Miyazawa M, Kitamatsu M. Adjusting Heterodimeric Coiled-Coils (K/E Zipper) to Connect Autophagy-Inducing Peptide with Cell-Penetrating Peptide. Pharmaceutics 2023; 15:pharmaceutics15041048. [PMID: 37111533 PMCID: PMC10141234 DOI: 10.3390/pharmaceutics15041048] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Revised: 03/16/2023] [Accepted: 03/22/2023] [Indexed: 04/29/2023] Open
Abstract
A connection of a functional peptide with a cell-penetrating peptide (CPP) used a heterodimeric coiled-coil as a molecular zipper can improve the intracellular delivery and activity of the functional peptide. However, the chain length of the coiled coil required for functioning as the molecular zipper is unknown at present. To solve the problem, we prepared an autophagy-inducing peptide (AIP) that conjugates with the CPP via heterodimeric coiled-coils consisting of 1 to 4 repeating units (K/E zipper; AIP-Kn and En-CPP), and we investigated the optimum length of the K/E zipper for effective intracellular delivery and autophagy induction. Fluorescence spectroscopy showed that K/E zippers with n = 3 and 4 formed a stable 1:1 hybrid (AIP-K3/E3-CPP and AIP-K4/E4-CPP, respectively). Both AIP-K3 and AIP-K4 were successfully delivered into cells by the corresponding hybrid formation with K3-CPP and K4-CPP, respectively. Interestingly, autophagy was also induced by the K/E zippers with n = 3 and 4, more intensively by the former than by the latter. The peptides and K/E zippers used in this study did not show significant cytotoxicity. These results indicate that the effective induction of autophagy occurs via an exquisite balance of the association and dissociation of the K/E zipper in this system.
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Affiliation(s)
- Yoshiyuki Hakata
- Department of Immunology, Faculty of Medicine, Kindai University, 377-2 Ohno-Higashi, Osakasayama 589-8511, Japan
- Department of Arts and Sciences, Faculty of Medicine, Kindai University, 377-2 Ohno-Higashi, Osakasayama 589-8511, Japan
| | - Kazuma Yamashita
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, 3-4-1 Kowakae, Higashiosaka 577-8502, Japan
| | - Sonoko Hashimoto
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, 3-4-1 Kowakae, Higashiosaka 577-8502, Japan
| | - Takashi Ohtsuki
- Department of Interdisciplinary Science and Engineering in Health Systems, Okayama University, 3-1-1 Tsushimanaka, Okayama 700-8530, Japan
| | - Masaaki Miyazawa
- Department of Immunology, Faculty of Medicine, Kindai University, 377-2 Ohno-Higashi, Osakasayama 589-8511, Japan
| | - Mizuki Kitamatsu
- Department of Applied Chemistry, Faculty of Science and Engineering, Kindai University, 3-4-1 Kowakae, Higashiosaka 577-8502, Japan
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2
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Biophysical and pharmacokinetic characterization of a small-molecule inhibitor of RUNX1/ETO tetramerization with anti-leukemic effects. Sci Rep 2022; 12:14158. [PMID: 35986043 PMCID: PMC9391460 DOI: 10.1038/s41598-022-17913-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Accepted: 08/02/2022] [Indexed: 11/22/2022] Open
Abstract
Acute myeloid leukemia (AML) is a malignant disease of immature myeloid cells and the most prevalent acute leukemia among adults. The oncogenic homo-tetrameric fusion protein RUNX1/ETO results from the chromosomal translocation t(8;21) and is found in AML patients. The nervy homology region 2 (NHR2) domain of ETO mediates tetramerization; this oligomerization is essential for oncogenic activity. Previously, we identified the first-in-class small-molecule inhibitor of NHR2 tetramer formation, 7.44, which was shown to specifically interfere with NHR2, restore gene expression down-regulated by RUNX1/ETO, inhibit the proliferation of RUNX1/ETO-depending SKNO-1 cells, and reduce the RUNX1/ETO-related tumor growth in a mouse model. However, no biophysical and structural characterization of 7.44 binding to the NHR2 domain has been reported. Likewise, the compound has not been characterized as to physicochemical, pharmacokinetic, and toxicological properties. Here, we characterize the interaction between the NHR2 domain of RUNX1/ETO and 7.44 by biophysical assays and show that 7.44 interferes with NHR2 tetramer stability and leads to an increase in the dimer population of NHR2. The affinity of 7.44 with respect to binding to NHR2 is Klig = 3.75 ± 1.22 µM. By NMR spectroscopy combined with molecular dynamics simulations, we show that 7.44 binds with both heteroaromatic moieties to NHR2 and interacts with or leads to conformational changes in the N-termini of the NHR2 tetramer. Finally, we demonstrate that 7.44 has favorable physicochemical, pharmacokinetic, and toxicological properties. Together with biochemical, cellular, and in vivo assessments, the results reveal 7.44 as a lead for further optimization towards targeted therapy of t(8;21) AML.
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3
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The thermodynamic and kinetic mechanisms of a Ganoderma lucidum proteoglycan inhibiting hIAPP amyloidosis. Biophys Chem 2021; 280:106702. [PMID: 34741991 DOI: 10.1016/j.bpc.2021.106702] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2021] [Revised: 10/17/2021] [Accepted: 10/26/2021] [Indexed: 12/14/2022]
Abstract
Ganoderma lucidum is a valuable medicinal herbal which has been reported to prevent type 2 diabetes (T2D). A natural hyperbranched proteoglycan extracted from Ganoderma lucidum, namely, FYGL, has been demonstrated to inhibit the amyloidosis of human islet amyloid polypeptide (hIAPP) previously by our lab. However, the effective active components and the mechanisms of FYGL in inhibiting hIAPP amyloidosis are unknown. To identify the effective active components, different components from FYGL were isolated: the polysaccharide FYGL-1, the proteoglycans of FYGL-2 and FYGL-3. We further separated and sequenced the protein moieties of FYGL-2 and FYGL-3, namely, FYGL-2-P and FYGL-3-P, respectively, and compared their abilities to inhibit hIAPP amyloidosis, and systematically explored the inhibitory mechanisms by spectroscopy, microscopy and molecular dynamic simulation methods. Results showed that the protein moieties of FYGL played essential roles in inhibiting hIAPP amyloidosis. The strong, specific, and enthalpy-driven interaction by π-π stacking and electrostatic forces between hIAPP and FYGL-3-P dramatically inhibited hIAPP amyloidosis. These results suggested that FYGL-3-P had enormous potential to prevent hIAPP misfolding-induced diabetes and structurally helped researchers to seek or design inhibitors against polypeptide amyloidosis.
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4
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Behzadi M, Arasteh S, Bagheri M. Palmitoylation of Membrane-Penetrating Magainin Derivatives Reinforces Necroptosis in A549 Cells Dependent on Peptide Conformational Propensities. ACS APPLIED MATERIALS & INTERFACES 2020; 12:56815-56829. [PMID: 33296603 DOI: 10.1021/acsami.0c17648] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Anticancer lipopeptides (ACLPs) are considered promising alternatives to combat resistant cancer cells, but the influence of peptide conformational propensity alone on their selectivity and mechanism remains obscure. In this study, we developed N-palmitoylated MK5E (P1MK5E) and MEK5 (P1MEK5) that have the same composition of 23 residues undergoing the pH-dependent structural alterations but differ in the conformational tendency of their amino acid composites. Nonlipidated peptides were readily accumulated in the A549 cell nucleus by the direct membrane translocation and the heparan sulfate-mediated endocytosis than the lipid-raft-dependent pathway. The increased hydrophobicity favored the amino acid-position-dependent folding of P1MK5E and P1MEK5, respectively, toward the α-helical coiled-coil nanofibrils and amyloidlike β-protofibrils. At the close concentrations (∼7.5 μM) to the toxic effects of doxorubicin (DOX), P1MK5E exhibited (i) an increased anticancer toxicity through a time-dependent S-phase arrest, (ii) enhanced plasma membrane permeability, and (iii) dose-dependent changes in the cell death characteristic features in the A549 cells relative to P1MEK5 that was almost inactive at ∼75 μM. These observations were in accordance with the TNF-α-mediated necroptotic signaling in the c-MYC/PARP1-overexpressed A549 cells exposed to P1MK5E and accompanied by the ultrastructure of plasma membrane protrusions, extensive endoplasmic reticulum (ER) membrane expansion, mitochondrial swelling, and the formation of distinct cytoplasmic vacuolation. The structural results and the bioactivity behaviors, herein, declared the significance of α-helical propensity in the peptide sequence and the nanostructure morphologies of self-assembling ACLPs upon the selectivity and enhanced anticancer effectiveness, which notably holds promise in the design and development of efficient therapeutics for cancer.
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Affiliation(s)
- Malihe Behzadi
- Peptide Chemistry Laboratory, Institute of Biochemistry and Biophysics, University of Tehran, 16 Azar Street, 14176-14335 Tehran, Iran
| | - Shima Arasteh
- Peptide Chemistry Laboratory, Institute of Biochemistry and Biophysics, University of Tehran, 16 Azar Street, 14176-14335 Tehran, Iran
| | - Mojtaba Bagheri
- Peptide Chemistry Laboratory, Institute of Biochemistry and Biophysics, University of Tehran, 16 Azar Street, 14176-14335 Tehran, Iran
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5
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Golysheva EA, Boyle AL, Biondi B, Ruzza P, Kros A, Raap J, Toniolo C, Formaggio F, Dzuba SA. Probing the E/K Peptide Coiled-Coil Assembly by Double Electron-Electron Resonance and Circular Dichroism. Biochemistry 2020; 60:19-30. [PMID: 33320519 DOI: 10.1021/acs.biochem.0c00773] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Double electron-electron resonance (DEER, also known as PELDOR) and circular dichroism (CD) spectroscopies were explored for the purpose of studying the specificity of the conformation of peptides induced by their assembly into a self-recognizing system. The E and K peptides are known to form a coiled-coil heterodimer. Two paramagnetic TOAC α-amino acid residues were incorporated into each of the peptides (denoted as K** and E**), and a three-dimensional structural investigation in the presence or absence of their unlabeled counterparts E and K was performed. The TOAC spin-labels, replacing two Ala residues in each compound, are covalently and quasi-rigidly connected to the peptide backbone. They are known not to disturb the native structure, so that any conformational change can easily be monitored and assigned. DEER spectroscopy enables the measurement of the intramolecular electron spin-spin distance distribution between the two TOAC labels, within a length range of 1.5-8 nm. This method allows the individual conformational changes for the K**, K**/E, E**, and E**/K molecules to be investigated in glassy frozen solutions. Our data reveal that the conformations of the E** and K** peptides are strongly influenced by the presence of their counterparts. The results are discussed with those from CD spectroscopy and with reference to the already reported nuclear magnetic resonance data. We conclude that the combined DEER/TOAC approach allows us to obtain accurate and reliable information about the conformation of the peptides before and after their assembly into coiled-coil heterodimers. Applications of this induced fit method to other two-component, but more complex, systems, like a receptor and antagonists, a receptor and a hormone, and an enzyme and a ligand, are discussed.
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Affiliation(s)
- Elena A Golysheva
- Novosibirsk State University, Novosibirsk 630090, Russian Federation.,V. V. Voevodsky Institute of Chemical Kinetics and Combustion, Novosibirsk 630090, Russian Federation
| | - Aimee L Boyle
- Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, 2300 RA Leiden, The Netherlands
| | - Barbara Biondi
- Institute of Biomolecular Chemistry, Padova Unit, CNR, 35131 Padova, Italy.,Department of Chemical Sciences, University of Padova, 35131 Padova, Italy
| | - Paolo Ruzza
- Institute of Biomolecular Chemistry, Padova Unit, CNR, 35131 Padova, Italy.,Department of Chemical Sciences, University of Padova, 35131 Padova, Italy
| | - Alexander Kros
- Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, 2300 RA Leiden, The Netherlands
| | - Jan Raap
- Leiden Institute of Chemistry, Gorlaeus Laboratories, Leiden University, 2300 RA Leiden, The Netherlands
| | - Claudio Toniolo
- Institute of Biomolecular Chemistry, Padova Unit, CNR, 35131 Padova, Italy.,Department of Chemical Sciences, University of Padova, 35131 Padova, Italy.,Department of Chemistry, University of Padova, 35131 Padova, Italy
| | - Fernando Formaggio
- Institute of Biomolecular Chemistry, Padova Unit, CNR, 35131 Padova, Italy.,Department of Chemical Sciences, University of Padova, 35131 Padova, Italy
| | - Sergei A Dzuba
- Novosibirsk State University, Novosibirsk 630090, Russian Federation.,V. V. Voevodsky Institute of Chemical Kinetics and Combustion, Novosibirsk 630090, Russian Federation
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6
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Marichal L, Degrouard J, Gatin A, Raffray N, Aude JC, Boulard Y, Combet S, Cousin F, Hourdez S, Mary J, Renault JP, Pin S. From Protein Corona to Colloidal Self-Assembly: The Importance of Protein Size in Protein-Nanoparticle Interactions. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:8218-8230. [PMID: 32585107 DOI: 10.1021/acs.langmuir.0c01334] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Protein adsorption on nanoparticles is an important field of study, particularly with regard to nanomedicine and nanotoxicology. Many factors can influence the composition and structure of the layer(s) of adsorbed proteins, the so-called protein corona. However, the role of protein size has not been specifically investigated, although some evidence has indicated its potential important role in corona composition and structure. To assess the role of protein size, we studied the interactions of hemoproteins (spanning a large size range) with monodisperse silica nanoparticles. We combined various techniques-adsorption isotherms, isothermal titration calorimetry, circular dichroism, and transmission electron cryomicroscopy-to address this issue. Overall, the results show that small proteins behaved as typical model proteins, forming homogeneous monolayers on the nanoparticle surface (protein corona). Their adsorption is purely enthalpy-driven, with subtle structural changes. In contrast, large proteins interact with nanoparticles via entropy-driven mechanisms. Their structure is completely preserved during adsorption, and any given protein can directly bind to several nanoparticles, forming bridges in these newly formed protein-nanoparticle assemblies. Protein size is clearly an overlooked factor that should be integrated into proteomics and toxicological studies.
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Affiliation(s)
- Laurent Marichal
- Université Paris-Saclay, CEA, CNRS, NIMBE, 91190 Gif-sur-Yvette, France
- Université Paris-Saclay, CEA, CNRS, I2BC, B3S, 91190 Gif-sur-Yvette, France
| | - Jéril Degrouard
- Université Paris-Saclay, CNRS, Laboratoire de Physique des Solides, 91405 Orsay, France
| | - Anouchka Gatin
- Université Paris-Saclay, CEA, CNRS, NIMBE, 91190 Gif-sur-Yvette, France
| | - Nolwenn Raffray
- Université Paris-Saclay, CEA, CNRS, NIMBE, 91190 Gif-sur-Yvette, France
| | | | - Yves Boulard
- Université Paris-Saclay, CEA, CNRS, I2BC, B3S, 91190 Gif-sur-Yvette, France
| | - Sophie Combet
- Université Paris-Saclay, Laboratoire Léon-Brillouin, UMR 12 CEA-CNRS, CEA-Saclay, 91191 Gif-sur-Yvette Cedex, France
| | - Fabrice Cousin
- Université Paris-Saclay, Laboratoire Léon-Brillouin, UMR 12 CEA-CNRS, CEA-Saclay, 91191 Gif-sur-Yvette Cedex, France
| | - Stéphane Hourdez
- Sorbonne Université, CNRS, Laboratoire Adaptation et Diversité en Milieu Marin, Team DYDIV, Station Biologique de Roscoff, 29680 Roscoff, France
| | - Jean Mary
- Sorbonne Université, CNRS, Laboratoire Adaptation et Diversité en Milieu Marin, Team DYDIV, Station Biologique de Roscoff, 29680 Roscoff, France
| | | | - Serge Pin
- Université Paris-Saclay, CEA, CNRS, NIMBE, 91190 Gif-sur-Yvette, France
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7
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Zheng T, Chen Y, Shi Y, Feng H. High efficiency liposome fusion induced by reducing undesired membrane peptides interaction. OPEN CHEM 2019. [DOI: 10.1515/chem-2019-0004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
AbstractA full membrane fusion model which attains both complete lipid mixing and content mixing liposomal membranes mediated by coiled-coil forming lipopeptides LPK [L-PEG12-(KIAALKE)3] and LPE [L-PEG12-(EIAALEK)3] is presented. The electrostatic effects of lipid anchored peptides on fusion efficiency was investigated. For this, the original amino acid sequence of the membrane bound LPK was varied at its ‘f’-position of the helical structure, i.e. via mutating the anionic glutamate residues by either neutral serines or cationic lysines. Both CD and fluorescence measurements showed that replacing the negatively charged glutamate did not significantly alter the peptide ability to form a coiled coil, but lipid mixing and content mixing assays showed more efficient liposome-liposome fusion resulting in almost quantitative content mixing for the lysine mutated analogue (LPKK) in conjunction with LPE. A mechanism is proposed for a fusion model triggered by membrane destabilizing effects mediated by the membrane destabilizing activety of LPK in cooperation with the electrostatic activity of LPE. This new insight may enlightens the further development of a promising nano carrier tool for biomedical applications.
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Affiliation(s)
- Tingting Zheng
- Shenzhen Key Laboratory for Drug Addiction and Medication Safety, Department of Ultrasound, Peking University Shenzhen Hospital, Shenzhen Peking University-The Hong Kong University of Science and Technology Medical Center, 518036 Shenzhen, Shenzhen, China
- Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, P. O. Box 9502, 2300RA, Leiden, The Netherlands
| | - Yun Chen
- Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, P. O. Box 9502, 2300RA, Leiden, The Netherlands
| | - Yu Shi
- Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, P. O. Box 9502, 2300RA, Leiden, The Netherlands
| | - Huanhuan Feng
- School of Materials Science and Engineering, Harbin Institute of Technology (Shenzhen), Shenzhen, 518055, China
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8
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Liu H, Zheng T, Zhou Z, Hu A, Li M, Zhang Z, Yu G, Feng H, An Y, Peng J, Chen Y. Berberine nanoparticles for promising sonodynamic therapy of a HeLa xenograft tumour. RSC Adv 2019; 9:10528-10535. [PMID: 35515276 PMCID: PMC9062522 DOI: 10.1039/c8ra09172b] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Accepted: 03/06/2019] [Indexed: 01/05/2023] Open
Abstract
Here we show that berberine (BBR) nanoparticles (BBRNPs, ∼300 nm hydrodynamic diameter) is a promising sonosensitizer for cancer sonodynamic therapy (SDT).
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9
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Drew DL, Ahammad T, Serafin RA, Butcher BJ, Clowes KR, Drake Z, Sahu ID, McCarrick RM, Lorigan GA. Solid phase synthesis and spectroscopic characterization of the active and inactive forms of bacteriophage S 21 pinholin protein. Anal Biochem 2018; 567:14-20. [PMID: 30528914 DOI: 10.1016/j.ab.2018.12.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2018] [Revised: 11/29/2018] [Accepted: 12/03/2018] [Indexed: 01/06/2023]
Abstract
The mechanism for the lysis pathway of double-stranded DNA bacteriophages involves a small hole-forming class of membrane proteins, the holins. This study focuses on a poorly characterized class of holins, the pinholin, of which the S21 protein of phage ϕ21 is the prototype. Here we report the first in vitro synthesis of the wildtype form of the S21 pinholin, S2168, and negative-dominant mutant form, S21IRS, both prepared using solid phase peptide synthesis and studied using biophysical techniques. Both forms of the pinholin were labeled with a nitroxide spin label and successfully incorporated into both bicelles and multilamellar vesicles which are membrane mimetic systems. Circular dichroism revealed the two forms were both >80% alpha helical, in agreement with the predictions based on the literature. The molar ellipticity ratio [θ]222/[θ]208 for both forms of the pinholin was 1.4, suggesting a coiled-coil tertiary structure in the bilayer consistent with the proposed oligomerization step in models for the mechanism of hole formation. 31P solid-state NMR spectroscopic data on pinholin indicate a strong interaction of both forms of the pinholin with the membrane headgroups. The 31P NMR data has an axially symmetric line shape which is consistent with lamellar phase proteoliposomes lipid mimetics.
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Affiliation(s)
- Daniel L Drew
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Tanbir Ahammad
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Rachel A Serafin
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Brandon J Butcher
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Katherine R Clowes
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Zachary Drake
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Indra D Sahu
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Robert M McCarrick
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA
| | - Gary A Lorigan
- Department of Chemistry and Biochemistry, Miami University, Oxford, OH, 45056, USA.
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10
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Burra G, Thakur AK. Insights into the molecular mechanism behind solubilization of amyloidogenic polyglutamine‐containing peptides. Pept Sci (Hoboken) 2018. [DOI: 10.1002/pep2.24094] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Gunasekhar Burra
- Department of Biological Sciences and BioengineeringIndian Institute of Technology Kanpur Kanpur‐208016 India
| | - Ashwani Kumar Thakur
- Department of Biological Sciences and BioengineeringIndian Institute of Technology Kanpur Kanpur‐208016 India
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11
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Kumar P, van Son M, Zheng T, Valdink D, Raap J, Kros A, Huber M. Coiled-coil formation of the membrane-fusion K/E peptides viewed by electron paramagnetic resonance. PLoS One 2018; 13:e0191197. [PMID: 29351320 PMCID: PMC5774749 DOI: 10.1371/journal.pone.0191197] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2017] [Accepted: 12/29/2017] [Indexed: 11/18/2022] Open
Abstract
The interaction of the complementary K (Ac-(KIAALKE)3-GW-NH2) and E (Ac-(EIAALEK)3-GY-NH2) peptides, components of the zipper of an artificial membrane fusion system (Robson Marsden H. et al. Angew Chemie Int Ed. 2009) is investigated by electron paramagnetic resonance (EPR). By frozen solution continuous-wave EPR and double electron-electron resonance (DEER), the distance between spin labels attached to the K- and to the E-peptide is measured. Three constructs of spin-labelled K- and E-peptides are used in five combinations for low temperature investigations. The K/E heterodimers are found to be parallel, in agreement with previous studies. Also, K homodimers in parallel orientation were observed, a finding that was not reported before. Comparison to room-temperature, solution EPR shows that the latter method is less specific to detect this peptide-peptide interaction. Combining frozen solution cw-EPR for short distances (1.8 nm to 2.0 nm) and DEER for longer distances thus proves versatile to detect the zipper interaction in membrane fusion. As the methodology can be applied to membrane samples, the approach presented suggests itself for in-situ studies of the complete membrane fusion process, opening up new avenues for the study of membrane fusion.
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Affiliation(s)
- Pravin Kumar
- Department of Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, Leiden, The Netherlands
| | - Martin van Son
- Department of Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, Leiden, The Netherlands
| | - Tingting Zheng
- Department of Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - Dayenne Valdink
- Department of Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - Jan Raap
- Department of Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - Alexander Kros
- Department of Supramolecular and Biomaterials Chemistry, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - Martina Huber
- Department of Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, Leiden, The Netherlands
- * E-mail:
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12
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Rabe M, Aisenbrey C, Pluhackova K, de Wert V, Boyle AL, Bruggeman DF, Kirsch SA, Böckmann RA, Kros A, Raap J, Bechinger B. A Coiled-Coil Peptide Shaping Lipid Bilayers upon Fusion. Biophys J 2016; 111:2162-2175. [PMID: 27851940 PMCID: PMC5113151 DOI: 10.1016/j.bpj.2016.10.010] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2016] [Revised: 09/08/2016] [Accepted: 10/06/2016] [Indexed: 12/19/2022] Open
Abstract
A system based on two designed peptides, namely the cationic peptide K, (KIAALKE)3, and its complementary anionic counterpart called peptide E, (EIAALEK)3, has been used as a minimal model for membrane fusion, inspired by SNARE proteins. Although the fact that docking of separate vesicle populations via the formation of a dimeric E/K coiled-coil complex can be rationalized, the reasons for the peptides promoting fusion of vesicles cannot be fully explained. Therefore it is of significant interest to determine how the peptides aid in overcoming energetic barriers during lipid rearrangements leading to fusion. In this study, investigations of the peptides' interactions with neutral PC/PE/cholesterol membranes by fluorescence spectroscopy show that tryptophan-labeled K∗ binds to the membrane (KK∗ ∼6.2 103 M-1), whereas E∗ remains fully water-solvated. 15N-NMR spectroscopy, depth-dependent fluorescence quenching, CD-spectroscopy experiments, and MD simulations indicate a helix orientation of K∗ parallel to the membrane surface. Solid-state 31P-NMR of oriented lipid membranes was used to study the impact of peptide incorporation on lipid headgroup alignment. The membrane-immersed K∗ is found to locally alter the bilayer curvature, accompanied by a change of headgroup orientation relative to the membrane normal and of the lipid composition in the vicinity of the bound peptide. The NMR results were supported by molecular dynamics simulations, which showed that K reorganizes the membrane composition in its vicinity, induces positive membrane curvature, and enhances the lipid tail protrusion probability. These effects are known to be fusion relevant. The combined results support the hypothesis for a twofold role of K in the mechanism of membrane fusion: 1) to bring opposing membranes into close proximity via coiled-coil formation and 2) to destabilize both membranes thereby promoting fusion.
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Affiliation(s)
- Martin Rabe
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands.
| | | | - Kristyna Pluhackova
- Computational Biology, Department of Biology, University of Erlangen-Nürnberg, Erlangen, Germany
| | - Vincent de Wert
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands
| | - Aimee L Boyle
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands
| | - Didjay F Bruggeman
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands
| | - Sonja A Kirsch
- Computational Biology, Department of Biology, University of Erlangen-Nürnberg, Erlangen, Germany
| | - Rainer A Böckmann
- Computational Biology, Department of Biology, University of Erlangen-Nürnberg, Erlangen, Germany
| | - Alexander Kros
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands
| | - Jan Raap
- Leiden Institute of Chemistry - Supramolecular and Biomaterials Chemistry, Leiden University, Leiden, the Netherlands
| | - Burkhard Bechinger
- Université de Strasbourg/CNRS UMR7177, Institut de Chimie, Strasbourg, France.
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Zheng T, Bulacu M, Daudey G, Versluis F, Voskuhl J, Martelli G, Raap J, Sevink GJA, Kros A, Boyle AL. A non-zipper-like tetrameric coiled coil promotes membrane fusion. RSC Adv 2016. [DOI: 10.1039/c5ra26175a] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A parallel heterodimeric coiled coil can be mutated to an antiparallel tetrameric species by reversing the sequences of one of the peptides. This tetramer is capable of facilitating fast, efficient, membrane fusion of liposomes.
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Affiliation(s)
- Tingting Zheng
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | | | - Geert Daudey
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Frank Versluis
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Jens Voskuhl
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Giuliana Martelli
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Jan Raap
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - G. J. Agur Sevink
- Solid State NMR
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Alexander Kros
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
| | - Aimee L. Boyle
- Supramolecular and Biomaterials Chemistry
- Leiden Institute of Chemistry
- Leiden University
- Leiden
- The Netherlands
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14
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Han M, Suh JY. Dynamics of the mobile insert helix in the domain III-IV of Aux/IAA17 probed by site-directed spin labeling and paramagnetic NMR spectroscopy. JOURNAL OF THE KOREAN MAGNETIC RESONANCE SOCIETY 2015. [DOI: 10.6564/jkmrs.2015.19.2.061] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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