1
|
Komarova TY, Zinn T, Narayanan T, Petukhov AV, Landman J. Microtube self-assembly leads to conformational freezing point depression. J Colloid Interface Sci 2024; 677:781-789. [PMID: 39121662 DOI: 10.1016/j.jcis.2024.08.003] [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: 06/14/2024] [Revised: 07/29/2024] [Accepted: 08/01/2024] [Indexed: 08/12/2024]
Abstract
HYPOTHESIS Multi-walled tubular aggregates formed by hierarchical self-assembly of beta-cyclodextrin (β-CD) and sodium dodecylsulfate (SDS) hold a great potential as microcarriers. However, the underlying mechanism for this self-assembly is not well understood. To advance the application of these structures, it is essential to fine-tune the cavity size and comprehensively elucidate the energetic balance driving their formation: the bending modulus versus the microscopic line tension. EXPERIMENTS We investigated temperature-induced changes in the hierarchical tubular aggregates using synchrotron small-angle X-ray scattering across a broad concentration range. Detailed analysis of the scattering patterns enabled us to determine the structural parameters of the microtubes and to construct a phase diagram of the system. FINDINGS The microtubes grow from the outside in and melt from the inside out. We relate derived structural parameters to enthalpic changes driving the self-assembly process on the molecular level in terms of their bending modulus and microscopic line tension. We find that the conformation of the crystalline bilayer affects the saturation concentration, providing an example of a phenomenon we call conformational freezing point depression. Inspired by the colligative phenomenon of freezing point depression, well known from undergraduate physics, we model this system by including the membrane conformation, which can describe the energetics of this hierarchical system and give access to microscopic properties without free parameters.
Collapse
Affiliation(s)
- Tatiana Yu Komarova
- Van't Hoff Laboratory for Physical & Colloid Chemistry, Padualaan 8, Utrecht, 3584 CH, the Netherlands
| | - Thomas Zinn
- ESRF - The European Synchrotron, Grenoble, 38043, France
| | | | - Andrei V Petukhov
- Van't Hoff Laboratory for Physical & Colloid Chemistry, Padualaan 8, Utrecht, 3584 CH, the Netherlands
| | - Jasper Landman
- Physics & Physical Chemistry of Foods, Wageningen University & Research, Bornse Weilanden 9, Wageningen, 6708 WG, the Netherlands.
| |
Collapse
|
2
|
Adak A, Castelletto V, Mendes B, Barrett G, Seitsonen J, Hamley IW. Chirality and pH Influence the Self-Assembly of Antimicrobial Lipopeptides with Diverse Nanostructures. ACS APPLIED BIO MATERIALS 2024. [PMID: 39042039 DOI: 10.1021/acsabm.4c00664] [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: 07/24/2024]
Abstract
Chirality plays a crucial role in the self-assembly of biomolecules in nature. Peptides show chirality-dependent conformation and self-assembly. Lipidation of peptides occurs in vivo and has recently been exploited in designed conjugates to drive self-assembly and enhance bioactivity. Here, a library of pH-responsive homochiral and heterochiral lipidated tripeptides has been designed. The designed lipopeptides comprise homochiral C16-YKK or C16-WKK (where all the amino acids are l-isomers), and two heterochiral conjugates C16-Ykk and C16-Wkk (where the two lysines are d-isomers). The self-assembly of all the synthesized lipopeptides in aqueous solution was examined using a combination of spectroscopic methods along with cryogenic-transmission electron microscopy (cryo-TEM) and small-angle X-ray scattering (SAXS). Interestingly, it was observed that at acidic pH all the lipopeptides self-assemble into micelles, whereas at basic pH the homochiral lipopeptides self-assemble into nanofibers, whereas the heterochiral lipopeptides self-assemble into nanotapes and nanotubes. A pH switch was demonstrated using a thioflavin T fluorescence probe of β-sheet structure present in the extended structures at pH 8. We demonstrate that both chirality and pH in lipopeptides influence the self-assembly behavior of the model tripeptides, which also show promising bioactivity. Good cytocompatibility is observed in hemolytic assays and antimicrobial activity against both Gram-negative and Gram-positive bacteria is shown through the determination of minimum inhibition concentration (MIC) and minimum bactericidal concentration (MBC) values and live/dead bacteria staining assay.
Collapse
Affiliation(s)
- Anindyasundar Adak
- School of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights, Reading RG6 6AD, U.K
| | - Valeria Castelletto
- School of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights, Reading RG6 6AD, U.K
| | - Bruno Mendes
- School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AH, U.K
| | - Glyn Barrett
- School of Biological Sciences, University of Reading, Whiteknights, Reading RG6 6AH, U.K
| | - Jani Seitsonen
- Nanomicroscopy Center, Aalto University, Puumiehenkuja 2, FIN-02150 Espoo, Finland
| | - Ian W Hamley
- School of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights, Reading RG6 6AD, U.K
| |
Collapse
|
3
|
Singh IR, Aggarwal N, Srivastava S, Panda JJ, Mishra J. Small Peptide-Based Nanodelivery Systems for Cancer Therapy and Diagnosis. J Pharmacol Exp Ther 2024; 390:30-44. [PMID: 37977815 DOI: 10.1124/jpet.123.001845] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2023] [Revised: 10/04/2023] [Accepted: 10/24/2023] [Indexed: 11/19/2023] Open
Abstract
Developing nano-biomaterials with tunable topology, size, and surface characteristics has shown tremendously favorable benefits in various biologic and clinical applications. Among various nano-biomaterials, peptide-based drug delivery systems offer multiple merits over other synthetic systems due to their enhanced bio- and cytocompatibility and desirable biochemical and biophysical properties. Currently, around 100 peptide-based drugs are clinically available for numerous therapeutic purposes. In conjugation with chemotherapeutic moieties, peptides demonstrate a remarkable ability to reduce nonspecific drug effects by improving drug targetability at cancer sites. This review encompasses a wide-ranging role played by different peptide-based nanostructures in cancer theranostics. Section 1 introduces the rising concern about cancer as a disease and further describes peptide-based nanomaterials as biomedical agents to tackle the ailment. The subsequent section explores the mechanistic pathways behind the self-assembly of peptides to form hierarchically distinct assemblies. The crux of our review lies in an exhaustive exploration of the applications of various types of peptide-based nanostructures in cancer therapy and diagnosis. SIGNIFICANCE STATEMENT: Peptide-based drug delivery systems possess superior biocompatibility, biochemical, and biophysical properties compared to other synthetic alternatives. The development of these nano-biomaterials with customizable topology, size, and surface characteristics have shown promising outcomes in biomedical contexts. Peptides in conjunction with chemotherapeutic agents exhibit the ability to enhance drug targetability at cancer sites, reducing nonspecific drug effects. This comprehensive review emphasizes the pivotal role of diverse peptide-based nanostructures as cancer theranostics, elucidating their potential in revolutionizing cancer therapy and diagnosis.
Collapse
Affiliation(s)
- Imocha Rajkumar Singh
- Chemical Biology Unit, Institute of Nano Science and Technology, Mohali, India (I.R.S., N.A., S.S., J.J.P.) and School of Biosciences, RIMT University, Mandi Gobindgarh, India (J.M.)
| | - Nidhi Aggarwal
- Chemical Biology Unit, Institute of Nano Science and Technology, Mohali, India (I.R.S., N.A., S.S., J.J.P.) and School of Biosciences, RIMT University, Mandi Gobindgarh, India (J.M.)
| | - Swapnil Srivastava
- Chemical Biology Unit, Institute of Nano Science and Technology, Mohali, India (I.R.S., N.A., S.S., J.J.P.) and School of Biosciences, RIMT University, Mandi Gobindgarh, India (J.M.)
| | - Jiban Jyoti Panda
- Chemical Biology Unit, Institute of Nano Science and Technology, Mohali, India (I.R.S., N.A., S.S., J.J.P.) and School of Biosciences, RIMT University, Mandi Gobindgarh, India (J.M.)
| | - Jibanananda Mishra
- Chemical Biology Unit, Institute of Nano Science and Technology, Mohali, India (I.R.S., N.A., S.S., J.J.P.) and School of Biosciences, RIMT University, Mandi Gobindgarh, India (J.M.)
| |
Collapse
|
4
|
Shao T, Noroozifar M, Kraatz HB. Divalent metal ion modulation of a simple peptide-based hydrogel: self-assembly and viscoelastic properties. SOFT MATTER 2024; 20:2720-2729. [PMID: 38454905 DOI: 10.1039/d3sm01544k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/09/2024]
Abstract
Peptide self-assembly has been highly studied to understand the pathways in forming higher order structures along with the development and application of resulting hydrogel materials. Driven by noncovalent interactions, peptide hydrogels are stimuli-responsive to any addition to its gelling conditions. Here, a Phe-His based peptide, C14-FH(Trt)-OH, was synthesized and characterized with 1H NMR, FT-IR, MS, UV-vis spectroscopies and elemental analysis. Based on SEM imaging, the dipeptide conjugate was capable of forming a nanofibrous, interconnected network encapsulating buffer to produce a supramolecular hydrogel. Through the addition of Zn2+ and Cu2+, there is a clear change in the self-assembled nanostructures characterized through SEM. With this effect on self-assembly follows a change in the viscoelastic properties of the material, as determined through rheological frequency sweeps, with 2 and 3 orders of magnitude decreases in the elastic modulus G' in the presence of Zn2+ and Cu2+ respectively. This highlights the tunability of soft material properties with peptide design and self-assembly, through metal ions and Nδ-directed coordination.
Collapse
Affiliation(s)
- Tsuimy Shao
- Department of Chemistry, University of Toronto, 80 St. George Street, M5S 3H6, Toronto, Canada
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1065 Military Trail, M1C 1A4, Scarborough, Canada.
| | - Meissam Noroozifar
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1065 Military Trail, M1C 1A4, Scarborough, Canada.
| | - Heinz-Bernhard Kraatz
- Department of Chemistry, University of Toronto, 80 St. George Street, M5S 3H6, Toronto, Canada
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, 1065 Military Trail, M1C 1A4, Scarborough, Canada.
| |
Collapse
|
5
|
Heble AY, Chen CL. Access to Advanced Functional Materials through Postmodification of Biomimetic Assemblies via Click Chemistry. Biomacromolecules 2024; 25:1391-1407. [PMID: 38422548 DOI: 10.1021/acs.biomac.3c01454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2024]
Abstract
The design, synthesis, and fabrication of functional nanomaterials with specific properties remain a long-standing goal for many scientific fields. The self-assembly of sequence-defined biomimetic synthetic polymers presents a fundamental strategy to explore the chemical space beyond biological systems to create advanced nanomaterials. Moreover, subsequent chemical modification of existing nanostructures is a unique approach for accessing increasingly complex nanostructures and introducing functionalities. Of these modifications, covalent conjugation chemistries, such as the click reactions, have been the cornerstone for chemists and materials scientists. Herein, we highlight some recent advances that have successfully employed click chemistries for the postmodification of assembled one-dimensional (1D) and two-dimensional (2D) nanostructures to achieve applications in molecular recognition, mineralization, and optoelectronics. Specifically, biomimetic nanomaterials assembled from sequence-defined macromolecules such as peptides and peptoids are described.
Collapse
Affiliation(s)
- Annie Y Heble
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
| | - Chun-Long Chen
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354, United States
- Department of Chemical Engineering, University of Washington, Seattle, Washington 98195, United States
| |
Collapse
|
6
|
Guo XY, Yi L, Yang J, An HW, Yang ZX, Wang H. Self-assembly of peptide nanomaterials at biointerfaces: molecular design and biomedical applications. Chem Commun (Camb) 2024; 60:2009-2021. [PMID: 38275083 DOI: 10.1039/d3cc05811e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2024]
Abstract
Self-assembly is an important strategy for constructing ordered structures and complex functions in nature. Based on this, people can imitate nature and artificially construct functional materials with novel structures through the supermolecular self-assembly pathway of biological interfaces. Among the many assembly units, peptide molecular self-assembly has received widespread attention in recent years. In this review, we introduce the interactions (hydrophobic interaction, hydrogen bond, and electrostatic interaction) between peptide nanomaterials and biological interfaces, summarizing the latest advancements in multifunctional self-assembling peptide materials. We systematically demonstrate the assembly mechanisms of peptides at biological interfaces, such as proteins and cell membranes, while highlighting their application potential and challenges in fields like drug delivery, antibacterial strategies, and cancer therapy.
Collapse
Affiliation(s)
- Xin-Yuan Guo
- College of Chemistry, Huazhong Agricultural University, Shizishan 1, Hongshan District, Wuhan, 430070, China
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology (NCNST), Beijing, 100190, China.
| | - Li Yi
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology (NCNST), Beijing, 100190, China.
| | - Jia Yang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology (NCNST), Beijing, 100190, China.
| | - Hong-Wei An
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology (NCNST), Beijing, 100190, China.
| | - Zi-Xin Yang
- College of Chemistry, Huazhong Agricultural University, Shizishan 1, Hongshan District, Wuhan, 430070, China
| | - Hao Wang
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, CAS Center for Excellence in Nanoscience, National Center for Nanoscience and Technology (NCNST), Beijing, 100190, China.
| |
Collapse
|
7
|
Xu H, Qi K, Zong C, Deng J, Zhou P, Hu X, Ma X, Wang D, Wang M, Zhang J, King SM, Rogers SE, Lu JR, Yang J, Wang J. Controlling 1D Nanostructures and Handedness by Polar Residue Chirality of Amphiphilic Peptides. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024; 20:e2304424. [PMID: 37726235 DOI: 10.1002/smll.202304424] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2023] [Revised: 08/17/2023] [Indexed: 09/21/2023]
Abstract
Peptide assemblies are promising nanomaterials, with their properties and technological applications being highly hinged on their supramolecular architectures. Here, how changing the chirality of the terminal charged residues of an amphiphilic hexapeptide sequence Ac-I4 K2 -NH2 gives rise to distinct nanostructures and supramolecular handedness is reported. Microscopic imaging and neutron scattering measurements show thin nanofibrils, thick nanofibrils, and wide nanotubes self-assembled from four stereoisomers. Spectroscopic and solid-state nuclear magnetic resonance (NMR) analyses reveal that these isomeric peptides adopt similar anti-parallel β-sheet secondary structures. Further theoretical calculations demonstrate that the chiral alterations of the two C-terminal lysine residues cause the formation of diverse single β-strand conformations, and the final self-assembled nanostructures and handedness are determined by the twisting direction and degree of single β-strands. This work not only lays a useful foundation for the fabrication of diverse peptide nanostructures by manipulating the chirality of specific residues but also provides a framework for predicting the supramolecular structures and handedness of peptide assemblies from single molecule conformations.
Collapse
Affiliation(s)
- Hai Xu
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| | - Kai Qi
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| | - Cheng Zong
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| | - Jing Deng
- National Center for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, 430071, China
| | - Peng Zhou
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
- State Key Laboratory of Biochemical Engineering, Institute of Process Engineering, Chinese Academy of Science, Beijing, 100190, China
| | - Xuzhi Hu
- Biological Physics Group, Department of Physics and Astronomy, The University of Manchester, Manchester, M13 9PL, UK
| | - Xiaoyue Ma
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| | - Dong Wang
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| | - Muhan Wang
- Department of Civil Engineering, Qingdao University of Technology, Qingdao, 266033, China
| | - Jun Zhang
- School of Materials Science and Engineering, China University of Petroleum (East China), Qingdao, 266033, China
| | - Stephen M King
- ISIS Pulsed Neutron & Muon Source, Didcot, Oxon, OX11 0QX, UK
| | - Sarah E Rogers
- ISIS Pulsed Neutron & Muon Source, Didcot, Oxon, OX11 0QX, UK
| | - Jian Ren Lu
- Biological Physics Group, Department of Physics and Astronomy, The University of Manchester, Manchester, M13 9PL, UK
| | - Jun Yang
- National Center for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, 430071, China
| | - Jiqian Wang
- State Key Laboratory of Heavy Oil Processing and Department of Biological and Energy Chemical Engineering, China University of Petroleum (East China), Qingdao, 266580, China
| |
Collapse
|
8
|
Gowda A, Pathak SK, Rohaley GAR, Acharjee G, Oprandi A, Williams R, Prévôt ME, Hegmann T. Organic chiral nano- and microfilaments: types, formation, and template applications. MATERIALS HORIZONS 2024; 11:316-340. [PMID: 37921354 DOI: 10.1039/d3mh01390a] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/04/2023]
Abstract
Organic chiral nanofilaments are part of an important class of nanoscale chiral materials that has recently been receiving significant attention largely due to their potential use in applications such as optics, photonics, metameterials, and potentially a range of medical as well as sensing applications. This review will focus on key examples of the formation of such nano- and micro-filaments based on carbon nanofibers, polymers, synthetic oligo- and polypeptides, self-assembled organic molecules, and one prominent class of liquid crystals. The most critical aspects discussed here are the underlying driving forces for chiral filament formation, potentially answering why specific sizes and shapes are formed, what molecular design strategies are working equally well or rather differently among these materials classes, and what uses and applications are driving research in this fascinating field of materials science.
Collapse
Affiliation(s)
- Ashwathanarayana Gowda
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
| | - Suraj Kumar Pathak
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
| | - Grace A R Rohaley
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
- Materials Science Graduate Program, Kent State University, Kent, OH 44242, USA
| | - Gourab Acharjee
- Department of Chemistry and Biochemistry, Kent State University, Kent, OH 44242, USA
| | - Andrea Oprandi
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
- Materials Science Graduate Program, Kent State University, Kent, OH 44242, USA
| | - Ryan Williams
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
- Materials Science Graduate Program, Kent State University, Kent, OH 44242, USA
| | - Marianne E Prévôt
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
- Department of Chemistry and Biochemistry, Kent State University, Kent, OH 44242, USA
| | - Torsten Hegmann
- Advanced Materials and Liquid Crystal Institute, Kent State University, Kent, OH 44242, USA.
- Brain Health Research Institute, Kent State University, Kent, OH 44242, USA
| |
Collapse
|
9
|
Li F, Tang R, Kang Y, Cui X, Wang Y, Yang X. Fluorescent composite based on peptide nanotubes activating coumarin 6 for sensitive detection of new coccine in food samples. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 305:123492. [PMID: 37844452 DOI: 10.1016/j.saa.2023.123492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 09/18/2023] [Accepted: 10/02/2023] [Indexed: 10/18/2023]
Abstract
New coccine (NC), as a kind of common colorant, has been frequently used in our daily life. Herein, the fluorescent composite (PNTs@C6) prepared by the hydrophobic non-covalent interaction between peptide nanotubes and coumarin 6 (C6) was designed for the determination of NC. Due to the activation of C6 by peptide nanotubes, the composite exhibits strong green fluorescence emission, which can be selectively quenched by NC through the inner filter effect. Therefore, a new fluorescent method based on the PNTs@C6 composite for NC detection was constructed. Under optimal conditions, the fluorescence quenching of the sensor exhibits a good linear relationship with the concentration of NC in the range of 0.01-10 μM and the limit of detection is 3.6 nM. Furthermore, the strategy shows simplicity, rapid response and high selectivity and has been successfully applied to the detection of NC in food samples.
Collapse
Affiliation(s)
- Fang Li
- College of Chemistry and Chemical Engineering, Chemical Synthesis and Pollution Control Key Laboratory of Sichuan Province, China West Normal University, Nanchong 637000, China
| | - Rong Tang
- College of Chemistry and Chemical Engineering, Chemical Synthesis and Pollution Control Key Laboratory of Sichuan Province, China West Normal University, Nanchong 637000, China
| | - Yujie Kang
- College of Chemistry and Chemical Engineering, Chemical Synthesis and Pollution Control Key Laboratory of Sichuan Province, China West Normal University, Nanchong 637000, China
| | - Xiaoyan Cui
- Nanchong Food and Drug Inspection Institute, Nanchong 637000, China
| | - Ya Wang
- College of Chemistry and Chemical Engineering, Chemical Synthesis and Pollution Control Key Laboratory of Sichuan Province, China West Normal University, Nanchong 637000, China.
| | - Xiupei Yang
- College of Chemistry and Chemical Engineering, Chemical Synthesis and Pollution Control Key Laboratory of Sichuan Province, China West Normal University, Nanchong 637000, China.
| |
Collapse
|
10
|
Moral R, Paul S. Exploring Cyclic Peptide Nanotube Stability Across Diverse Lipid Bilayers and Unveiling Water Transport Dynamics. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:882-895. [PMID: 38134046 DOI: 10.1021/acs.langmuir.3c03030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2023]
Abstract
Cyclic Peptide Nanotubes (CPNTs) have emerged as compelling candidates for various applications, particularly as nanochannels within lipid bilayers. In this study, the stability of two CPNTs, namely 8 × [(Cys-Gly-Met-Gly)2] and 8 × [(Gly-Leu)4], are comprehensively investigated across different lipid bilayers, including 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC), a mixed model membrane (POPE/POPG), and a realistic yeast model membrane. The results demonstrate that both CPNTs maintain their tubular structures in all lipid bilayers, with [(Cys-Gly-Met-Gly)2] showing increased stability over an extended period in these lipid membranes. The insertion of CPNTs shows negligible impact on lipid bilayer properties, including area per lipid, volume per lipid, and bilayer thickness. The study demonstrates that the CPNT preserves its two-line water movement pattern within all the lipid membranes, reaffirming their potential as water channels. The MSD curves further reveal that the dynamics of water molecules inside the nanotube are similar for all the bilayer systems with minor differences that arise due to different lipid environments.
Collapse
Affiliation(s)
- Rimjhim Moral
- Department of Chemistry, Indian Institute of Technology, Guwahati, Assam 781039, India
| | - Sandip Paul
- Department of Chemistry, Indian Institute of Technology, Guwahati, Assam 781039, India
| |
Collapse
|
11
|
Yang L, Wang Y, Zhang W, Ma G. New Insight into the Structural Nature of Diphenylalanine Nanotube through Comparison with Amyloid Assemblies. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:1046-1057. [PMID: 38153333 DOI: 10.1021/acs.langmuir.3c03270] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/29/2023]
Abstract
Diphenylalanine (FF) nanotubes are a star material in the field of peptide self-assembly and have demonstrated numerous intriguing applications. Due to its resemblance to amyloid assembly, the FF nanotube is widely regarded as a simplified mimic of amyloids. Yet, whether FF nanotube truly possesses amyloid structure remains an open question. To better understand the structural nature of FF nanotube, we herein performed a comparative structural investigation between FF nanotube and typical amyloid systems by Aβ1-40, Aβ1-42, Aβ16-22, Aβ13-23, α-synuclein, and lysozyme using Fourier transform infrared spectroscopy. Through this comparative investigation, we obtained clear evidence to support that the FF nanotube does not possess a β-sheet structure, a key structural characteristic of amyloid assembly, thus revealing the non-amyloid structural nature of the FF nanotube. At last, in light of our new finding, we further discussed the unique self-assembly behaviors of FF during nanotube formation and the implications of our work for FF nanotube related applications.
Collapse
Affiliation(s)
- Lujuan Yang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, State Key Laboratory of New Pharmaceutical Preparations and Excipients, College of Chemistry and Materials Science, Hebei University, Baoding 071002, China
| | - Yao Wang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, State Key Laboratory of New Pharmaceutical Preparations and Excipients, College of Chemistry and Materials Science, Hebei University, Baoding 071002, China
| | - Wenkai Zhang
- Department of Physics, Applied Optics Beijing Area Major Laboratory, Center for Advanced Quantum Studies, Beijing Normal University, Beijing 100875, China
| | - Gang Ma
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis of Ministry of Education, Key Laboratory of Analytical Science and Technology of Hebei Province, State Key Laboratory of New Pharmaceutical Preparations and Excipients, College of Chemistry and Materials Science, Hebei University, Baoding 071002, China
| |
Collapse
|
12
|
Chen J, Qiu Z, Huang J. Structure and Dynamics of Confined Water Inside Diphenylalanine Peptide Nanotubes. ACS OMEGA 2023; 8:42936-42950. [PMID: 38024738 PMCID: PMC10652825 DOI: 10.1021/acsomega.3c06071] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 09/22/2023] [Accepted: 10/19/2023] [Indexed: 12/01/2023]
Abstract
Diphenylalanine (FF) peptides exhibit a unique ability to self-assemble into nanotubes with confined water molecules playing pivotal roles in their structure and function. This study investigates the structure and dynamics of diphenylalanine peptide nanotubes (FFPNTs) using all-atom molecular dynamics (MD) and grand canonical Monte Carlo combined with MD (GCMC/MD) simulations with both the CHARMM additive and Drude polarizable force fields. The occupancy and dynamics of confined water molecules were also examined. It was found that less than 2 confined water molecules per FF help stabilize the FFPNTs on the x-y plane. Analyses of the kinetics of confined water molecules revealed distinctive transport behaviors for bound and free water, and their respective diffusion coefficients were compared. Our results validate the importance of polarizable force field models in studying peptide nanotubes and provide insights into our understanding of nanoconfined water.
Collapse
Affiliation(s)
- Jinfeng Chen
- College
of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310027, China
- Key
Laboratory of Structural Biology of Zhejiang Province, School of Life
Sciences, Westlake University, Hangzhou, Zhejiang 310024, China
- Westlake
AI Therapeutics Lab, Westlake Laboratory
of Life Sciences and Biomedicine, Hangzhou, Zhejiang 310024, China
| | - Zongyang Qiu
- Key
Laboratory of Structural Biology of Zhejiang Province, School of Life
Sciences, Westlake University, Hangzhou, Zhejiang 310024, China
- Westlake
AI Therapeutics Lab, Westlake Laboratory
of Life Sciences and Biomedicine, Hangzhou, Zhejiang 310024, China
| | - Jing Huang
- Key
Laboratory of Structural Biology of Zhejiang Province, School of Life
Sciences, Westlake University, Hangzhou, Zhejiang 310024, China
- Westlake
AI Therapeutics Lab, Westlake Laboratory
of Life Sciences and Biomedicine, Hangzhou, Zhejiang 310024, China
| |
Collapse
|
13
|
Parra RD. Hydrogen-Bond-Driven Peptide Nanotube Formation: A DFT Study. Molecules 2023; 28:6217. [PMID: 37687047 PMCID: PMC10488343 DOI: 10.3390/molecules28176217] [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: 07/28/2023] [Revised: 08/21/2023] [Accepted: 08/23/2023] [Indexed: 09/10/2023] Open
Abstract
DFT calculations were carried out to examine geometries and binding energies of H-bond-driven peptide nanotubes. A bolaamphiphile molecule, consisting of two N-α amido glycylglycine head groups linked by either one CH2 group or seven CH2 groups, is used as a building block for nanotube self-assembly. In addition to hydrogen bonds between adjacent carboxy or amide groups, nanotube formation is also driven by weak C-H· · ·O hydrogen bonds between a methylene group and the carboxy OH group, and between a methylene group and an amide O=C group. The intratubular O-H· · ·O=C hydrogen bonds account for approximately a third of the binding energies. Binding energies calculated with the wB97XD/DGDZVP method show that the hydrocarbon chains play a stabilizing role in nanotube self-assembly. The shortest nanotube has the length of a single monomer and a diameter than increases with the number of monomers. Lengthening of the tubular structure occurs through intertubular O-H· · ·O=C hydrogen bonds. The average intertubular O-H· · ·O=C hydrogen bond binding energy is estimated to change with the size of the nanotubes, decreasing slightly towards some plateau value near 15 kcal/mol according to the wB97XD/DGDZVP method.
Collapse
Affiliation(s)
- Rubén D Parra
- Department of Chemistry and Biochemistry, DePaul University, Chicago, IL 60614, USA
| |
Collapse
|
14
|
Hamley IW, Castelletto V. Small-angle scattering techniques for peptide and peptide hybrid nanostructures and peptide-based biomaterials. Adv Colloid Interface Sci 2023; 318:102959. [PMID: 37473606 DOI: 10.1016/j.cis.2023.102959] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 07/03/2023] [Accepted: 07/04/2023] [Indexed: 07/22/2023]
Abstract
The use of small-angle scattering (SAS) in the study of the self-assembly of peptides and peptide conjugates (lipopeptides, polymer-peptide conjugates and others) is reviewed, highlighting selected research that illustrates different methods and analysis techniques. Both small-angle x-ray scattering (SAXS) and small-angle neutron scattering (SANS) are considered along with examples that exploit their unique capabilities. For SAXS, this includes the ability to perform rapid measurements enabling high throughput or fast kinetic studies and measurements under dilute conditions. For SANS, contrast variation using H2O/D2O mixtures enables the study of peptides interacting with lipids and TR-SANS (time-resolved SANS) studies of exchange kinetics and/or peptide-induced structural changes. Examples are provided of studies measuring form factors of different self-assembled structures (micelles, fibrils, nanotapes, nanotubes etc) as well as structure factors from ordered phases (lyotropic mesophases), peptide gels and hybrid materials such as membranes formed by mixing peptides with polysaccharides or peptide/liposome mixtures. SAXS/WAXS (WAXS: wide-angle x-ray scattering) on peptides and peptide hybrids is also discussed, and the review concludes with a perspective on potential future directions for research in the field.
Collapse
Affiliation(s)
- Ian W Hamley
- Department of Chemistry, University of Reading, Whiteknights, Reading RG6 6AD, UK.
| | - Valeria Castelletto
- Department of Chemistry, University of Reading, Whiteknights, Reading RG6 6AD, UK
| |
Collapse
|
15
|
Wang Z, Shang Y, Luo H, Yang C, Yang Z, Ren C, Liu J. Achieving higher hierarchical structures by cooperative assembly of tripeptides with reverse sequences. NANOSCALE 2023; 15:7502-7509. [PMID: 37017562 DOI: 10.1039/d3nr00983a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Hierarchical self-assembly based on peptides in nature is a multi-component interaction process, providing a broad platform for various bionanotechnological applications. However, the study of controlling the hierarchical structure transformation via the cooperation rules of different sequences is still rarely reported. Herein, we report a novel strategy of achieving higher hierarchical structures through cooperative self-assembly of hydrophobic tripeptides with reverse sequences. We unexpectedly found that Nap-FVY and its reverse sequence Nap-YVF self-assembled into nanospheres, respectively, while their mixture formed nanofibers, obviously exhibiting a low-to-high hierarchical structure transformation. Further, this phenomenon was demonstrated by the other two collocations. The cooperation of Nap-VYF and Nap-FYV afforded the transformation from nanofibers to twisted nanoribbons, and the cooperation of Nap-VFY and Nap-YFV realized the transformation from nanoribbons to nanotubes. The reason may be that the cooperative systems in the anti-parallel β-sheet conformation created more hydrogen bond interactions and in-register π-π stacking, promoting a more compact molecular arrangement. This work provides a handy approach for controlled hierarchical assembly and the development of various functional bionanomaterials.
Collapse
Affiliation(s)
- Zhongyan Wang
- Tianjin Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine, Key Laboratory of Radiopharmacokinetics for Innovative Drugs, Institute of Radiation Medicine, Chinese Academy of Medical Sciences & Peking Union Medical College, Tianjin 300192, P.R. China.
| | - Yuna Shang
- College of Chemistry, Tianjin Normal University, Tianjin 300387, P. R. China
| | - Hongjing Luo
- Tianjin Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine, Key Laboratory of Radiopharmacokinetics for Innovative Drugs, Institute of Radiation Medicine, Chinese Academy of Medical Sciences & Peking Union Medical College, Tianjin 300192, P.R. China.
| | - Cuihong Yang
- Tianjin Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine, Key Laboratory of Radiopharmacokinetics for Innovative Drugs, Institute of Radiation Medicine, Chinese Academy of Medical Sciences & Peking Union Medical College, Tianjin 300192, P.R. China.
| | - Zhimou Yang
- State Key Laboratory of Medicinal Chemical Biology, Key Laboratory of Bioactive Materials, Ministry of Education, College of Life Sciences, Nankai University, Tianjin 300071, P. R. China.
| | - Chunhua Ren
- Tianjin Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine, Key Laboratory of Radiopharmacokinetics for Innovative Drugs, Institute of Radiation Medicine, Chinese Academy of Medical Sciences & Peking Union Medical College, Tianjin 300192, P.R. China.
| | - Jianfeng Liu
- Tianjin Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine, Key Laboratory of Radiopharmacokinetics for Innovative Drugs, Institute of Radiation Medicine, Chinese Academy of Medical Sciences & Peking Union Medical College, Tianjin 300192, P.R. China.
| |
Collapse
|
16
|
Sun H, Marelli B. Large-Scale, Proteinaceous Nanotube Arrays with Programmable Hydrophobicity, Oleophilicity, and Gas Permeability. NANO LETTERS 2023; 23:3451-3458. [PMID: 37000712 DOI: 10.1021/acs.nanolett.3c00498] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Nanotubular structures possess remarkable advantages in a broad range of areas, such as catalysis, sensing, microencapsulation, selective mass transport, filtration, and drug delivery. While the fields of carbon nanotubes and nanotubes made of several noncarbon materials (e.g., metals, oxides, semiconductors) have been progressing rapidly, proteinaceous nanotubes remained largely underexplored. Here, by retrofitting a template wetting approach with multiple silk-based suspensions, we present a rapidly scalable and robust technology for fabricating large arrays (e.g., 20 × 20 cm2) of well-aligned 1D nanostructures made of silk proteins. Benefiting from the polymorphic nature of silk, precise control over the size, density, aspect ratio, and morphology (tubes versus pillars) of silk nanostructures is achieved, which then allows for programmable modulation of the end materials' functions and properties (e.g., hydrophobicity, oleophilicity, and gas permeability). The silk nanotube arrays fabricated present great utility as antifouling coatings against marine algae and in oil extraction from oil-water mixtures.
Collapse
Affiliation(s)
- Hui Sun
- Department of Civil and Environmental Engineering Massachusetts Institute of Technology Cambridge, Massachusetts 02139, United States
| | - Benedetto Marelli
- Department of Civil and Environmental Engineering Massachusetts Institute of Technology Cambridge, Massachusetts 02139, United States
| |
Collapse
|
17
|
Zhang X, Ding H, Yang S, Yang H, Yang X, Li B, Xing X, Sun Y, Gu G, Chen X, Gao J, Pan M, Chi L, Guo Q. Kinetic Controlled Chirality Transfer and Induction in 2D Hydrogen-Bonding Assemblies of Glycylglycine on Au(111). SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023; 19:e2207111. [PMID: 36599616 DOI: 10.1002/smll.202207111] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2022] [Revised: 12/13/2022] [Indexed: 06/17/2023]
Abstract
Chirality transfer is of vital importance that dominates the structure and functionality of biological systems and living matters. External physical stimulations, e.g. polarized light and mechanical forces, can trigger the chirality symmetry breaking, leading to the appearance of the enantiomeric entities created from a chiral self-assembly of achiral molecule. Here, several 2D assemblies with different chirality, synthesized on Au(111) surface by using achiral building blocks - glycylglycine (digly), the simplest polypeptide are reported. By delicately tuning the kinetic factors, i.e., one-step slow/rapid deposition, or stepwise slow deposition with mild annealing, achiral square hydrogen-bond organic frameworks (HOF), homochiral rhombic HOF and racemic rectangular assembly are achieved, respectively. Chirality induction and related symmetry broken in assemblies are introduced by the handedness (H-bond configurations in principle) of the assembled motifs and then amplified to the entire assemblies via the interaction between motifs. The results show that the chirality transfer and induction of biological assemblies can be tuned by altering the kinetic factors instead of applying external forces, which may offer an in-depth understanding and practical approach to peptide chiral assembly on the surfaces and can further facilitate the design of desired complex biomolecular superstructures.
Collapse
Affiliation(s)
- Xin Zhang
- School of Physics, Northwest University, Xi'an, 710069, China
| | - Haoxuan Ding
- Physics and Astronomy, University of Birmingham, Birmingham, B15 2TT, UK
| | - Shu Yang
- School of Information Science and Engineering, Fudan University, Shanghai, 200433, China
- Zhuhai Fudan Innovation Institute, Zhuhai, 519000, China
| | - Hualin Yang
- Physics and Astronomy, University of Birmingham, Birmingham, B15 2TT, UK
| | - Xiaoqing Yang
- School of Physics and Information Technology, Shaanxi Normal University, Xi'an, 710119, China
| | - Bosheng Li
- Physics and Astronomy, University of Birmingham, Birmingham, B15 2TT, UK
| | - Xueting Xing
- School of Physics and Information Technology, Shaanxi Normal University, Xi'an, 710119, China
| | - Yaojie Sun
- School of Information Science and Engineering, Fudan University, Shanghai, 200433, China
| | - Guangxin Gu
- Zhuhai Fudan Innovation Institute, Zhuhai, 519000, China
| | - Xiaorui Chen
- School of Mechanical and Material Engineering, Xi'an University, Xi'an, 710065, China
| | - Jianzhi Gao
- School of Physics and Information Technology, Shaanxi Normal University, Xi'an, 710119, China
| | - Minghu Pan
- School of Physics and Information Technology, Shaanxi Normal University, Xi'an, 710119, China
| | - Lifeng Chi
- Institute of Functional Nano & Soft Materials (FUNSOM), Jiangsu Key Laboratory for Carbon-Based Functional Materials & Devices, Soochow University, Suzhou, 215123, China
| | - Quanmin Guo
- Physics and Astronomy, University of Birmingham, Birmingham, B15 2TT, UK
| |
Collapse
|
18
|
Bellotto O, D'Andrea P, Marchesan S. Nanotubes and water-channels from self-assembling dipeptides. J Mater Chem B 2023. [PMID: 36790014 DOI: 10.1039/d2tb02643k] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023]
Abstract
Dipeptides are attractive building blocks for biomaterials in light of their inherent biocompatibility, biodegradability, and simplicity of preparation. Since the discovery of diphenylalanine (Phe-Phe) self-assembling ability into nanotubes, research efforts have been devoted towards the identification of other dipeptide sequences capable of forming these interesting nanomorphologies, although design rules towards nanotube formation are still elusive. In this review, we analyze the dipeptide sequences reported thus far for their ability to form nanotubes, which often feature water-filled supramolecular channels as revealed by single-crystal X-ray diffraction, as well as their properties, and their potential biological applications, which span from drug delivery and regenerative medicine, to bioelectronics and bioimaging.
Collapse
Affiliation(s)
- Ottavia Bellotto
- Chem. Pharm. Sc. Dept., University of Trieste, Via Giorgieri 1, 34127 Trieste, Italy.
| | - Paola D'Andrea
- Life Sc. Dept., University of Trieste, Via Weiss 2, 34128 Trieste, Italy
| | - Silvia Marchesan
- Chem. Pharm. Sc. Dept., University of Trieste, Via Giorgieri 1, 34127 Trieste, Italy. .,INSTM, Unit of Trieste, Via Giorgieri 1, 34127 Trieste, Italy
| |
Collapse
|
19
|
Moral R, Paul S. Influence of salt and temperature on the self-assembly of cyclic peptides in water: a molecular dynamics study. Phys Chem Chem Phys 2023; 25:5406-5422. [PMID: 36723368 DOI: 10.1039/d2cp05160e] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
It is found in the literature that cyclic peptides (CPs) are able to self-assemble in water to form cyclic peptide nanotubes (CPNTs) and are used extensively in the field of nanotechnology. Several factors influence the formation and stability of these nanotubes in water. However, an extensive study of the contribution of several important factors is still lacking. The purpose of this study is to explore the effect of temperature and salt (NaCl) on the association tendency of CPs. Furthermore, the self-association behavior of CPs in aqueous solutions at various temperatures is also thoroughly discussed. Cyclo-[(Asp-D-Leu-Lys-D-Leu)2] is considered for this study and a series of classical molecular dynamics (MD) simulations at three different temperatures, viz. 280 K, 300 K, and 320 K, both in pure water and in NaCl solutions of different concentrations are carried out. The calculations of radial distribution functions, preferential interaction parameters, cluster formation and hydrogen bonding properties suggest a strong influence of NaCl concentration on the association propensity of CPs. Low NaCl concentration hinders CP association while high NaCl concentration facilitates the association of CPs. Besides this, the association of CPs is found to be enhanced at low temperature. Furthermore, the thermodynamics of CP association is predominantly found to be enthalpy driven in both the presence and absence of salt. No crossover between enthalpy and entropy in CP association is observed. In addition, the MM-GBSA method is used to investigate the binding free energies of the CP rings that self-assembled to form nanotube like structures at all three temperatures.
Collapse
Affiliation(s)
- Rimjhim Moral
- Department of Chemistry, Indian Institute of Technology, Guwahati Assam, 781039, India.
| | - Sandip Paul
- Department of Chemistry, Indian Institute of Technology, Guwahati Assam, 781039, India.
| |
Collapse
|
20
|
Rosa E, de Mello L, Castelletto V, Dallas ML, Accardo A, Seitsonen J, Hamley IW. Cell Adhesion Motif-Functionalized Lipopeptides: Nanostructure and Selective Myoblast Cytocompatibility. Biomacromolecules 2023; 24:213-224. [PMID: 36520063 PMCID: PMC9832505 DOI: 10.1021/acs.biomac.2c01068] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
The conformation and self-assembly of four lipopeptides, peptide amphiphiles comprising peptides conjugated to lipid chains, in aqueous solution have been examined. The peptide sequence in all four lipopeptides contains the integrin cell adhesion RGDS motif, and the cytocompatibility of the lipopeptides is also analyzed. Lipopeptides have either tetradecyl (C14, myristyl) or hexadecyl (C16, palmitoyl) lipid chains and peptide sequence WGGRGDS or GGGRGDS, that is, with either a tryptophan-containing WGG or triglycine GGG tripeptide spacer between the bioactive peptide motif and the alkyl chain. All four lipopeptides self-assemble above a critical aggregation concentration (CAC), determined through several comparative methods using circular dichroism (CD) and fluorescence. Spectroscopic methods [CD and Fourier transform infrared (FTIR) spectroscopy] show the presence of β-sheet structures, consistent with the extended nanotape, helical ribbon, and nanotube structures observed by cryogenic transmission electron microscopy (cryo-TEM). The high-quality cryo-TEM images clearly show the coexistence of helically twisted ribbon and nanotube structures for C14-WGGRGDS, which highlight the mechanism of nanotube formation by the closure of the ribbons. Small-angle X-ray scattering shows that the nanotapes comprise highly interdigitated peptide bilayers, which are also present in the walls of the nanotubes. Hydrogel formation was observed at sufficiently high concentrations or could be induced by a heat/cool protocol at lower concentrations. Birefringence due to nematic phase formation was observed for several of the lipopeptides, along with spontaneous flow alignment of the lyotropic liquid crystal structure in capillaries. Cell viability assays were performed using both L929 fibroblasts and C2C12 myoblasts to examine the potential uses of the lipopeptides in tissue engineering, with a specific focus on application to cultured (lab-grown) meat, based on myoblast cytocompatibility. Indeed, significantly higher cytocompatibility of myoblasts was observed for all four lipopeptides compared to that for fibroblasts, in particular at a lipopeptide concentration below the CAC. Cytocompatibility could also be improved using hydrogels as cell supports for fibroblasts or myoblasts. Our work highlights that precision control of peptide sequences using bulky aromatic residues within "linker sequences" along with alkyl chain selection can be used to tune the self-assembled nanostructure. In addition, the RGDS-based lipopeptides show promise as materials for tissue engineering, especially those of muscle precursor cells.
Collapse
Affiliation(s)
- Elisabetta Rosa
- School
of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights,
Reading, Berkshire RG6 6AD, U.K.,Department
of Pharmacy and Research Centre on Bioactive Peptides (CIRPeB), University of Naples “Federico II”, Via Domenico Montesano 49, Naples 80131, Italy
| | - Lucas de Mello
- School
of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights,
Reading, Berkshire RG6 6AD, U.K.,Departamento
de Biofísica, Universidade Federal
de São Paulo, São
Paulo 04023-062, Brazil
| | - Valeria Castelletto
- School
of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights,
Reading, Berkshire RG6 6AD, U.K.
| | - Mark L. Dallas
- School
of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights,
Reading, Berkshire RG6 6AD, U.K.
| | - Antonella Accardo
- Department
of Pharmacy and Research Centre on Bioactive Peptides (CIRPeB), University of Naples “Federico II”, Via Domenico Montesano 49, Naples 80131, Italy
| | - Jani Seitsonen
- Nanomicroscopy
Center, Aalto University, Puumiehenkuja 2, Espoo FIN-02150, Finland
| | - Ian W. Hamley
- School
of Chemistry, Pharmacy and Food Biosciences, University of Reading, Whiteknights,
Reading, Berkshire RG6 6AD, U.K.,
| |
Collapse
|
21
|
Li L, Wu L, Urschbach M, Straßburger D, Liu X, Besenius P, Chen G. Modular Platform of Carbohydrates-modified Supramolecular Polymers Based on Dendritic Peptide Scaffolds. ACS POLYMERS AU 2022; 2:478-485. [PMID: 36536888 PMCID: PMC9756342 DOI: 10.1021/acspolymersau.2c00032] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2022] [Revised: 08/12/2022] [Accepted: 08/12/2022] [Indexed: 06/17/2023]
Abstract
Glycopeptide supramolecular polymers displaying multivalent carbohydrates are particularly suitable for immune-relevant biomaterials, due to the important functions of carbohydrates in mediating cell-cell communication and modulating immune responses. However, the diversity and complexity of carbohydrates limited the generation of glycopeptide supramolecular monomers. Thereby, a modular platform of presenting various carbohydrates, especially more complex oligosaccharides, is highly desirable but remains underexplored. Here, we first prepared the linear amphiphilic glycopeptides that self-assembled into spherical nanoparticles and worm-like nanoparticles. Furthermore, the dendritic glycopeptides that self-assembled into uniform nanorods were designed to generate modular supramolecular polymers with variable functionality, via redesigning the molecular backbone. With various functional oligosaccharide-modified supramolecular polymers, the in vitro studies further indicated that these polymers were not cytotoxic to macrophages, and significantly modulated the production of proinflammatory cytokines. These findings provide a promising platform to develop supramolecular glycopeptide biomaterials with potential applications in immunomodulation and immunotherapy.
Collapse
Affiliation(s)
- Long Li
- The
State Key Laboratory of Molecular Engineering of Polymers and Department
of Macromolecular Science, Fudan University, Shanghai 200433, China
| | - Libin Wu
- The
State Key Laboratory of Molecular Engineering of Polymers and Department
of Macromolecular Science, Fudan University, Shanghai 200433, China
| | - Moritz Urschbach
- Department
of Chemistry, Johannes Gutenberg-University
Mainz, Duesbergweg 10−14, 55128 Mainz, Germany
| | - David Straßburger
- Department
of Chemistry, Johannes Gutenberg-University
Mainz, Duesbergweg 10−14, 55128 Mainz, Germany
| | - Xiaomei Liu
- The
State Key Laboratory of Molecular Engineering of Polymers and Department
of Macromolecular Science, Fudan University, Shanghai 200433, China
| | - Pol Besenius
- Department
of Chemistry, Johannes Gutenberg-University
Mainz, Duesbergweg 10−14, 55128 Mainz, Germany
| | - Guosong Chen
- The
State Key Laboratory of Molecular Engineering of Polymers and Department
of Macromolecular Science, Fudan University, Shanghai 200433, China
- Multiscale
Research Institute of Complex Systems, Fudan
University, Shanghai 200433, China
| |
Collapse
|
22
|
Hierarchical metal-peptide assemblies with chirality-encoded spiral architecture and catalytic activity. Sci China Chem 2022. [DOI: 10.1007/s11426-022-1351-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
|
23
|
Fernandes R, Chowdhary S, Mikula N, Saleh N, Kanevche K, Berlepsch HV, Hosogi N, Heberle J, Weber M, Böttcher C, Koksch B. Cyanine Dye Coupling Mediates Self-assembly of a pH Sensitive Peptide into Novel 3D Architectures. Angew Chem Int Ed Engl 2022; 61:e202208647. [PMID: 36161448 PMCID: PMC9828782 DOI: 10.1002/anie.202208647] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Indexed: 01/12/2023]
Abstract
Synthetic multichromophore systems are of great importance in artificial light harvesting devices, organic optoelectronics, tumor imaging and therapy. Here, we introduce a promising strategy for the construction of self-assembled peptide templated dye stacks based on coupling of a de novo designed pH sensitive peptide with a cyanine dye Cy5 at its N-terminus. Microscopic techniques, in particular cryogenic TEM (cryo-TEM) and cryo-electron tomography technique (cryo-ET), reveal two types of highly ordered three-dimensional assembly structures on the micrometer scale. Unbranched compact layered rods are observed at pH 7.4 and two-dimensional membrane-like assemblies at pH 3.4, both species displaying spectral features of H-aggregates. Molecular dynamics simulations reveal that the coupling of Cy5 moieties promotes the formation of both ultrastructures, whereas the protonation states of acidic and basic amino acid side chains dictates their ultimate three-dimensional organization.
Collapse
Affiliation(s)
- Rita Fernandes
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2014195BerlinGermany
| | - Suvrat Chowdhary
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2014195BerlinGermany
| | - Natalia Mikula
- Mathematics for Life and Materials SciencesZuse Institute BerlinTakustraße 714195BerlinGermany
| | - Noureldin Saleh
- Mathematics for Life and Materials SciencesZuse Institute BerlinTakustraße 714195BerlinGermany
| | - Katerina Kanevche
- Department of PhysicsExperimental Molecular BiophysicsFreie Universität BerlinArnimallee 1414195BerlinGermany
| | - Hans v. Berlepsch
- Research Center for Electron Microscopy and Core Facility BioSupraMolFreie Universität BerlinFabeckstraße 36a14195BerlinGermany
| | | | - Joachim Heberle
- Department of PhysicsExperimental Molecular BiophysicsFreie Universität BerlinArnimallee 1414195BerlinGermany
| | - Marcus Weber
- Mathematics for Life and Materials SciencesZuse Institute BerlinTakustraße 714195BerlinGermany
| | - Christoph Böttcher
- Research Center for Electron Microscopy and Core Facility BioSupraMolFreie Universität BerlinFabeckstraße 36a14195BerlinGermany
| | - Beate Koksch
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2014195BerlinGermany
| |
Collapse
|
24
|
Xiao X, Robang AS, Sarma S, Le JV, Helmicki ME, Lambert MJ, Guerrero-Ferreira R, Arboleda-Echavarria J, Paravastu AK, Hall CK. Sequence patterns and signatures: Computational and experimental discovery of amyloid-forming peptides. PNAS NEXUS 2022; 1:pgac263. [PMID: 36712347 PMCID: PMC9802472 DOI: 10.1093/pnasnexus/pgac263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Accepted: 11/22/2022] [Indexed: 11/27/2022]
Abstract
Screening amino acid sequence space via experiments to discover peptides that self-assemble into amyloid fibrils is challenging. We have developed a computational peptide assembly design (PepAD) algorithm that enables the discovery of amyloid-forming peptides. Discontinuous molecular dynamics (DMD) simulation with the PRIME20 force field combined with the FoldAmyloid tool is used to examine the fibrilization kinetics of PepAD-generated peptides. PepAD screening of ∼10,000 7-mer peptides resulted in twelve top-scoring peptides with two distinct hydration properties. Our studies revealed that eight of the twelve in silico discovered peptides spontaneously form amyloid fibrils in the DMD simulations and that all eight have at least five residues that the FoldAmyloid tool classifies as being aggregation-prone. Based on these observations, we re-examined the PepAD-generated peptides in the sequence pool returned by PepAD and extracted five sequence patterns as well as associated sequence signatures for the 7-mer amyloid-forming peptides. Experimental results from Fourier transform infrared spectroscopy (FTIR), thioflavin T (ThT) fluorescence, circular dichroism (CD), and transmission electron microscopy (TEM) indicate that all the peptides predicted to assemble in silico assemble into antiparallel β-sheet nanofibers in a concentration-dependent manner. This is the first attempt to use a computational approach to search for amyloid-forming peptides based on customized settings. Our efforts facilitate the identification of β-sheet-based self-assembling peptides, and contribute insights towards answering a fundamental scientific question: "What does it take, sequence-wise, for a peptide to self-assemble?".
Collapse
Affiliation(s)
| | | | | | - Justin V Le
- Department of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Michael E Helmicki
- Department of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Matthew J Lambert
- Department of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Ricardo Guerrero-Ferreira
- Robert P. Apkarian Integrated Electron Microscopy Core, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Johana Arboleda-Echavarria
- Robert P. Apkarian Integrated Electron Microscopy Core, Emory University School of Medicine, Atlanta, GA 30322, USA
| | | | | |
Collapse
|
25
|
Multicomponent coupling and macrocyclization enabled by Rh(III)-catalyzed dual C–H activation: Macrocyclic oxime inhibitor of influenza H1N1. Chem 2022. [DOI: 10.1016/j.chempr.2022.10.019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
|
26
|
Doolan JA, Williams GT, Hilton KLF, Chaudhari R, Fossey JS, Goult BT, Hiscock JR. Advancements in antimicrobial nanoscale materials and self-assembling systems. Chem Soc Rev 2022; 51:8696-8755. [PMID: 36190355 PMCID: PMC9575517 DOI: 10.1039/d1cs00915j] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Indexed: 11/21/2022]
Abstract
Antimicrobial resistance is directly responsible for more deaths per year than either HIV/AIDS or malaria and is predicted to incur a cumulative societal financial burden of at least $100 trillion between 2014 and 2050. Already heralded as one of the greatest threats to human health, the onset of the coronavirus pandemic has accelerated the prevalence of antimicrobial resistant bacterial infections due to factors including increased global antibiotic/antimicrobial use. Thus an urgent need for novel therapeutics to combat what some have termed the 'silent pandemic' is evident. This review acts as a repository of research and an overview of the novel therapeutic strategies being developed to overcome antimicrobial resistance, with a focus on self-assembling systems and nanoscale materials. The fundamental mechanisms of action, as well as the key advantages and disadvantages of each system are discussed, and attention is drawn to key examples within each field. As a result, this review provides a guide to the further design and development of antimicrobial systems, and outlines the interdisciplinary techniques required to translate this fundamental research towards the clinic.
Collapse
Affiliation(s)
- Jack A Doolan
- School of Chemistry and Forensic Science, University of Kent, Canterbury, Kent CT2 7NH, UK.
- School of Biosciences, University of Kent, Canterbury, Kent CT2 7NJ, UK.
| | - George T Williams
- School of Chemistry, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK.
| | - Kira L F Hilton
- School of Chemistry and Forensic Science, University of Kent, Canterbury, Kent CT2 7NH, UK.
| | - Rajas Chaudhari
- School of Chemistry and Forensic Science, University of Kent, Canterbury, Kent CT2 7NH, UK.
| | - John S Fossey
- School of Chemistry, University of Birmingham, Edgbaston, Birmingham, B15 2TT, UK.
| | - Benjamin T Goult
- School of Biosciences, University of Kent, Canterbury, Kent CT2 7NJ, UK.
| | - Jennifer R Hiscock
- School of Chemistry and Forensic Science, University of Kent, Canterbury, Kent CT2 7NH, UK.
| |
Collapse
|
27
|
Xing Y, Andrikopoulos N, Zhang Z, Sun Y, Ke PC, Ding F. Modulating Nanodroplet Formation En Route to Fibrillization of Amyloid Peptides with Designed Flanking Sequences. Biomacromolecules 2022; 23:4179-4191. [PMID: 36137260 PMCID: PMC9618360 DOI: 10.1021/acs.biomac.2c00642] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Soluble oligomers populating early amyloid aggregation can be regarded as nanodroplets of liquid-liquid phase separation (LLPS). Amyloid peptides typically contain hydrophobic aggregation-prone regions connected by hydrophilic linkers and flanking sequences, and such a sequence hydropathy pattern drives the formation of supramolecular structures in the nanodroplets and modulates subsequent fibrillization. Here, we studied LLPS and fibrillization of coarse-grained amyloid peptides with increasing flanking sequences. Nanodroplets assumed lamellar, cylindrical micellar, and spherical micellar structures with increasing peptide hydrophilic/hydrophobic ratios, and such morphologies governed subsequent fibrillization processes. Adding glycine-serine repeats as flanking sequences to Aβ16-22, the amyloidogenic core of amyloid-β, our computational predictions of morphological transitions were corroborated experimentally. The uncovered inter-relationships between the peptide sequence pattern, oligomer/nanodroplet morphology, and fibrillization pathway, kinetics, and structure may contribute to our understanding of pathogenic amyloidosis in aging, facilitate future efforts ameliorating amyloidosis through peptide engineering, and aid in the design of novel amyloid-based functional nanobiomaterials and nanocomposites.
Collapse
Affiliation(s)
- Yanting Xing
- Department of Physics and Astronomy, Clemson University, Clemson, SC 29634, United States
| | - Nicholas Andrikopoulos
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences, Monash University, 381 Royal Parade, Parkville, VIC 3052, Australia
| | - Zhenzhen Zhang
- Department of Physics and Astronomy, Clemson University, Clemson, SC 29634, United States
| | - Yunxiang Sun
- Department of Physics and Astronomy, Clemson University, Clemson, SC 29634, United States
- Department of Physics, Ningbo University, Ningbo 315211, China
| | - Pu Chun Ke
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Sciences, Monash University, 381 Royal Parade, Parkville, VIC 3052, Australia
- Nanomedicine Center, The GBA National Institute for Nanotechnology Innovation, 136 Kaiyuan Avenue, Guangzhou, 510700, China
| | - Feng Ding
- Department of Physics and Astronomy, Clemson University, Clemson, SC 29634, United States
| |
Collapse
|
28
|
Fluorinated Protein and Peptide Materials for Biomedical Applications. Pharmaceuticals (Basel) 2022; 15:ph15101201. [PMID: 36297312 PMCID: PMC9609677 DOI: 10.3390/ph15101201] [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: 08/25/2022] [Revised: 09/22/2022] [Accepted: 09/26/2022] [Indexed: 11/17/2022] Open
Abstract
Fluorination represents one of the most powerful modern design strategies to impart biomacromolecules with unique functionality, empowering them for widespread application in the biomedical realm. However, the properties of fluorinated protein materials remain unpredictable due to the heavy context-dependency of the surrounding atoms influenced by fluorine’s strong electron-withdrawing tendencies. This review aims to discern patterns and elucidate design principles governing the biochemical synthesis and rational installation of fluorine into protein and peptide sequences for diverse biomedical applications. Several case studies are presented to deconvolute the overgeneralized fluorous stabilization effect and critically examine the duplicitous nature of the resultant enhanced chemical and thermostability as it applies to use as biomimetic therapeutics, drug delivery vehicles, and bioimaging modalities.
Collapse
|
29
|
Kang SG, Kim KY, Cho Y, Jeong DY, Lee JH, Nishimura T, Lee SS, Kwak SK, You Y, Jung JH. Circularly Polarized Luminescence Active Supramolecular Nanotubes Based on Pt
II
Complexes That Undergo Dynamic Morphological Transformation and Helicity Inversion. Angew Chem Int Ed Engl 2022; 61:e202207310. [DOI: 10.1002/anie.202207310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Indexed: 11/11/2022]
Affiliation(s)
- Seok Gyu Kang
- Department of Chemistry and Research Institution of Natural Sciences Gyeongsang National University (GNU) Jinju 52828 Republic of Korea
| | - Ka Young Kim
- Department of Chemistry and Research Institution of Natural Sciences Gyeongsang National University (GNU) Jinju 52828 Republic of Korea
| | - Yumi Cho
- Department of Energy Enginerring School of Energy and Chemical Engineering Ulsan National Institute of Science and Technology (UNIST) Ulsan 44919 Republic of Korea
| | - Dong Yeun Jeong
- Division of Chemical Engineering and Materials Science Graduate Program in System Health Science and Engineering Ewha Womans University Seoul 03760 Republic of Korea
| | - Ji Ha Lee
- Chemical Engineering Program Graduate School of Advanced Science and Engineering Hiroshima University Hiroshima 739-8527 Japan
| | - Tomoki Nishimura
- Department of Chemistry and Materials Faculty of Textile Science and Technology Shinshu University Nagano 386-8567 Japan
| | - Shim Sung Lee
- Department of Chemistry and Research Institution of Natural Sciences Gyeongsang National University (GNU) Jinju 52828 Republic of Korea
| | - Sang Kyu Kwak
- Department of Energy Enginerring School of Energy and Chemical Engineering Ulsan National Institute of Science and Technology (UNIST) Ulsan 44919 Republic of Korea
| | - Youngmin You
- Division of Chemical Engineering and Materials Science Graduate Program in System Health Science and Engineering Ewha Womans University Seoul 03760 Republic of Korea
| | - Jong Hwa Jung
- Department of Chemistry and Research Institution of Natural Sciences Gyeongsang National University (GNU) Jinju 52828 Republic of Korea
| |
Collapse
|
30
|
Pérez-Madrigal MM, Gil AM, Casanovas J, Jiménez AI, Macor LP, Alemán C. Self-assembly pathways in a triphenylalanine peptide capped with aromatic groups. Colloids Surf B Biointerfaces 2022; 216:112522. [PMID: 35561635 DOI: 10.1016/j.colsurfb.2022.112522] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Revised: 04/22/2022] [Accepted: 04/23/2022] [Indexed: 11/25/2022]
Abstract
Peptide derivatives and, most specifically, their self-assembled supramolecular structures are being considered in the design of novel biofunctional materials. Although the self-assembly of triphenylalanine homopeptides has been found to be more versatile than that of homopeptides containing an even number of residues (i.e. diphenylalanine and tetraphenylalanine), only uncapped triphenylalanine (FFF) and a highly aromatic analog blocked at both the N- and C-termini with fluorenyl-containing groups (Fmoc-FFF-OFm), have been deeply studied before. In this work, we have examined the self-assembly of a triphenylalanine derivative bearing 9-fluorenylmethyloxycarbonyl and benzyl ester end-capping groups at the N- and C-termini, respectively (Fmoc-FFF-OBzl). The antiparallel arrangement clearly dominates in β-sheets formed by Fmoc-FFF-OBzl, whereas the parallel and antiparallel dispositions are almost isoenergetic in Fmoc-FFF-OFm β-sheets and the parallel one is slightly favored for FFF. The effects of both the peptide concentration and the medium on the self-assembly process have been examined considering Fmoc-FFF-OBzl solutions in a wide variety of solvent:co-solvent mixtures. In addition, Fmoc-FFF-OBzl supramolecular structures have been compared to those obtained for FFF and Fmoc-FFF-OFm under identical experimental conditions. The strength of π-π stacking interactions involving the end-capping groups plays a crucial role in the nucleation and growth of supramolecular structures, which determines the resulting morphology. Finally, the influence of a non-invasive external stimulus, ultrasounds, on the nucleation and growth of supramolecular structures has been examined. Overall, FFF-based peptides provide a wide range of supramolecular structures that can be of interest in the biotechnological field.
Collapse
Affiliation(s)
- Maria M Pérez-Madrigal
- Departament d'Enginyeria Química (DEQ) and Barcelona Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya (UPC), EEBE, C/ Eduard Maristany 10-14, 08019 Barcelona, Spain.
| | - Ana M Gil
- Departamento de Quimica Organica, Instituto de Sintesis Quimica y Catalisis Homogenea (ISQCH), CSIC-Universidad de Zaragoza, 50009 Zaragoza, Spain
| | - Jordi Casanovas
- Departament de Química, Universitat de Lleida, Escola Politècnica Superior, C/ Jaume II no. 69, 25001 Lleida, Spain
| | - Ana I Jiménez
- Departamento de Quimica Organica, Instituto de Sintesis Quimica y Catalisis Homogenea (ISQCH), CSIC-Universidad de Zaragoza, 50009 Zaragoza, Spain
| | - Lorena P Macor
- Departament d'Enginyeria Química (DEQ) and Barcelona Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya (UPC), EEBE, C/ Eduard Maristany 10-14, 08019 Barcelona, Spain; IITEMA-CONICET, Departamento de Química, Facultad de Ciencias Exactas Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto, Agencia Postal Nro. 3, X5804BYA Río Cuarto, Córdoba, Argentina
| | - Carlos Alemán
- Departament d'Enginyeria Química (DEQ) and Barcelona Research Center for Multiscale Science and Engineering, Universitat Politècnica de Catalunya (UPC), EEBE, C/ Eduard Maristany 10-14, 08019 Barcelona, Spain; Institute for Bioengineering of Catalonia (IBEC), The Barcelona Institute of Science and Technology, Baldiri Reixac 10-12, 08028 Barcelona, Spain.
| |
Collapse
|
31
|
Boruah A, Roy A. Advances in hybrid peptide-based self-assembly systems and their applications. Biomater Sci 2022; 10:4694-4723. [PMID: 35899853 DOI: 10.1039/d2bm00775d] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Self-assembly of peptides demonstrates a great potential for designing highly ordered, finely tailored supramolecular arrangements enriched with high specificity, improved efficacy and biological activity. Along with natural peptides, hybrid peptide systems composed of natural and chemically diverse unnatural amino acids have been used in various fields, including drug delivery, wound healing, potent inhibition of diseases, and prevention of biomaterial related diseases to name a few. In this review, we provide a brief outline of various methods that have been utilized for obtaining fascinating structures that create an avenue to reproduce a range of functions resulting from these folds. An overview of different self-assembled structures as well as their applications will also be provided. We believe that this review is very relevant to the current scenario and will cover conformations of hybrid peptides and resulting self-assemblies from the late 20th century through 2022. This review aims to be a comprehensive and reliable account of the hybrid peptide-based self-assembly owing to its enormous influence in understanding and mimicking biological processes.
Collapse
Affiliation(s)
- Alpana Boruah
- Applied Organic Chemistry Group, Chemical Sciences and Technology Division, Council of Scientific and Industrial Research-North East Institute of Science and Technology (CSIR-NEIST), Pulibor, Jorhat-785006, Assam, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad-201002, India
| | - Arup Roy
- Applied Organic Chemistry Group, Chemical Sciences and Technology Division, Council of Scientific and Industrial Research-North East Institute of Science and Technology (CSIR-NEIST), Pulibor, Jorhat-785006, Assam, India. .,Academy of Scientific and Innovative Research (AcSIR), Ghaziabad-201002, India
| |
Collapse
|
32
|
Shen J, Ye R, Liu Z, Zeng H. Hybrid Pyridine–Pyridone Foldamer Channels as M2‐Like Artificial Proton Channels. Angew Chem Int Ed Engl 2022; 61:e202200259. [DOI: 10.1002/anie.202200259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Indexed: 11/05/2022]
Affiliation(s)
- Jie Shen
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| | - Ruijuan Ye
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| | - Zhiwei Liu
- Department of Chemistry & Biochemistry Rowan University 201 Mullica Hill Road Glassboro NJ 08028 USA
| | - Huaqiang Zeng
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| |
Collapse
|
33
|
Jorgensen M, Chmielewski J. Co-assembled Coiled-Coil Peptide Nanotubes with Enhanced Stability and Metal-Dependent Cargo Loading. ACS OMEGA 2022; 7:20945-20951. [PMID: 35755377 PMCID: PMC9219066 DOI: 10.1021/acsomega.2c01669] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/19/2022] [Accepted: 05/30/2022] [Indexed: 05/07/2023]
Abstract
Peptide nanotube biomaterials are attractive for their range of applications. Herein, we disclose the co-assembly of coiled-coil peptides, one with ligands for metal ions that demonstrate hierarchical assembly into nanotubes, with spatial control of the metal-binding ligands. Enhanced stability of the nanotubes to phosphate-buffered saline was successfully accomplished in a metal-dependent fashion, depending on the levels and placement of the ligand-containing coiled-coil peptide. This spatial control also allowed for site-specific labeling of the nanotubes with His-tagged fluorophores through the length of the tubes or at the termini, in a metal-dependent manner.
Collapse
|
34
|
Kang SG, Kim KY, Cho Y, Jeong DY, Lee JH, Nishimura T, Lee SS, Kwak SK, You Y, Jung JH. Circularly Polarized Luminescence Active Supramolecular Nanotubes Based on Pt(II) Complexes that Undergo Dynamic Morphological Transformation and Helicity Inversion. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202207310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Seok Gyu Kang
- Gyeongsang National University Department of Chemistry KOREA, REPUBLIC OF
| | - Ka Young Kim
- Gyeongsang National University Department of Chemistry KOREA, REPUBLIC OF
| | - Yumi Cho
- Ulsan National Institute of Science and Technology Department of Energy Enginerring KOREA, REPUBLIC OF
| | - Dong Yeun Jeong
- Ewha Womans University Division of Chemical Engineering and Materials Science KOREA, REPUBLIC OF
| | - Ji Ha Lee
- Hiroshima University: Hiroshima Daigaku Chemical Engineering Program KOREA, REPUBLIC OF
| | - Tomoki Nishimura
- Shinshu Daigaku Department of Chemistry and Materials KOREA, REPUBLIC OF
| | - Shim Sung Lee
- Gyeongsang National University Department of Chemistry KOREA, REPUBLIC OF
| | - Sang Kyu Kwak
- Ulsan National Institute of Science and Technology Department of Energy Enginerring KOREA, REPUBLIC OF
| | - Youngmin You
- Ewha Womans University Division of Chemical Engineering and Materials Science KOREA, REPUBLIC OF
| | - Jong Hwa Jung
- Gyeongsang National University Department of Chemistry Gyeongsang National University 501 jinjudaero 52828 Jinju KOREA, REPUBLIC OF
| |
Collapse
|
35
|
Liu Z, Shi X, Shu W, Qi S, Wang X, He X. The effect of hydration and dehydration on the conformation, assembling behavior and photoluminescence of PBLG. SOFT MATTER 2022; 18:4396-4401. [PMID: 35635105 DOI: 10.1039/d2sm00344a] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Hydration and dehydration play crucial roles in hydrophobic effects (HEs) and are yet to be understood. Poly(γ-benzyl-L-glutamate) (PBLG) homopolymers in THF/water with various water contents were investigated. We discovered that PBLG was hydrated at low water contents and adopted a helical conformation. The chain became dehydrated with increasing water content, which converted the PBLG100 helix to a PPII-helix. The variation in the conformation resulted in an alteration of the self-assembled morphologies from fibers to particles. For PBLG12 with a shorter chain, the chain underwent an α-to-β transition in the conformation due to dehydration as the water content increased, and correspondingly the morphologies varied from tapes to helical ribbons, and eventually to toroids at a higher water content. We also observed that this α-to-β transition is accompanied by an increase in intensity of the fluorescence, which is attributed to the through-space-conjugation of tightly packed phenyl groups within the β-sheet. The discovered effect of hydration and dehydration on the PBLG chain conformation, self-assembling behavior and optical function is essential for the innovation of polypeptide materials and understanding of water-mediated biological systems.
Collapse
Affiliation(s)
- Zhen Liu
- School of Chemistry and Molecular Engineering, East China Normal University, No. 500 Dongchuan Road, shanghai 200241, China.
| | - Xinjie Shi
- School of Chemistry and Molecular Engineering, East China Normal University, No. 500 Dongchuan Road, shanghai 200241, China.
| | - Wenchao Shu
- School of Chemistry and Molecular Engineering, East China Normal University, No. 500 Dongchuan Road, shanghai 200241, China.
| | - Shuo Qi
- School of Chemistry and Molecular Engineering, East China Normal University, No. 500 Dongchuan Road, shanghai 200241, China.
| | - Xiaosong Wang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON, N21 3G1, Canada.
| | - Xiaohua He
- School of Chemistry and Molecular Engineering, East China Normal University, No. 500 Dongchuan Road, shanghai 200241, China.
| |
Collapse
|
36
|
Phenol-soluble modulins PSMα3 and PSMβ2 form nanotubes that are cross-α amyloids. Proc Natl Acad Sci U S A 2022; 119:e2121586119. [PMID: 35533283 DOI: 10.1073/pnas.2121586119] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Phenol-soluble modulins (PSMs) are peptide-based virulence factors that play significant roles in the pathogenesis of staphylococcal strains in community-associated and hospital-associated infections. In addition to cytotoxicity, PSMs display the propensity to self-assemble into fibrillar species, which may be mediated through the formation of amphipathic conformations. Here, we analyze the self-assembly behavior of two PSMs, PSMα3 and PSMβ2, which are derived from peptides expressed by methicillin-resistant Staphylococcus aureus (MRSA), a significant human pathogen. In both cases, we observed the formation of a mixture of self-assembled species including twisted filaments, helical ribbons, and nanotubes, which can reversibly interconvert in vitro. Cryo–electron microscopy structural analysis of three PSM nanotubes, two derived from PSMα3 and one from PSMβ2, revealed that the assemblies displayed remarkably similar structures based on lateral association of cross-α amyloid protofilaments. The amphipathic helical conformations of PSMα3 and PSMβ2 enforced a bilayer arrangement within the protofilaments that defined the structures of the respective PSMα3 and PSMβ2 nanotubes. We demonstrate that, similar to amyloids based on cross-β protofilaments, cross-α amyloids derived from these PSMs display polymorphism, not only in terms of the global morphology (e.g., twisted filament, helical ribbon, and nanotube) but also with respect to the number of protofilaments within a given peptide assembly. These results suggest that the folding landscape of PSM derivatives may be more complex than originally anticipated and that the assemblies are able to sample a wide range of supramolecular structural space.
Collapse
|
37
|
Shen J, Ye R, Liu Z, Zeng H. Hybrid Pyridine–Pyridone Foldamer Channels as M2‐Like Artificial Proton Channels. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202200259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Jie Shen
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| | - Ruijuan Ye
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| | - Zhiwei Liu
- Department of Chemistry & Biochemistry Rowan University 201 Mullica Hill Road Glassboro NJ 08028 USA
| | - Huaqiang Zeng
- College of Chemistry Fuzhou University Fuzhou Fujian 350116 China
| |
Collapse
|
38
|
Chatterjee A, Reja A, Pal S, Das D. Systems chemistry of peptide-assemblies for biochemical transformations. Chem Soc Rev 2022; 51:3047-3070. [PMID: 35316323 DOI: 10.1039/d1cs01178b] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
During the billions of years of the evolutionary journey, primitive polymers, involved in proto metabolic pathways with low catalytic activity, played critical roles in the emergence of modern enzymes with remarkable substrate specificity. The precise positioning of amino acid residues and the complex orchestrated interplay in the binding pockets of evolved enzymes promote covalent and non-covalent interactions to foster a diverse set of complex catalytic transformations. Recent efforts to emulate the structural and functional information of extant enzymes by minimal peptide based assemblies have attempted to provide a holistic approach that could help in discerning the prebiotic origins of catalytically active binding pockets of advanced proteins. In addition to the impressive sets of advanced biochemical transformations, catalytic promiscuity and cascade catalysis by such small molecule based dynamic systems can foreshadow the ancestral catalytic processes required for the onset of protometabolism. Looking beyond minimal systems that work close to equilibrium, catalytic systems and compartments under non-equilibrium conditions utilizing simple prebiotically relevant precursors have attempted to shed light on how bioenergetics played an essential role in chemical emergence of complex behaviour. Herein, we map out these recent works and progress where diverse sets of complex enzymatic transformations were demonstrated by utilizing minimal peptide based self-assembled systems. Further, we have attempted to cover the examples of peptide assemblies that could feature promiscuous activity and promote complex multistep cascade reaction networks. The review also covers a few recent examples of minimal transient catalytic assemblies under non-equilibrium conditions. This review attempts to provide a broad perspective for potentially programming functionality via rational selection of amino acid sequences leading towards minimal catalytic systems that resemble the traits of contemporary enzymes.
Collapse
Affiliation(s)
- Ayan Chatterjee
- Department of Chemical Sciences and Centre for Advanced Functional Materials, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur-741246, India.
| | - Antara Reja
- Department of Chemical Sciences and Centre for Advanced Functional Materials, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur-741246, India.
| | - Sumit Pal
- Department of Chemical Sciences and Centre for Advanced Functional Materials, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur-741246, India.
| | - Dibyendu Das
- Department of Chemical Sciences and Centre for Advanced Functional Materials, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur-741246, India.
| |
Collapse
|
39
|
Guo R, Sinha NJ, Misra R, Tang Y, Langenstein M, Kim K, Fagan JA, Kloxin CJ, Jensen G, Pochan DJ, Saven JG. Computational Design of Homotetrameric Peptide Bundle Variants Spanning a Wide Range of Charge States. Biomacromolecules 2022; 23:1652-1661. [PMID: 35312288 DOI: 10.1021/acs.biomac.1c01539] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
With the ability to design their sequences and structures, peptides can be engineered to realize a wide variety of functionalities and structures. Herein, computational design was used to identify a set of 17 peptides having a wide range of putative charge states but the same tetrameric coiled-coil bundle structure. Calculations were performed to identify suitable locations for ionizable residues (D, E, K, and R) at the bundle's exterior sites, while interior hydrophobic interactions were retained. The designed bundle structures spanned putative charge states of -32 to +32 in units of electron charge. The peptides were experimentally investigated using spectroscopic and scattering techniques. Thermal stabilities of the bundles were investigated using circular dichroism. Molecular dynamics simulations assessed structural fluctuations within the bundles. The cylindrical peptide bundles, 4 nm long by 2 nm in diameter, were covalently linked to form rigid, micron-scale polymers and characterized using transmission electron microscopy. The designed suite of sequences provides a set of readily realized nanometer-scale structures of tunable charge that can also be polymerized to yield rigid-rod polyelectrolytes.
Collapse
Affiliation(s)
- Rui Guo
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Nairiti J Sinha
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States.,NIST Center for Neutron Research (NCNR), National Institute of Standards & Technology (NIST), Gaithersburg, Maryland 20899, United States
| | - Rajkumar Misra
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Yao Tang
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Matthew Langenstein
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Kyunghee Kim
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Jeffrey A Fagan
- Materials Science and Engineering Division, National Institute of Standards & Technology (NIST), Gaithersburg, Maryland 20899, United States
| | - Christopher J Kloxin
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States.,Department of Chemical and Biomolecular Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Grethe Jensen
- NIST Center for Neutron Research (NCNR), National Institute of Standards & Technology (NIST), Gaithersburg, Maryland 20899, United States.,Department of Chemical and Biomolecular Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Darrin J Pochan
- Department of Materials Science and Engineering, University of Delaware, Newark, Delaware 19716, United States
| | - Jeffery G Saven
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| |
Collapse
|
40
|
Miller JG, Hughes SA, Modlin C, Conticello VP. Structures of synthetic helical filaments and tubes based on peptide and peptido-mimetic polymers. Q Rev Biophys 2022; 55:1-103. [PMID: 35307042 DOI: 10.1017/s0033583522000014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
AbstractSynthetic peptide and peptido-mimetic filaments and tubes represent a diverse class of nanomaterials with a broad range of potential applications, such as drug delivery, vaccine development, synthetic catalyst design, encapsulation, and energy transduction. The structures of these filaments comprise supramolecular polymers based on helical arrangements of subunits that can be derived from self-assembly of monomers based on diverse structural motifs. In recent years, structural analyses of these materials at near-atomic resolution (NAR) have yielded critical insights into the relationship between sequence, local conformation, and higher-order structure and morphology. This structural information offers the opportunity for development of new tools to facilitate the predictable and reproduciblede novodesign of synthetic helical filaments. However, these studies have also revealed several significant impediments to the latter process – most notably, the common occurrence of structural polymorphism due to the lability of helical symmetry in structural space. This article summarizes the current state of knowledge on the structures of designed peptide and peptido-mimetic filamentous assemblies, with a focus on structures that have been solved to NAR for which reliable atomic models are available.
Collapse
Affiliation(s)
- Jessalyn G Miller
- Department of Chemistry, Emory University, 1515 Dickey Drive, Atlanta, GA30322
| | - Spencer A Hughes
- Department of Chemistry, Emory University, 1515 Dickey Drive, Atlanta, GA30322
| | - Charles Modlin
- Department of Chemistry, Emory University, 1515 Dickey Drive, Atlanta, GA30322
| | | |
Collapse
|
41
|
Raganato L, Del Giudice A, Ceccucci A, Sciubba F, Casciardi S, Sennato S, Scipioni A, Masci G. Self-assembling nanowires from a linear l,d-peptide conjugated to the dextran end group. Int J Biol Macromol 2022; 207:656-665. [PMID: 35292281 DOI: 10.1016/j.ijbiomac.2022.03.050] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Revised: 03/05/2022] [Accepted: 03/09/2022] [Indexed: 11/28/2022]
Abstract
Preparation and characterization of a block-like l,d-octapeptide-dextran conjugate DEX29-(l-Val-d-Val)4 self-assembling into nanowire structures is reported. The conjugate was prepared by solid phase click-chemistry on an alkyne group N-terminus functionalized peptide with a regularly alternating enantiomeric sequence. Low molecular weight dextran (Xn = 29) with moderately low dispersity (1.30) was prepared by controlled acid hydrolysis and dialysis with selected cut-off and functionalized with an azido group on the reducing end by reductive amination. The strong hydrogen bonds and hydrophobic interactions of the (l-Val-d-Val)4 linear peptide drive the conjugate to self-assemble into long (0.1-1 μm) nanowires. To our knowledge, this is the first example of a peptide-polysaccharide conjugate that can self-assemble into a nanowire architecture.
Collapse
Affiliation(s)
- Luca Raganato
- Department of Chemistry, Sapienza Università di Roma, P.le A. Moro, 5, I-00185 Rome, Italy
| | - Alessandra Del Giudice
- Department of Chemistry, Sapienza Università di Roma, P.le A. Moro, 5, I-00185 Rome, Italy
| | - Anita Ceccucci
- Department of Industrial, Electronic and Mechanical Engineering, Roma Tre University, via Vito Volterra 62, Roma, Italy
| | - Fabio Sciubba
- Department of Environmental biology, Sapienza University of Rome, P.le Aldo Moro 5, 00185 Rome, Italy; NMR-based Metabolomics Laboratory (NMLab), Sapienza University of Rome, P.le Aldo Moro 5, 00185 Rome, Italy
| | - Stefano Casciardi
- National Institute for Insurance Against Accidents at Work (INAIL Research), Department of Occupational and Environmental Medicine, Epidemiology and Hygiene, Rome, Italy
| | - Simona Sennato
- Institute for Complex Systems, National Research Council (ISC-CNR), Sede Sapienza and Department of Physics, Sapienza Università di Roma, P.le A. Moro, 2, 00185, Rome, Italy
| | - Anita Scipioni
- Department of Chemistry, Sapienza Università di Roma, P.le A. Moro, 5, I-00185 Rome, Italy.
| | - Giancarlo Masci
- Department of Chemistry, Sapienza Università di Roma, P.le A. Moro, 5, I-00185 Rome, Italy.
| |
Collapse
|
42
|
Optical Polarization-Based Measurement Methods for Characterization of Self-Assembled Peptides' and Amino Acids' Micro- and Nanostructures. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27061802. [PMID: 35335166 PMCID: PMC8953639 DOI: 10.3390/molecules27061802] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Revised: 03/03/2022] [Accepted: 03/08/2022] [Indexed: 11/30/2022]
Abstract
In recent years, self-assembled peptides’ and amino acids’ (SAPA) micro- and nanostructures have gained much research interest. Here, description of how SAPA architectures can be characterized using polarization-based optical measurement methods is provided. The measurement methods discussed include: polarized Raman spectroscopy, polarized imaging microscopy, birefringence imaging, and fluorescence polarization. An example of linear polarized waveguiding in an amino acid Histidine microstructure is discussed. The implementation of a polarization-based measurement method for monitoring peptide self-assembly processes and for deriving molecular orientation of peptides is also described.
Collapse
|
43
|
Micro- and Nanocapsules Based on Artificial Peptides. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27041373. [PMID: 35209164 PMCID: PMC8875475 DOI: 10.3390/molecules27041373] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Revised: 02/10/2022] [Accepted: 02/14/2022] [Indexed: 02/03/2023]
Abstract
The encapsulation of active ingredients into solid capsules from biodegradable materials has received significant attention over the last decades. In this short review, we focus on the formation of micro- and nano-sized capsules and emulsions based on artificial peptides as a fully degradable material. It deals with various approaches for the preparation of peptide-based capsules as well as with their crucial properties such as size and stability. We categorize all preparation procedures into three basic approaches: self-assembly, polymerization and crosslinking, and layer-by-layer technology. This article is meant to offer a short overview over all successful methods suitable for obtaining access to these very promising carrier systems.
Collapse
|
44
|
Bu ZQ, Yao QF, Liu QY, Quan MX, Lu JY, Huang WT. Peptide-Based Sensing, Logic Computing, and Information Security on the Antimonene Platform. ACS APPLIED MATERIALS & INTERFACES 2022; 14:8311-8321. [PMID: 35112857 DOI: 10.1021/acsami.1c23814] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Peptides have higher information density than DNA and equivalent molecular recognition ability and durability. However, there are currently no reports on the comprehensive use of peptides' recognition ability and structural diversity for sensing, logic computing, information coding, and protection. Herein, we, for the first time, demonstrate peptide-based sensing, logic computing, and information security on the antimonene platform. The molecular recognition capability and structural diversity (amino acid sequence) of peptides (Pb2+-binding peptide DHHTQQHD as a model) adsorbed on the antimonene universal fluorescence quenching platform were comprehensively utilized to sense targets (Pb2+) and give a response (fluorescence turn-on) and then to encode, encrypt, and hide information. Fluorescently labeled peptides used as the recognition probe and the information carrier were quenched and hidden by the large-plane two-dimensional material antimonene and specifically bound by Pb2+ as the stego key, resulting in fluorescence recovery. The above interaction and signal change can be considered as a peptide-based sensing and steganographic process to further implement quantitative detection of Pb2+, complex logic operation, information coding, encrypting, and hiding using a peptide sequence and the binary conversion of its selectivity. This research provides a basic paradigm for the construction of a molecular sensing and informatization platform and will inspire the development of biopolymer-based molecular information technology (processing, communication, control, security).
Collapse
Affiliation(s)
- Zhen Qi Bu
- State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Provincial Key Laboratory of Microbial Molecular Biology, College of Life Science, Hunan Normal University, Changsha 410081, P. R. China
| | - Qing Feng Yao
- State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Provincial Key Laboratory of Microbial Molecular Biology, College of Life Science, Hunan Normal University, Changsha 410081, P. R. China
| | - Qing Yu Liu
- State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Provincial Key Laboratory of Microbial Molecular Biology, College of Life Science, Hunan Normal University, Changsha 410081, P. R. China
| | - Min Xia Quan
- State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Provincial Key Laboratory of Microbial Molecular Biology, College of Life Science, Hunan Normal University, Changsha 410081, P. R. China
| | - Jiao Yang Lu
- Academician Workstation, Changsha Medical University, Changsha 410219, P. R. China
| | - Wei Tao Huang
- State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Provincial Key Laboratory of Microbial Molecular Biology, College of Life Science, Hunan Normal University, Changsha 410081, P. R. China
| |
Collapse
|
45
|
Negahdary M, Angnes L. Electrochemical nanobiosensors equipped with peptides: a review. Mikrochim Acta 2022; 189:94. [PMID: 35132460 DOI: 10.1007/s00604-022-05184-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2021] [Accepted: 01/12/2022] [Indexed: 12/17/2022]
Abstract
Recent research in the field of electrochemical biosensors equipped with peptides and nanomaterials have been categorized, reviewed, and critically analyzed. Indeed, using these innovative biosensors can revolutionize biomedical diagnostics in the future. Saving lives, time, and money in this field will be considered as some main benefits of this type of diagnosis. Here, these biosensors have been categorized and evaluated in four main sections. In the first section, the focus is on investigating the types of electrochemical peptide-based nanobiosensors applied to detect pathogenic microorganisms, microbial toxins, and viruses. In the second section, due to the importance of rapid diagnosis and prognosis of various cancers, the electrochemical peptide-based nanobiosensors designed to detect cancer biomarkers have been reviewed and analyzed. In the third section, the electrochemical peptide-based nanobiosensors, which were applied to detect the essential and effective biomolecules in the various diseases, and health control, including enzymes, hormones, biomarkers, and other biomolecules, have been considered. Finally, using a comprehensive analysis, all the used elements in these biosensors have been presented as conceptual diagrams that can effectively guide researchers in future developments. The essential factors in evaluating and analyzing these electrochemical peptide-based nanobiosensors such as analyte, peptide sequence, functional groups interacted between the peptide sequences and other biosensing components, the applied nanomaterials, diagnostic techniques, detection range, and limit of detection have also been included. Other analyzable items such as the type of used redox marker and the location of the peptide sequence against the signal transducer were also considered.
Collapse
Affiliation(s)
- Masoud Negahdary
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, São Paulo, 05508-000, Brazil.
| | - Lúcio Angnes
- Department of Fundamental Chemistry, Institute of Chemistry, University of São Paulo, Av. Prof. Lineu Prestes, 748, São Paulo, 05508-000, Brazil.
| |
Collapse
|
46
|
Ghosh G, Barman R, Mukherjee A, Ghosh U, Ghosh S, Fernández G. Control over Multiple Nano‐ and Secondary Structures in Peptide Self‐Assembly. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202113403] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Goutam Ghosh
- Organisch-Chemisches Institut Westfälische Wilhelms-Universität Münster Correnstrasse 36 48149 Münster Germany
| | - Ranajit Barman
- School of Applied and Interdisciplinary Sciences Indian Association for the Cultivation Science 2A and 2B Raja S. C. Mullick Road Kolkata India
| | - Anurag Mukherjee
- School of Applied and Interdisciplinary Sciences Indian Association for the Cultivation Science 2A and 2B Raja S. C. Mullick Road Kolkata India
| | - Uttam Ghosh
- Department of Organic Chemistry Indian Institute of Science Bengaluru 560012 Karnataka India
| | - Suhrit Ghosh
- School of Applied and Interdisciplinary Sciences Indian Association for the Cultivation Science 2A and 2B Raja S. C. Mullick Road Kolkata India
| | - Gustavo Fernández
- Organisch-Chemisches Institut Westfälische Wilhelms-Universität Münster Correnstrasse 36 48149 Münster Germany
| |
Collapse
|
47
|
Ghosh G, Barman R, Mukherjee A, Ghosh U, Ghosh S, Fernández G. Control over Multiple Nano- and Secondary Structures in Peptide Self-Assembly. Angew Chem Int Ed Engl 2022; 61:e202113403. [PMID: 34758508 PMCID: PMC9300061 DOI: 10.1002/anie.202113403] [Citation(s) in RCA: 24] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2021] [Indexed: 12/15/2022]
Abstract
Herein, we report the rich morphological and conformational versatility of a biologically active peptide (PEP-1), which follows diverse self-assembly pathways to form up to six distinct nanostructures and up to four different secondary structures through subtle modulation in pH, concentration and temperature. PEP-1 forms twisted β-sheet secondary structures and nanofibers at pH 7.4, which transform into fractal-like structures with strong β-sheet conformations at pH 13.0 or short disorganized elliptical aggregates at pH 5.5. Upon dilution at pH 7.4, the nanofibers with twisted β-sheet secondary structural elements convert into nanoparticles with random coil conformations. Interestingly, these two self-assembled states at pH 7.4 and room temperature are kinetically controlled and undergo a further transformation into thermodynamically stable states upon thermal annealing: whereas the twisted β-sheet structures and corresponding nanofibers transform into 2D sheets with well-defined β-sheet domains, the nanoparticles with random coil structures convert into short nanorods with α-helix conformations. Notably, PEP-1 also showed high biocompatibility, low hemolytic activity and marked antibacterial activity, rendering our system a promising candidate for multiple bio-applications.
Collapse
Affiliation(s)
- Goutam Ghosh
- Organisch-Chemisches InstitutWestfälische Wilhelms-Universität MünsterCorrenstrasse 3648149MünsterGermany
| | - Ranajit Barman
- School of Applied and Interdisciplinary SciencesIndian Association for the Cultivation Science2A and 2B Raja S. C. Mullick RoadKolkataIndia
| | - Anurag Mukherjee
- School of Applied and Interdisciplinary SciencesIndian Association for the Cultivation Science2A and 2B Raja S. C. Mullick RoadKolkataIndia
| | - Uttam Ghosh
- Department of Organic ChemistryIndian Institute of ScienceBengaluru560012KarnatakaIndia
| | - Suhrit Ghosh
- School of Applied and Interdisciplinary SciencesIndian Association for the Cultivation Science2A and 2B Raja S. C. Mullick RoadKolkataIndia
| | - Gustavo Fernández
- Organisch-Chemisches InstitutWestfälische Wilhelms-Universität MünsterCorrenstrasse 3648149MünsterGermany
| |
Collapse
|
48
|
Improved Recovery and Selectivity of Lanthanide-Ion-Binding Cyclic Peptide Hosts by Changing the Position of Acidic Amino Acids. MINERALS 2022. [DOI: 10.3390/min12020148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The development of an effective host molecule to separate lanthanide (Ln) ions and a method for predicting its guest recognition/self-assembly behavior based on primary chemical structures are highly sought after in both academia and industry. Herein, we report the improvement of one-pot Ln ion recovery and a performance prediction method for four new cyclic peptide hosts that differ in the position of acidic amino acids. These cyclic peptide hosts could recognize Ln3+ directly through a 1:1 complexation–precipitation process and exhibited high Lu3+ selectivity in spite of similar ion size and electronegativity when the positions of the acidic amino acids were changed. This unpredictable selectivity was explained by considering the dipole moment, lowest unoccupied molecular orbital, and cohesion energy. In addition, a semi-empirical function using these parameters was proposed for screening the sequence and estimating the isolated yields without long-time molecular dynamics calculations. The insights obtained from this study can be employed for the development of high-performance peptides for the selective recovery of Ln and other metal ions, as well as for the construction of diverse supramolecular recognition systems.
Collapse
|
49
|
Zhu Y, Liu P, Zhang J, Hu J, Zhao Y. Facile synthesis of monocyclic, dumbbell-shaped and jellyfish-like copolymers using a telechelic multisite hexablock copolymer. Polym Chem 2022. [DOI: 10.1039/d2py00824f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A heterofunctional hexablock copolymer comprising alternating reactive and non-reactive blocks is designed to generate cyclic, dumbbell-shaped and jellyfish-like copolymers.
Collapse
Affiliation(s)
- Yingsheng Zhu
- Suzhou Key Laboratory of Macromolecular Design and Precision Synthesis, Key Laboratory of Polymeric Materials Design and Synthesis for Biomedical Function, Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Peng Liu
- Suzhou Key Laboratory of Macromolecular Design and Precision Synthesis, Key Laboratory of Polymeric Materials Design and Synthesis for Biomedical Function, Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Jian Zhang
- Suzhou Key Laboratory of Macromolecular Design and Precision Synthesis, Key Laboratory of Polymeric Materials Design and Synthesis for Biomedical Function, Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Jiaman Hu
- Suzhou Key Laboratory of Macromolecular Design and Precision Synthesis, Key Laboratory of Polymeric Materials Design and Synthesis for Biomedical Function, Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| | - Youliang Zhao
- Suzhou Key Laboratory of Macromolecular Design and Precision Synthesis, Key Laboratory of Polymeric Materials Design and Synthesis for Biomedical Function, Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, State and Local Joint Engineering Laboratory for Novel Functional Polymeric Materials, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, China
| |
Collapse
|
50
|
Priegue JM, Louzao I, Gallego I, Montenegro J, Granja JR. 1D alignment of proteins and other nanoparticles by using reversible covalent bonds on cyclic peptide nanotubes. Org Chem Front 2022. [DOI: 10.1039/d1qo01349a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Peptide nanotubes deposit on mica surface can be used for the alignment of proteins thank to the use of dynamic covalent bonds that allow the incorporation of appropriate ligands on nanotube surface.
Collapse
Affiliation(s)
- Juan M. Priegue
- Singular Research Centre in Chemical Biology and Molecular Materials, (CIQUS), Organic Chemistry Department, University of Santiago de Compostela (USC), 15782 Santiago de Compostela, Spain
| | - Iria Louzao
- Singular Research Centre in Chemical Biology and Molecular Materials, (CIQUS), Organic Chemistry Department, University of Santiago de Compostela (USC), 15782 Santiago de Compostela, Spain
| | - Iván Gallego
- Singular Research Centre in Chemical Biology and Molecular Materials, (CIQUS), Organic Chemistry Department, University of Santiago de Compostela (USC), 15782 Santiago de Compostela, Spain
| | - Javier Montenegro
- Singular Research Centre in Chemical Biology and Molecular Materials, (CIQUS), Organic Chemistry Department, University of Santiago de Compostela (USC), 15782 Santiago de Compostela, Spain
| | - Juan R. Granja
- Singular Research Centre in Chemical Biology and Molecular Materials, (CIQUS), Organic Chemistry Department, University of Santiago de Compostela (USC), 15782 Santiago de Compostela, Spain
| |
Collapse
|