1
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Obeng EM, Fulcher AJ, Wagstaff KM. Harnessing sortase A transpeptidation for advanced targeted therapeutics and vaccine engineering. Biotechnol Adv 2023; 64:108108. [PMID: 36740026 DOI: 10.1016/j.biotechadv.2023.108108] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Revised: 01/29/2023] [Accepted: 01/31/2023] [Indexed: 02/05/2023]
Abstract
The engineering of potent prophylactic and therapeutic complexes has always required careful protein modification techniques with seamless capabilities. In this light, methods that favor unobstructed multivalent targeting and correct antigen presentations remain essential and very demanding. Sortase A (SrtA) transpeptidation has exhibited these attributes in various settings over the years. However, its applications for engineering avidity-inspired therapeutics and potent vaccines have yet to be significantly noticed, especially in this era where active targeting and multivalent nanomedications are in great demand. This review briefly presents the SrtA enzyme and its associated transpeptidation activity and describes interesting sortase-mediated protein engineering and chemistry approaches for achieving multivalent therapeutic and antigenic responses. The review further highlights advanced applications in targeted delivery systems, multivalent therapeutics, adoptive cellular therapy, and vaccine engineering. These innovations show the potential of sortase-mediated techniques in facilitating the development of simple plug-and-play nanomedicine technologies against recalcitrant diseases and pandemics such as cancer and viral infections.
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Affiliation(s)
- Eugene M Obeng
- Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton, VIC 3800, Australia.
| | - Alex J Fulcher
- Monash Micro Imaging, Monash University, Clayton, VIC 3800, Australia
| | - Kylie M Wagstaff
- Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton, VIC 3800, Australia.
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2
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Qing R, Hao S, Smorodina E, Jin D, Zalevsky A, Zhang S. Protein Design: From the Aspect of Water Solubility and Stability. Chem Rev 2022; 122:14085-14179. [PMID: 35921495 PMCID: PMC9523718 DOI: 10.1021/acs.chemrev.1c00757] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Indexed: 12/13/2022]
Abstract
Water solubility and structural stability are key merits for proteins defined by the primary sequence and 3D-conformation. Their manipulation represents important aspects of the protein design field that relies on the accurate placement of amino acids and molecular interactions, guided by underlying physiochemical principles. Emulated designer proteins with well-defined properties both fuel the knowledge-base for more precise computational design models and are used in various biomedical and nanotechnological applications. The continuous developments in protein science, increasing computing power, new algorithms, and characterization techniques provide sophisticated toolkits for solubility design beyond guess work. In this review, we summarize recent advances in the protein design field with respect to water solubility and structural stability. After introducing fundamental design rules, we discuss the transmembrane protein solubilization and de novo transmembrane protein design. Traditional strategies to enhance protein solubility and structural stability are introduced. The designs of stable protein complexes and high-order assemblies are covered. Computational methodologies behind these endeavors, including structure prediction programs, machine learning algorithms, and specialty software dedicated to the evaluation of protein solubility and aggregation, are discussed. The findings and opportunities for Cryo-EM are presented. This review provides an overview of significant progress and prospects in accurate protein design for solubility and stability.
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Affiliation(s)
- Rui Qing
- State
Key Laboratory of Microbial Metabolism, School of Life Sciences and
Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China
- Media
Lab, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
- The
David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
| | - Shilei Hao
- Media
Lab, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
- Key
Laboratory of Biorheological Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing 400030, China
| | - Eva Smorodina
- Department
of Immunology, University of Oslo and Oslo
University Hospital, Oslo 0424, Norway
| | - David Jin
- Avalon GloboCare
Corp., Freehold, New Jersey 07728, United States
| | - Arthur Zalevsky
- Laboratory
of Bioinformatics Approaches in Combinatorial Chemistry and Biology, Shemyakin−Ovchinnikov Institute of Bioorganic
Chemistry RAS, Moscow 117997, Russia
| | - Shuguang Zhang
- Media
Lab, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
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3
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Modulating vectored non-covalent interactions for layered assembly with engineerable properties. Biodes Manuf 2022. [DOI: 10.1007/s42242-022-00186-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
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4
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Kumar V, Sinha N, Thakur AK. Necessity of regulatory guidelines for the development of amyloid based biomaterials. Biomater Sci 2021; 9:4410-4422. [PMID: 34018497 DOI: 10.1039/d1bm00059d] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Amyloid diseases are caused due to protein homeostasis failure where incorrectly folded proteins/peptides form cross-β-sheet rich amyloid fibrillar structures. Besides proteins/peptides, small metabolite assemblies also exhibit amyloid-like features. These structures are linked to several human and animal diseases. In addition, non-toxic amyloids with diverse physiological roles are characterized as a new functional class. This finding, along with the unique properties of amyloid like stability and mechanical strength, led to a surge in the development of amyloid-based biomaterials. However, the usage of these materials by humans and animals may pose a health risk such as the development of amyloid diseases and toxicity. This is possible because amyloid-based biomaterials and their fragments may assist seeding and cross-seeding mechanisms of amyloid formation in the body. This review summarizes the potential uses of amyloids as biomaterials, the concerns regarding their usage, and a prescribed workflow to initiate a regulatory approach.
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Affiliation(s)
- Vijay Kumar
- Department of Molecular Microbiology and Biotechnology, Shmunis School of Biomedicine and Cancer Research, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel
| | - Nabodita Sinha
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology Kanpur, UP-208016, India.
| | - Ashwani Kumar Thakur
- Department of Biological Sciences and Bioengineering, Indian Institute of Technology Kanpur, UP-208016, India.
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5
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Abstract
Self-assembly of proteins and peptides into the amyloid fold is a widespread phenomenon in the natural world. The structural hallmark of self-assembly into amyloid fibrillar assemblies is the cross-beta motif, which conveys distinct morphological and mechanical properties. The amyloid fibril formation has contrasting results depending on the organism, in the sense that it can bestow an organism with the advantages of mechanical strength and improved functionality or, on the contrary, could give rise to pathological states. In this chapter we review the existing information on amyloid-like peptide aggregates, which could either be derived from protein sequences, but also could be rationally or de novo designed in order to self-assemble into amyloid fibrils under physiological conditions. Moreover, the development of self-assembled fibrillar biomaterials that are tailored for the desired properties towards applications in biomedical or environmental areas is extensively analyzed. We also review computational studies predicting the amyloid propensity of the natural amino acid sequences and the structure of amyloids, as well as designing novel functional amyloid materials.
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Affiliation(s)
- C. Kokotidou
- University of Crete, Department of Materials Science and Technology Voutes Campus GR-70013 Heraklion Crete Greece
- FORTH, Institute for Electronic Structure and Laser N. Plastira 100 GR 70013 Heraklion Greece
| | - P. Tamamis
- Texas A&M University, Artie McFerrin Department of Chemical Engineering College Station Texas 77843-3122 USA
| | - A. Mitraki
- University of Crete, Department of Materials Science and Technology Voutes Campus GR-70013 Heraklion Crete Greece
- FORTH, Institute for Electronic Structure and Laser N. Plastira 100 GR 70013 Heraklion Greece
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6
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Zennifer A, Sekar MP, Subramanian A, Sethuraman S. Nanofiber matrices of protein mimetic bioactive peptides for biomedical applications. ARTIFICIAL PROTEIN AND PEPTIDE NANOFIBERS 2020:199-217. [DOI: 10.1016/b978-0-08-102850-6.00009-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
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7
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Kokotidou C, Jonnalagadda SVR, Orr AA, Vrentzos G, Kretsovali A, Tamamis P, Mitraki A. Designer Amyloid Cell-Penetrating Peptides for Potential Use as Gene Transfer Vehicles. Biomolecules 2019; 10:E7. [PMID: 31861408 PMCID: PMC7023140 DOI: 10.3390/biom10010007] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2019] [Revised: 12/15/2019] [Accepted: 12/16/2019] [Indexed: 12/24/2022] Open
Abstract
Cell-penetrating peptides are used extensively to deliver molecules into cells due to their unique characteristics such as rapid internalization, charge, and non-cytotoxicity. Amyloid fibril biomaterials were reported as gene transfer or retroviral infection enhancers; no cell internalization of the peptides themselves is reported so far. In this study, we focus on two rationally and computationally designed peptides comprised of β-sheet cores derived from naturally occurring protein sequences and designed positively charged and aromatic residues exposed at key residue positions. The β-sheet cores bestow the designed peptides with the ability to self-assemble into amyloid fibrils. The introduction of positively charged and aromatic residues additionally promotes DNA condensation and cell internalization by the self-assembled material formed by the designed peptides. Our results demonstrate that these designer peptide fibrils can efficiently enter mammalian cells while carrying packaged luciferase-encoding plasmid DNA, and they can act as a protein expression enhancer. Interestingly, the peptides additionally exhibited strong antimicrobial activity against the enterobacterium Escherichia coli.
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Affiliation(s)
- Chrysoula Kokotidou
- Department of Materials Science and Technology, University of Crete, 70013 Heraklion, Grete, Greece;
- Institute of Electronic Structure and Laser (IESL) FORTH, 70013 Heraklion, Crete, Greece
| | - Sai Vamshi R. Jonnalagadda
- Artie McFerrin Department of Chemical Engineering, Texas A&M University College Station, TX 77843-3251, USA; (S.V.R.J.); (A.A.O.)
| | - Asuka A. Orr
- Artie McFerrin Department of Chemical Engineering, Texas A&M University College Station, TX 77843-3251, USA; (S.V.R.J.); (A.A.O.)
| | - George Vrentzos
- Institute of Molecular Biology and Biotechnology (IMBB) FORTH, 70013 Heraklion, Crete, Greece; (G.V.); (A.K.)
| | - Androniki Kretsovali
- Institute of Molecular Biology and Biotechnology (IMBB) FORTH, 70013 Heraklion, Crete, Greece; (G.V.); (A.K.)
| | - Phanourios Tamamis
- Artie McFerrin Department of Chemical Engineering, Texas A&M University College Station, TX 77843-3251, USA; (S.V.R.J.); (A.A.O.)
| | - Anna Mitraki
- Department of Materials Science and Technology, University of Crete, 70013 Heraklion, Grete, Greece;
- Institute of Electronic Structure and Laser (IESL) FORTH, 70013 Heraklion, Crete, Greece
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8
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Yadav N, Chauhan MK, Chauhan VS. Short to ultrashort peptide-based hydrogels as a platform for biomedical applications. Biomater Sci 2019; 8:84-100. [PMID: 31696870 DOI: 10.1039/c9bm01304k] [Citation(s) in RCA: 66] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Short peptides have attracted significant attention from researchers in the past few years due to their easy design, synthesis and characterization, diverse functionalisation possibilities, low cost, possibility to make a large range of hierarchical nanostructures and most importantly their high biocompatibility and biodegradability. Generally, short peptides are also relatively more stable than their longer variants, non-immunogenic in nature and many of them self-assemble to provide an exciting range of nanostructures, including hydrogels. Thus, the development of short peptide-based hydrogels has become an area of intense investigation. Although these hydrogels have a water content of greater than 90%, they are surprisingly highly stable structures, and thus have been used for various biomedical applications, including cell therapeutics, drug delivery, tissue engineering and regeneration, contact lenses, biosensors, and wound healing, by different researchers. Herein, we review the progress of research in the rapidly expanding field of short to ultrashort peptide-based hydrogels and their possible applications. Special attention is paid to address and review this field with regard to the stability of peptide-based hydrogels, particularly to enzymatic degradation.
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Affiliation(s)
- Nitin Yadav
- Molecular Medicine Group, International Centre for Genetic Engineering & Biotechnology, Aruna Asaf Ali Marg, New Delhi-110067, India. and Delhi Institute of Pharmaceutical Sciences and Research, Mehrauli-Badarpur Road, Sector-3, Pushpvihar, New Delhi-110017, India
| | - Meenakshi K Chauhan
- Delhi Institute of Pharmaceutical Sciences and Research, Mehrauli-Badarpur Road, Sector-3, Pushpvihar, New Delhi-110017, India
| | - Virander S Chauhan
- Molecular Medicine Group, International Centre for Genetic Engineering & Biotechnology, Aruna Asaf Ali Marg, New Delhi-110067, India.
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9
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Guterman T, Ing NL, Fleischer S, Rehak P, Basavalingappa V, Hunashal Y, Dongre R, Raghothama S, Král P, Dvir T, Hochbaum AI, Gazit E. Electrical Conductivity, Selective Adhesion, and Biocompatibility in Bacteria-Inspired Peptide-Metal Self-Supporting Nanocomposites. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2019; 31:e1807285. [PMID: 30644148 DOI: 10.1002/adma.201807285] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2018] [Revised: 12/20/2018] [Indexed: 06/09/2023]
Abstract
Bacterial type IV pili (T4P) are polymeric protein nanofibers that have diverse biological roles. Their unique physicochemical properties mark them as a candidate biomaterial for various applications, yet difficulties in producing native T4P hinder their utilization. Recent effort to mimic the T4P of the metal-reducing Geobacter sulfurreducens bacterium led to the design of synthetic peptide building blocks, which self-assemble into T4P-like nanofibers. Here, it is reported that the T4P-like peptide nanofibers efficiently bind metal oxide particles and reduce Au ions analogously to their native counterparts, and thus give rise to versatile and multifunctional peptide-metal nanocomposites. Focusing on the interaction with Au ions, a combination of experimental and computational methods provides mechanistic insight into the formation of an exceptionally dense Au nanoparticle (AuNP) decoration of the nanofibers. Characterization of the thus-formed peptide-AuNPs nanocomposite reveals enhanced thermal stability, electrical conductivity from the single-fiber level up, and substrate-selective adhesion. Exploring its potential applications, it is demonstrated that the peptide-AuNPs nanocomposite can act as a reusable catalytic coating or form self-supporting immersible films of desired shapes. The films scaffold the assembly of cardiac cells into synchronized patches, and present static charge detection capabilities at the macroscale. The study presents a novel T4P-inspired biometallic material.
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Affiliation(s)
- Tom Guterman
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel
- The Center for Nanoscience and Nanotechnology, Tel Aviv University, Tel Aviv, 6997801, Israel
| | - Nicole L Ing
- Department of Chemical Engineering and Materials Science, University of California, Irvine, Irvine, CA, 92697, USA
| | - Sharon Fleischer
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel
- The Center for Nanoscience and Nanotechnology, Tel Aviv University, Tel Aviv, 6997801, Israel
| | - Pavel Rehak
- Department of Chemistry, University of Illinois at Chicago, Chicago, IL, 60607, USA
| | - Vasantha Basavalingappa
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel
- The Center for Nanoscience and Nanotechnology, Tel Aviv University, Tel Aviv, 6997801, Israel
| | - Yamanappa Hunashal
- NMR Research Centre, Indian Institute of Science, Bangalore, 560012, India
| | - Ramachandra Dongre
- NMR Research Centre, Indian Institute of Science, Bangalore, 560012, India
| | | | - Petr Král
- Department of Chemistry, University of Illinois at Chicago, Chicago, IL, 60607, USA
- Department of Physics and Department of Biopharmaceutical Sciences, University of Illinois at Chicago, Chicago, IL, 60607, USA
| | - Tal Dvir
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel
- The Center for Nanoscience and Nanotechnology, Tel Aviv University, Tel Aviv, 6997801, Israel
- Department of Materials Science and Engineering, Iby and Aladar Fleischman Faculty of Engineering, and Sagol Center for Regenerative Biotechnology, Tel Aviv University, Tel Aviv, 69978, Israel
| | - Allon I Hochbaum
- Department of Chemical Engineering and Materials Science, University of California, Irvine, Irvine, CA, 92697, USA
- Department of Chemistry, University of California, Irvine, Irvine, CA, 92697, USA
| | - Ehud Gazit
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel
- The Center for Nanoscience and Nanotechnology, Tel Aviv University, Tel Aviv, 6997801, Israel
- Department of Materials Science and Engineering, Iby and Aladar Fleischman Faculty of Engineering, Tel Aviv University, Tel Aviv, 6997801, Israel
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10
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Al-Halifa S, Babych M, Zottig X, Archambault D, Bourgault S. Amyloid self-assembling peptides: Potential applications in nanovaccine engineering and biosensing. Pept Sci (Hoboken) 2018. [DOI: 10.1002/pep2.24095] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Soultan Al-Halifa
- Department of Chemistry; Université du Québec à Montréal; Montreal, QC Canada
- Quebec Network for Research on Protein Function, Engineering and Applications, PROTEO; Québec QC Canada
| | - Margaryta Babych
- Department of Chemistry; Université du Québec à Montréal; Montreal, QC Canada
- Quebec Network for Research on Protein Function, Engineering and Applications, PROTEO; Québec QC Canada
| | - Ximena Zottig
- Department of Chemistry; Université du Québec à Montréal; Montreal, QC Canada
- Quebec Network for Research on Protein Function, Engineering and Applications, PROTEO; Québec QC Canada
| | - Denis Archambault
- Department of Biological Sciences; Université du Québec à Montréal; Montreal, QC Canada
- Swine and Poultry Infectious Diseases Research Centre, CRIPA; QC Canada
| | - Steve Bourgault
- Department of Chemistry; Université du Québec à Montréal; Montreal, QC Canada
- Quebec Network for Research on Protein Function, Engineering and Applications, PROTEO; Québec QC Canada
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11
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Jonnalagadda SVR, Kokotidou C, Orr AA, Fotopoulou E, Henderson KJ, Choi CH, Lim WT, Choi SJ, Jeong HK, Mitraki A, Tamamis P. Computational Design of Functional Amyloid Materials with Cesium Binding, Deposition, and Capture Properties. J Phys Chem B 2018; 122:7555-7568. [DOI: 10.1021/acs.jpcb.8b04103] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
| | - Chrysoula Kokotidou
- Department of Materials Science and Technology, University of Crete, Heraklion 700 13, Crete, Greece
- Institute of Electronic Structure and Laser (IESL) FORTH, Heraklion 711 10, Crete, Greece
| | | | - Emmanouela Fotopoulou
- Department of Materials Science and Technology, University of Crete, Heraklion 700 13, Crete, Greece
| | | | | | - Woo Taik Lim
- Department of Applied Chemistry, Andong National University, Andong 36729, Republic of Korea
| | - Sang June Choi
- Department of Environmental Engineering, Kyungpook National University, Daegu 41566, Republic of Korea
| | | | - Anna Mitraki
- Department of Materials Science and Technology, University of Crete, Heraklion 700 13, Crete, Greece
- Institute of Electronic Structure and Laser (IESL) FORTH, Heraklion 711 10, Crete, Greece
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12
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Pelin JNBD, Gatto E, Venanzi M, Cavalieri F, Oliveira CLP, Martinho H, Silva ER, Aguilar AM, Souza JS, Alves WA. Hybrid Conjugates Formed between Gold Nanoparticles and an Amyloidogenic Diphenylalanine-Cysteine Peptide. ChemistrySelect 2018. [DOI: 10.1002/slct.201801345] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Juliane N. B. D. Pelin
- Centro de Ciências Naturais e Humanas; Universidade Federal do ABC; 09210-580 Santo André Brazil
| | - Emanuela Gatto
- Department of Chemical Science and Technologies; University of Rome Tor Vergata; Italy
| | - Mariano Venanzi
- Department of Chemical Science and Technologies; University of Rome Tor Vergata; Italy
| | - Francesca Cavalieri
- Department of Chemical and Biomolecular Engineering; The University of Melbourne; Australia
- Department of Chemical Science and Technologies; University of Rome Tor Vergata; Italy
| | | | - Herculano Martinho
- Centro de Ciências Naturais e Humanas; Universidade Federal do ABC; 09210-580 Santo André Brazil
| | - Emerson R. Silva
- Departamento de Biofísica; Universidade Federal de São Paulo; 04023-062 São Paulo Brazil
| | - Andrea M. Aguilar
- Instituto de Ciências Ambientais, Químicas e Farmacêuticas; Universidade Federal de São Paulo; Diadema 09972-270 Brazil
| | - Juliana S. Souza
- Centro de Ciências Naturais e Humanas; Universidade Federal do ABC; 09210-580 Santo André Brazil
| | - Wendel A. Alves
- Centro de Ciências Naturais e Humanas; Universidade Federal do ABC; 09210-580 Santo André Brazil
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13
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Kokotidou C, Jonnalagadda SVR, Orr AA, Seoane-Blanco M, Apostolidou CP, van Raaij MJ, Kotzabasaki M, Chatzoudis A, Jakubowski JM, Mossou E, Forsyth VT, Mitchell EP, Bowler MW, Llamas-Saiz AL, Tamamis P, Mitraki A. A novel amyloid designable scaffold and potential inhibitor inspired by GAIIG of amyloid beta and the HIV-1 V3 loop. FEBS Lett 2018; 592:1777-1788. [PMID: 29772603 DOI: 10.1002/1873-3468.13096] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2018] [Accepted: 05/02/2018] [Indexed: 12/11/2022]
Abstract
The GAIIG sequence, common to the amyloid beta peptide (residues 29-33) and to the HIV-1 gp120 (residues 24-28 in a typical V3 loop), self-assembles into amyloid fibrils, as suggested by theory and the experiments presented here. The longer YATGAIIGNII sequence from the V3 loop also self-assembles into amyloid fibrils, of which the first three and the last two residues are outside the amyloid GAIIG core. We postulate that this sequence, with suitably selected modifications at the flexible positions, can serve as a designable scaffold for novel amyloid-based materials. Moreover, we report the single crystal X-ray structure of the beta-breaker peptide GAIPIG at 1.05 Å resolution. The structural information provided in this study could serve as the basis for structure-based design of potential inhibitors of amyloid formation.
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Affiliation(s)
- Chrysoula Kokotidou
- Department of Materials Science and Technology, University of Crete, Heraklion, Greece.,Institute of Electronic Structure and Laser (IESL), FORTH, Heraklion, Greece
| | | | - Asuka A Orr
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | - Mateo Seoane-Blanco
- Departamento de Estructura de Macromoleculas, Centro Nacional de Biotecnologia (CSIC), Madrid, Spain
| | - Chrysanthi Pinelopi Apostolidou
- Department of Materials Science and Technology, University of Crete, Heraklion, Greece.,Institute of Electronic Structure and Laser (IESL), FORTH, Heraklion, Greece
| | - Mark J van Raaij
- Departamento de Estructura de Macromoleculas, Centro Nacional de Biotecnologia (CSIC), Madrid, Spain
| | - Marianna Kotzabasaki
- Department of Materials Science and Technology, University of Crete, Heraklion, Greece
| | - Apostolos Chatzoudis
- Department of Materials Science and Technology, University of Crete, Heraklion, Greece
| | - Joseph M Jakubowski
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | - Estelle Mossou
- Institut Laue Langevin, Grenoble Cedex 9, France.,Faculty of Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire, UK
| | - V Trevor Forsyth
- Institut Laue Langevin, Grenoble Cedex 9, France.,Faculty of Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire, UK
| | - Edward P Mitchell
- Faculty of Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire, UK.,European Synchrotron Radiation Facility, Grenoble Cedex 9, France
| | - Matthew W Bowler
- European Molecular Biology Laboratory, Grenoble, France.,Unit for Virus Host Cell Interactions, University Grenoble Alpes-EMBL-CNRS, Grenoble, France
| | - Antonio L Llamas-Saiz
- X-Ray Unit, RIAIDT, University of Santiago de Compostela, Santiago de Compostela, Spain
| | - Phanourios Tamamis
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, TX, USA
| | - Anna Mitraki
- Department of Materials Science and Technology, University of Crete, Heraklion, Greece.,Institute of Electronic Structure and Laser (IESL), FORTH, Heraklion, Greece
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14
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Mineral Surface-Templated Self-Assembling Systems: Case Studies from Nanoscience and Surface Science towards Origins of Life Research. Life (Basel) 2018; 8:life8020010. [PMID: 29738443 PMCID: PMC6027067 DOI: 10.3390/life8020010] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2018] [Revised: 04/26/2018] [Accepted: 05/03/2018] [Indexed: 01/20/2023] Open
Abstract
An increasing body of evidence relates the wide range of benefits mineral surfaces offer for the development of early living systems, including adsorption of small molecules from the aqueous phase, formation of monomeric subunits and their subsequent polymerization, and supramolecular assembly of biopolymers and other biomolecules. Each of these processes was likely a necessary stage in the emergence of life on Earth. Here, we compile evidence that templating and enhancement of prebiotically-relevant self-assembling systems by mineral surfaces offers a route to increased structural, functional, and/or chemical complexity. This increase in complexity could have been achieved by early living systems before the advent of evolvable systems and would not have required the generally energetically unfavorable formation of covalent bonds such as phosphodiester or peptide bonds. In this review we will focus on various case studies of prebiotically-relevant mineral-templated self-assembling systems, including supramolecular assemblies of peptides and nucleic acids, from nanoscience and surface science. These fields contain valuable information that is not yet fully being utilized by the origins of life and astrobiology research communities. Some of the self-assemblies that we present can promote the formation of new mineral surfaces, similar to biomineralization, which can then catalyze more essential prebiotic reactions; this could have resulted in a symbiotic feedback loop by which geology and primitive pre-living systems were closely linked to one another even before life’s origin. We hope that the ideas presented herein will seed some interesting discussions and new collaborations between nanoscience/surface science researchers and origins of life/astrobiology researchers.
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15
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Almohammed S, Zhang F, Rodriguez BJ, Rice JH. Photo-induced surface-enhanced Raman spectroscopy from a diphenylalanine peptide nanotube-metal nanoparticle template. Sci Rep 2018; 8:3880. [PMID: 29497167 PMCID: PMC5832858 DOI: 10.1038/s41598-018-22269-x] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2017] [Accepted: 02/16/2018] [Indexed: 11/09/2022] Open
Abstract
UV irradiation of aligned diphenylalanine peptide nanotubes (FF-PNTs) decorated with plasmonic silver nanoparticles (Ag NPs) enables photo-induced surface-enhanced Raman spectroscopy. UV-induced charge transfer facilitates a chemical enhancement that provides up to a 10-fold increase in surface-enhanced Raman intensity and allows the detection of a wide range of small molecules and low Raman cross-section molecules at concentrations as low as 10-13 M. The aligned FF-PNT/Ag NP template further prevents photodegradation of the molecules under investigation. Our results demonstrate that FF-PNTs can be used as an alternative material to semiconductors such as titanium dioxide for photo-induced surface-enhanced Raman spectroscopy applications.
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Affiliation(s)
- Sawsan Almohammed
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland
- Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
| | - Fengyuan Zhang
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland
- Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
| | - Brian J Rodriguez
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland.
- Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland.
| | - James H Rice
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland.
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16
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Dehvari M, Ghahghaei A. The effect of green synthesis silver nanoparticles (AgNPs) from Pulicaria undulata on the amyloid formation in α-lactalbumin and the chaperon action of α-casein. Int J Biol Macromol 2017; 108:1128-1139. [PMID: 29225181 DOI: 10.1016/j.ijbiomac.2017.12.040] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2017] [Revised: 11/01/2017] [Accepted: 12/06/2017] [Indexed: 11/28/2022]
Abstract
The formation and deposition of protein fibrillar aggregates in the tissues is associated with several neurodegenerative diseases such as Alzheimer's and Parkinson's disease. Molecular chaperones are a family of proteins that are believed to have the ability to inhibit protein aggregation. The present study examines the effect of different concentrations of green synthesis silver nanoparticles (AgNPs) from Pulicaria undulata L. on the aggregation of α-lactalbumin (α-LA) and the chaperone action of αs-casein. The effects of the AgNPs were determined by measuring light scattering absorption, fluorescence (ThT assay, intrinsic fluorescence assay and ANS binding assay), TEM, CD spectroscopy and SDS-PAGE. The results showed that AgNPs have the ability to prevent the aggregation of α-LA in a concentration-dependent manner. In fact, by increasing the concentration of AgNPs within a specified range, the adsorption and interaction between AgNPs and protein have increased and protein conformational changes and self-association decreased, thus amyloid aggregation is prevented. Our results also showed that α-casein effectively prevented the aggregation of the α-lactalbumin which increased in the presence of the AgNPs. Standard experimental results, however, proved that nanoparticles had no effect on the structure and hence the chaperone ability of α-casein. Our findings showed that AgNPs can prevent protein aggregation and have no effect on the chaperone ability of αs-casein. In the main, results of this study show that biosynthesized AgNPs mediated by Pulicaria undulata L. has the capability in inhibiting amyloid fibril formation and thus could be consider as a therapeutic agent in the treatment of amyloidosis disorders.
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Affiliation(s)
- Mansoor Dehvari
- Department of Biology, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran
| | - Arezou Ghahghaei
- Department of Biology, Faculty of Science, University of Sistan and Baluchestan, Zahedan, Iran.
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17
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Tao K, Levin A, Adler-Abramovich L, Gazit E. Fmoc-modified amino acids and short peptides: simple bio-inspired building blocks for the fabrication of functional materials. Chem Soc Rev 2017; 45:3935-53. [PMID: 27115033 DOI: 10.1039/c5cs00889a] [Citation(s) in RCA: 288] [Impact Index Per Article: 41.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Amino acids and short peptides modified with the 9-fluorenylmethyloxycarbonyl (Fmoc) group possess eminent self-assembly features and show distinct potential for applications due to the inherent hydrophobicity and aromaticity of the Fmoc moiety which can promote the association of building blocks. Given the extensive study and numerous publications in this field, it is necessary to summarize the recent progress concerning these important bio-inspired building blocks. Therefore, in this review, we explore the self-organization of this class of functional molecules from three aspects, i.e., Fmoc-modified individual amino acids, Fmoc-modified di- and tripeptides, and Fmoc-modified tetra- and pentapeptides. The relevant properties and applications related to cell cultivation, bio-templating, optical, drug delivery, catalytic, therapeutic and antibiotic properties are subsequently summarized. Finally, some existing questions impeding the development of Fmoc-modified simple biomolecules are discussed, and corresponding strategies and outlooks are suggested.
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Affiliation(s)
- Kai Tao
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel.
| | - Aviad Levin
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel.
| | - Lihi Adler-Abramovich
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel. and Department of Oral Biology, The Goldschleger School of Dental Medicine, Tel Aviv University, Tel Aviv, 69978, Israel
| | - Ehud Gazit
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, 6997801, Israel. and Department of Materials Science and Engineering, Iby and Aladar Fleischman Faculty of Engineering, Tel Aviv University, Tel Aviv, 6997801, Israel
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18
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Gilboa B, Lafargue C, Handelman A, Shimon LJW, Rosenman G, Zyss J, Ellenbogen T. Strong Electro-Optic Effect and Spontaneous Domain Formation in Self-Assembled Peptide Structures. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2017; 4:1700052. [PMID: 28932664 PMCID: PMC5604517 DOI: 10.1002/advs.201700052] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/03/2017] [Revised: 04/07/2017] [Indexed: 06/07/2023]
Abstract
Short peptides made from repeating units of phenylalanine self-assemble into a remarkable variety of micro- and nanostructures including tubes, tapes, spheres, and fibrils. These bio-organic structures are found to possess striking mechanical, electrical, and optical properties, which are rarely seen in organic materials, and are therefore shown useful for diverse applications including regenerative medicine, targeted drug delivery, and biocompatible fluorescent probes. Consequently, finding new optical properties in these materials can significantly advance their practical use, for example, by allowing new ways to visualize, manipulate, and utilize them in new, in vivo, sensing applications. Here, by leveraging a unique electro-optic phase microscopy technique, combined with traditional structural analysis, it is measured in di- and triphenylalanine peptide structures a surprisingly large electro-optic response of the same order as the best performing inorganic crystals. In addition, spontaneous domain formation is observed in triphenylalanine tapes, and the origin of their electro-optic activity is unveiled to be related to a porous triclinic structure, with extensive antiparallel beta-sheet arrangement. The strong electro-optic response of these porous peptide structures with the capability of hosting guest molecules opens the door to create new biocompatible, environmental friendly functional materials for electro-optic applications, including biomedical imaging, sensing, and optical manipulation.
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Affiliation(s)
- Barak Gilboa
- Department of Physical ElectronicsFleischman Faculty of EngineeringTel‐Aviv UniversityTel‐Aviv69978Israel
| | - Clément Lafargue
- Laboratoire de Photonique Quantique et Moléculaire (LPQM UMR CNRS 8537)Ecole Normale Supérieure de CachanUniversité Paris‐Saclay67 Avenue du Président Wilson94235CachanFrance
| | - Amir Handelman
- Faculty of EngineeringDepartment of Electrical EngineeringHolon Institute of Technology (HIT)52 Golumb St.Holon5810201Israel
| | - Linda J. W. Shimon
- Department of Chemical Research SupportWeizmann Institute of ScienceRehovot76100Israel
| | - Gil Rosenman
- Department of Physical ElectronicsFleischman Faculty of EngineeringTel‐Aviv UniversityTel‐Aviv69978Israel
| | - Joseph Zyss
- Laboratoire de Photonique Quantique et Moléculaire (LPQM UMR CNRS 8537)Ecole Normale Supérieure de CachanUniversité Paris‐Saclay67 Avenue du Président Wilson94235CachanFrance
| | - Tal Ellenbogen
- Department of Physical ElectronicsFleischman Faculty of EngineeringTel‐Aviv UniversityTel‐Aviv69978Israel
- Center for Light‐Matter InteractionTel‐Aviv UniversityTel‐Aviv6779801Israel
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19
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Deidda G, Jonnalagadda SVR, Spies JW, Ranella A, Mossou E, Forsyth VT, Mitchell EP, Bowler MW, Tamamis P, Mitraki A. Self-Assembled Amyloid Peptides with Arg-Gly-Asp (RGD) Motifs As Scaffolds for Tissue Engineering. ACS Biomater Sci Eng 2016; 3:1404-1416. [DOI: 10.1021/acsbiomaterials.6b00570] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Graziano Deidda
- Department of Materials Science and Technology, University of Crete, Heraklion 70013, Greece
- Institute
of Electronic Structure and Laser (IESL), Foundation for Research and Technology−Hellas (FORTH), Heraklion 70013, Greece
| | - Sai Vamshi R. Jonnalagadda
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, Texas 77843-3122, United States
| | - Jacob W. Spies
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, Texas 77843-3122, United States
| | - Anthi Ranella
- Institute
of Electronic Structure and Laser (IESL), Foundation for Research and Technology−Hellas (FORTH), Heraklion 70013, Greece
| | - Estelle Mossou
- Institut Laue Langevin, 6 rue
Jules Horowitz, 38042 Grenoble Cedex 9, France
- Faculty of
Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire ST5 5BG, United Kingdom
| | - V. Trevor Forsyth
- Institut Laue Langevin, 6 rue
Jules Horowitz, 38042 Grenoble Cedex 9, France
- Faculty of
Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire ST5 5BG, United Kingdom
| | - Edward P. Mitchell
- Faculty of
Natural Sciences/Institute for Science and Technology in Medicine, Keele University, Staffordshire ST5 5BG, United Kingdom
- European Synchrotron Radiation Facility, 6 rue Jules Horowitz, 38043 Grenoble Cedex 9, France
| | - Matthew W. Bowler
- European Molecular Biology Laboratory, Grenoble Outstation, 71 avenue des Martyrs, CS 90181, F-38042 Grenoble, France
- Unit
for Virus Host Cell Interactions, Université Grenoble Alpes−EMBL-CNRS, 71 avenue des Martyrs, CS 90181, F-38042 Grenoble, France
| | - Phanourios Tamamis
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, Texas 77843-3122, United States
| | - Anna Mitraki
- Department of Materials Science and Technology, University of Crete, Heraklion 70013, Greece
- Institute
of Electronic Structure and Laser (IESL), Foundation for Research and Technology−Hellas (FORTH), Heraklion 70013, Greece
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20
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Production of lysozyme nanofibers using deep eutectic solvent aqueous solutions. Colloids Surf B Biointerfaces 2016; 147:36-44. [PMID: 27478961 DOI: 10.1016/j.colsurfb.2016.07.005] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2016] [Revised: 05/23/2016] [Accepted: 07/03/2016] [Indexed: 12/30/2022]
Abstract
Amyloid fibrils have recently gained a lot of attention due to their morphology, functionality and mechanical strength, allowing for their application in nanofiber-based materials, biosensors, bioactive membranes and tissue engineering scaffolds. The in vitro production of amyloid fibrils is still a slow process, thus hampering the massive production of nanofibers and its consequent use. This work presents a new and faster (2-3h) fibrillation method for hen egg white lysozyme (HEWL) using a deep eutectic solvent based on cholinium chloride and acetic acid. Nanofibers with dimensions of 0.5-1μm in length and 0.02-0.1μm in thickness were obtained. Experimental variables such as temperature and pH were also studied, unveiling their influence in fibrillation time and nanofibers morphology. These results open a new scope for protein fibrillation into nanofibers with applications ranging from medicine to soft matter and nanotechnology.
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21
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Bortolini C, Dong M. Cystine oligomers successfully attached to peptide cysteine-rich fibrils. Front Chem Sci Eng 2016. [DOI: 10.1007/s11705-016-1554-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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22
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Loo Y, Goktas M, Tekinay AB, Guler MO, Hauser CAE, Mitraki A. Self-Assembled Proteins and Peptides as Scaffolds for Tissue Regeneration. Adv Healthc Mater 2015; 4:2557-86. [PMID: 26461979 DOI: 10.1002/adhm.201500402] [Citation(s) in RCA: 87] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Revised: 07/24/2015] [Indexed: 12/15/2022]
Abstract
Self-assembling proteins and peptides are increasingly gaining interest for potential use as scaffolds in tissue engineering applications. They self-organize from basic building blocks under mild conditions into supramolecular structures, mimicking the native extracellular matrix. Their properties can be easily tuned through changes at the sequence level. Moreover, they can be produced in sufficient quantities with chemical synthesis or recombinant technologies to allow them to address homogeneity and standardization issues required for applications. Here. recent advances in self-assembling proteins, peptides, and peptide amphiphiles that form scaffolds suitable for tissue engineering are reviewed. The focus is on a variety of motifs, ranging from minimalistic dipeptides, simplistic ultrashort aliphatic peptides, and peptide amphiphiles to large "recombinamer" proteins. Special emphasis is placed on the rational design of self-assembling motifs and biofunctionalization strategies to influence cell behavior and modulate scaffold stability. Perspectives for combination of these "bottom-up" designer strategies with traditional "top-down" biofabrication techniques for new generations of tissue engineering scaffolds are highlighted.
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Affiliation(s)
- Yihua Loo
- Institute for Bioengineering and Nanotechnology; A* STAR; 31 Biopolis Way The Nanos 138669 Singapore
| | - Melis Goktas
- Institute of Materials Science and Nanotechnology; National Nanotechnology Research Center (UNAM); Bilkent University; Ankara Turkey 06800
| | - Ayse B. Tekinay
- Institute of Materials Science and Nanotechnology; National Nanotechnology Research Center (UNAM); Bilkent University; Ankara Turkey 06800
| | - Mustafa O. Guler
- Institute of Materials Science and Nanotechnology; National Nanotechnology Research Center (UNAM); Bilkent University; Ankara Turkey 06800
| | - Charlotte A. E. Hauser
- Institute for Bioengineering and Nanotechnology; A* STAR; 31 Biopolis Way The Nanos 138669 Singapore
| | - Anna Mitraki
- Department of Materials Science and Technology; University of Crete; Greece 70013
- Institute for Electronic Structure and Lasers (IESL); Foundation for Research and Technology Hellas (FORTH); Vassilika Vouton; Heraklion Crete Greece 70013
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23
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Ma Y, Sato R, Li Z, Numata K. Chemoenzymatic Synthesis of Oligo(L-cysteine) for Use as a Thermostable Bio-Based Material. Macromol Biosci 2015; 16:151-9. [PMID: 26388290 DOI: 10.1002/mabi.201500255] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2015] [Revised: 08/13/2015] [Indexed: 11/06/2022]
Abstract
Oligomerization of thiol-unprotected L-cysteine ethyl ester (Cys-OEt) catalyzed by proteinase K in aqueous solution has been used to synthesize oligo(L-cysteine) (OligoCys) with a well-defined chemical structure and relatively large degree of polymerization (DP) up to 16-17 (average 8.8). By using a high concentration of Cys-OEt, 78.0% free thiol content was achieved. The thermal properties of OligoCys are stable, with no glass transition until 200 °C, and the decomposition temperature could be increased by oxidation. Chemoenzymatically synthesized OligoCys has great potential for use as a thermostable bio-based material with resistance to oxidation.
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Affiliation(s)
- Yinan Ma
- Laboratory of Polymer Physics and Chemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China
| | - Ryota Sato
- Enzyme Research Team, Biomass Engineering Program Cooperation Division, Center for Sustainable Resource Science, RIKEN, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan
| | - Zhibo Li
- Laboratory of Polymer Physics and Chemistry, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China. .,School of Polymer Science and Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| | - Keiji Numata
- Enzyme Research Team, Biomass Engineering Program Cooperation Division, Center for Sustainable Resource Science, RIKEN, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan.
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24
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Takei T, Tsumoto K, Okonogi A, Kimura A, Kojima S, Yazaki K, Takei T, Ueda T, Miura KI. pH responsiveness of fibrous assemblies of repeat-sequence amphipathic α-helix polypeptides. Protein Sci 2015; 24:883-94. [PMID: 25694229 DOI: 10.1002/pro.2665] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Revised: 02/11/2015] [Accepted: 02/12/2015] [Indexed: 12/24/2022]
Abstract
We reported previously that our designed polypeptide α3 (21 residues), which has three repeats of a seven-amino-acid sequence (LETLAKA)3, forms not only an amphipathic α-helix structure but also long fibrous assemblies in aqueous solution. To address the relationship between the electrical states of the polypeptide and its α-helix and fibrous assembly formation, we characterized mutated polypeptides in which charged amino acid residues of α3 were replaced with Ser. We prepared the following polypeptides: 2Sα3 (LSTLAKA)3, in which all Glu residues were replaced with Ser residues; 6Sα3 (LETLASA)3, in which all Lys residues were replaced with Ser; and 2S6Sα3 (LSTLASA)3; in which all Glu and Lys residues were replaced with Ser. In 0.1M KCl, 2Sα3 formed an α-helix under basic conditions and 6Sα3 formed an α-helix under acid conditions. In 1M KCl, they both formed α-helices under a wide pH range. In addition, 2Sα3 and 6Sα3 formed fibrous assemblies under the same buffer conditions in which they formed α-helices. α-Helix and fibrous assembly formation by these polypeptides was reversible in a pH-dependent manner. In contrast, 2S6Sα3 formed an α-helix under basic conditions in 1M KCl. Taken together, these findings reveal that the charge states of the charged amino acid residues and the charge state of the Leu residue located at the terminus play an important role in α-helix formation.
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Affiliation(s)
- Toshiaki Takei
- Department of Medical Genome Sciences, Graduate School of Frontier, The university of Tokyo, Kashiwanoha, Kashiwa, Chiba, Japan; Institute for Biomolecular Science, Gakushuin University, Toshima-ku, Tokyo, Japan
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25
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Povilonienė S, Časaitė V, Bukauskas V, Šetkus A, Staniulis J, Meškys R. Functionalization of α-synuclein fibrils. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2015; 6:124-33. [PMID: 25671157 PMCID: PMC4311755 DOI: 10.3762/bjnano.6.12] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2014] [Accepted: 12/04/2014] [Indexed: 05/05/2023]
Abstract
The propensity of peptides and proteins to form self-assembled structures has very promising applications in the development of novel nanomaterials. Under certain conditions, amyloid protein α-synuclein forms well-ordered structures - fibrils, which have proven to be valuable building blocks for bionanotechnological approaches. Herein we demonstrate the functionalization of fibrils formed by a mutant α-synuclein that contains an additional cysteine residue. The fibrils have been biotinylated via thiol groups and subsequently joined with neutravidin-conjugated gold nanoparticles. Atomic force microscopy and transmission electron microscopy confirmed the expected structure - nanoladders. The ability of fibrils (and of the additional components) to assemble into such complex structures offers new opportunities for fabricating novel hybrid materials or devices.
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Affiliation(s)
- Simona Povilonienė
- Department of Molecular Microbiology and Biotechnology, Institute of Biochemistry, Vilnius University, Mokslininku 12, Vilnius LT-08662, Lithuania
| | - Vida Časaitė
- Department of Molecular Microbiology and Biotechnology, Institute of Biochemistry, Vilnius University, Mokslininku 12, Vilnius LT-08662, Lithuania
| | - Virginijus Bukauskas
- Semiconductor Physics Institute, Center for Physical Sciences and Technology, A. Gostauto 11, Vilnius LT-01108, Lithuania
| | - Arūnas Šetkus
- Semiconductor Physics Institute, Center for Physical Sciences and Technology, A. Gostauto 11, Vilnius LT-01108, Lithuania
| | - Juozas Staniulis
- Institute of Botany of Nature Research Center, Zaliuju Ezeru 49, LT-08406 Vilnius, Lithuania
| | - Rolandas Meškys
- Department of Molecular Microbiology and Biotechnology, Institute of Biochemistry, Vilnius University, Mokslininku 12, Vilnius LT-08662, Lithuania
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26
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Du N, Knecht MR, Swihart MT, Tang Z, Walsh TR, Zhang A. Identifying Affinity Classes of Inorganic Materials Binding Sequences via a Graph-Based Model. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2015; 12:193-204. [PMID: 26357089 DOI: 10.1109/tcbb.2014.2321158] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Rapid advances in bionanotechnology have recently generated growing interest in identifying peptides that bind to inorganic materials and classifying them based on their inorganic material affinities. However, there are some distinct characteristics of inorganic materials binding sequence data that limit the performance of many widely-used classification methods when applied to this problem. In this paper, we propose a novel framework to predict the affinity classes of peptide sequences with respect to an associated inorganic material. We first generate a large set of simulated peptide sequences based on an amino acid transition matrix tailored for the specific inorganic material. Then the probability of test sequences belonging to a specific affinity class is calculated by minimizing an objective function. In addition, the objective function is minimized through iterative propagation of probability estimates among sequences and sequence clusters. Results of computational experiments on two real inorganic material binding sequence data sets show that the proposed framework is highly effective for identifying the affinity classes of inorganic material binding sequences. Moreover, the experiments on the structural classification of proteins (SCOP) data set shows that the proposed framework is general and can be applied to traditional protein sequences.
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27
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Kelly CM, Northey T, Ryan K, Brooks BR, Kholkin AL, Rodriguez BJ, Buchete NV. Conformational dynamics and aggregation behavior of piezoelectric diphenylalanine peptides in an external electric field. Biophys Chem 2014; 196:16-24. [PMID: 25240398 DOI: 10.1016/j.bpc.2014.08.009] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2014] [Revised: 08/27/2014] [Accepted: 08/29/2014] [Indexed: 02/07/2023]
Abstract
Aromatic peptides including diphenylalanine (FF) have the capacity to self-assemble into ordered, biocompatible nanostructures with piezoelectric properties relevant to a variety of biomedical applications. Electric fields are commonly applied to align FF nanotubes, yet little is known about the effect of the electric field on the assembly process. Using all-atom molecular dynamics with explicit water molecules, we examine the response of FF monomers to the application of a constant external electric field over a range of intensities. We probe the aggregation mechanism of FF peptides, and find that the presence of even relatively weak fields can accelerate ordered aggregation, primarily by facilitating the alignment of individual molecular dipole moments. This is modulated by the conformational response of individual FF peptides (e.g., backbone stretching) and by the cooperative alignment of neighboring FF and water molecules. These observations may facilitate future studies on the controlled formation of nanostructured aggregates of piezoelectric peptides and the understanding of their electro-mechanical properties.
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Affiliation(s)
- Catherine M Kelly
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland; Complex and Adaptive Systems Laboratory, University College Dublin, Belfield, Dublin 4, Ireland
| | - Thomas Northey
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland; Complex and Adaptive Systems Laboratory, University College Dublin, Belfield, Dublin 4, Ireland
| | - Kate Ryan
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland; Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
| | - Bernard R Brooks
- Laboratory of Computational Biology, National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, MD 20892, United States
| | - Andrei L Kholkin
- Department of Materials and Ceramic Engineering & CICECO, University of Aveiro, Portugal
| | - Brian J Rodriguez
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland; Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Belfield, Dublin 4, Ireland
| | - Nicolae-Viorel Buchete
- School of Physics, University College Dublin, Belfield, Dublin 4, Ireland; Complex and Adaptive Systems Laboratory, University College Dublin, Belfield, Dublin 4, Ireland.
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28
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Subbalakshmi C, Nagaraj R. Characterization of Silver and Fluorescent Dyes Incorporated in Self-Assembling Peptides and Their Potential Applications in Biology. Chempluschem 2014. [DOI: 10.1002/cplu.201402077] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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29
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Bolisetty S, Boddupalli CS, Handschin S, Chaitanya K, Adamcik J, Saito Y, Manz MG, Mezzenga R. Amyloid Fibrils Enhance Transport of Metal Nanoparticles in Living Cells and Induced Cytotoxicity. Biomacromolecules 2014; 15:2793-9. [DOI: 10.1021/bm500647n] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Sreenath Bolisetty
- ETH Zurich, Laboratory of Food and Soft Materials, Schmelzbergstrasse 9, 8092 Zurich, Switzerland
| | | | - Stephan Handschin
- ETH Zurich, Laboratory of Food and Soft Materials, Schmelzbergstrasse 9, 8092 Zurich, Switzerland
| | - Krishna Chaitanya
- University Hospital Zurich, Zentrum Klinische Forschung, Sternwartstrasse 14, 8091 Zurich, Switzerland
| | - Jozef Adamcik
- ETH Zurich, Laboratory of Food and Soft Materials, Schmelzbergstrasse 9, 8092 Zurich, Switzerland
| | - Yasuyuki Saito
- University Hospital Zurich, Division of Hematology, Schmelzbergstrasse 9, 8091 Zurich, Switzerland
| | - Markus G. Manz
- University Hospital Zurich, Division of Hematology, Schmelzbergstrasse 9, 8091 Zurich, Switzerland
| | - Raffaele Mezzenga
- ETH Zurich, Laboratory of Food and Soft Materials, Schmelzbergstrasse 9, 8092 Zurich, Switzerland
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Bhushan B, Luo D, Schricker SR, Sigmund W, Zauscher S. Hierarchical Self-Assembled Peptide Nano-ensembles. HANDBOOK OF NANOMATERIALS PROPERTIES 2014. [PMCID: PMC7123264 DOI: 10.1007/978-3-642-31107-9_23] [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] [Indexed: 11/29/2022]
Abstract
A variety of peptides can be self-assembled, i.e. self-organized spontaneously, into large and complex hierarchical structures, reproducibly by regulating a range of parameters that can be environment driven, process driven, or peptide driven. These supramolecular peptide aggregates yield different shapes and structures like nanofibers, nanotubes, nanobelts, nanowires, nanotapes, and micelles. These peptide nanostructures represent a category of materials that bridge biotechnology and nanotechnology and are found suitable not only for biomedical applications such as tissue engineering and drug delivery but also in nanoelectronics.
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Affiliation(s)
- Bharat Bhushan
- Nanoprobe Laboratory for Bio- & Nanotechnology and Biomimetics, Ohio State University, Columbus, Ohio USA
| | - Dan Luo
- Department of Biological and Environmental Engineering, Cornell University, Ithaca, New York USA
| | - Scott R. Schricker
- Division of Restorative, Prosthetic and Primary Care, The Ohio State University, College of Dentistry, Columbus, Ohio USA
| | - Wolfgang Sigmund
- Department of Materials Science and Engineering, University of Florida, Gainesville, Florida USA
| | - Stefan Zauscher
- Department of Mechanical Engineering and Materials Science, Duke University, Durham, North Carolina USA
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Tamamis P, Terzaki K, Kassinopoulos M, Mastrogiannis L, Mossou E, Forsyth VT, Mitchell EP, Mitraki A, Archontis G. Self-Assembly of an Aspartate-Rich Sequence from the Adenovirus Fiber Shaft: Insights from Molecular Dynamics Simulations and Experiments. J Phys Chem B 2014; 118:1765-74. [DOI: 10.1021/jp409988n] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Phanourios Tamamis
- Department
of Physics, University of Cyprus, 75 Kallipoleos Street, CY1678 Nicosia, Cyprus
| | - Konstantina Terzaki
- Department
of Materials Science and Technology, University of Crete, P.O. Box 2208, GR-71003 Heraklion, Crete, Greece
- Institute for Electronic Structure and Laser, FORTH, P.O. Box 1527, GR-71110 Heraklion, Greece
| | - Michalis Kassinopoulos
- Department
of Physics, University of Cyprus, 75 Kallipoleos Street, CY1678 Nicosia, Cyprus
| | - Lefteris Mastrogiannis
- Department
of Materials Science and Technology, University of Crete, P.O. Box 2208, GR-71003 Heraklion, Crete, Greece
- Institute for Electronic Structure and Laser, FORTH, P.O. Box 1527, GR-71110 Heraklion, Greece
| | - Estelle Mossou
- EPSAM/ISTM, Keele University, Keele, Staffordshire ST5
5BG, United Kingdom
- Partnership
for Structural Biology, Institut Laue Langevin, 6 rue Jules Horowitz, 38042 Grenoble Cedex 9, France
| | - V. Trevor Forsyth
- EPSAM/ISTM, Keele University, Keele, Staffordshire ST5
5BG, United Kingdom
- Partnership
for Structural Biology, Institut Laue Langevin, 6 rue Jules Horowitz, 38042 Grenoble Cedex 9, France
| | - Edward P. Mitchell
- Partnership
for Structural Biology, Institut Laue Langevin, 6 rue Jules Horowitz, 38042 Grenoble Cedex 9, France
- European Synchrotron Radiation Facility, 6 rue Jules Horowitz, 38043 Grenoble Cedex 9, France
| | - Anna Mitraki
- Department
of Materials Science and Technology, University of Crete, P.O. Box 2208, GR-71003 Heraklion, Crete, Greece
- Institute for Electronic Structure and Laser, FORTH, P.O. Box 1527, GR-71110 Heraklion, Greece
| | - Georgios Archontis
- Department
of Physics, University of Cyprus, 75 Kallipoleos Street, CY1678 Nicosia, Cyprus
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Kim I, Jeong HH, Kim YJ, Lee NE, Huh KM, Lee CS, Kim GH, Lee E. A “Light-up” 1D supramolecular nanoprobe for silver ions based on assembly of pyrene-labeled peptide amphiphiles: cell-imaging and antimicrobial activity. J Mater Chem B 2014; 2:6478-6486. [DOI: 10.1039/c4tb00892h] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The histidine-coated fibrils response to Ag+ with fluorescence enhancement was developed through a rational design based on the aqueous self-assembly of peptides for potential use as cell-imaging and antimicrobial agents.
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Affiliation(s)
- Inhye Kim
- Graduate School of Analytical Science and Technology
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Heon-Ho Jeong
- Department of Chemical Engineering
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Yong-Jae Kim
- Graduate School of Analytical Science and Technology
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Na-Eun Lee
- Graduate School of Analytical Science and Technology
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Kang-moo Huh
- Department of Polymer Engineering
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Chang-Soo Lee
- Department of Chemical Engineering
- Chungnam National University
- Daejeon 305-764, Republic of Korea
| | - Geon Hee Kim
- Graduate School of Analytical Science and Technology
- Chungnam National University
- Daejeon 305-764, Republic of Korea
- Center for Analytical Instrumentation Development
- Korea Basic Science Institute
| | - Eunji Lee
- Graduate School of Analytical Science and Technology
- Chungnam National University
- Daejeon 305-764, Republic of Korea
- Center for Analytical Instrumentation Development
- Korea Basic Science Institute
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Tamamis P, Kasotakis E, Archontis G, Mitraki A. Combination of theoretical and experimental approaches for the design and study of fibril-forming peptides. Methods Mol Biol 2014; 1216:53-70. [PMID: 25213410 DOI: 10.1007/978-1-4939-1486-9_3] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Self-assembling peptides that can form supramolecular structures such as fibrils, ribbons, and nanotubes are of particular interest to modern bionanotechnology and materials science. Their ability to form biocompatible nanostructures under mild conditions through non-covalent interactions offers a big biofabrication advantage. Structural motifs extracted from natural proteins are an important source of inspiration for the rational design of such peptides. Examples include designer self-assembling peptides that correspond to natural coiled-coil motifs, amyloid-forming proteins, and natural fibrous proteins. In this chapter, we focus on the exploitation of structural information from beta-structured natural fibers. We review a case study of short peptides that correspond to sequences from the adenovirus fiber shaft. We describe both theoretical methods for the study of their self-assembly potential and basic experimental protocols for the assessment of fibril-forming assembly.
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Affiliation(s)
- Phanourios Tamamis
- Department of Physics, University of Cyprus, 20537, CY1678, Nicosia, Cyprus
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Terzaki K, Kalloudi E, Mossou E, Mitchell EP, Forsyth VT, Rosseeva E, Simon P, Vamvakaki M, Chatzinikolaidou M, Mitraki A, Farsari M. Mineralized self-assembled peptides on 3D laser-made scaffolds: a new route toward ‘scaffold on scaffold’ hard tissue engineering. Biofabrication 2013; 5:045002. [DOI: 10.1088/1758-5082/5/4/045002] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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Lee JH, Hwang HJ, Bhak G, Jang Y, Paik SR, Char K. In Situ Fibril Formation of κ-Casein by External Stimuli within Multilayer Thin Films. ACS Macro Lett 2013; 2:688-693. [PMID: 35606953 DOI: 10.1021/mz400276f] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We have developed the in situ fibrillation of κ-casein, employed as amyloid precursor, within multilayer films consisting of κ-casein and poly(acrylic acid) (PAA) prepared by the layer-by-layer (LbL) deposition. The fibrillation of κ-casein within the multilayered films is strongly dependent on the extent of intermolecular interactions between κ-casein and PAA. When films constructed initially at pH 3 were heat treated at the same pH, κ-casein did not transform into fibrils. However, when the films were subjected to heat treatment at pH 5, κ-casein was transformed into fibrils within multilayer films due to weakened intermolecular interactions between κ-casein and PAA. We also noted that the multilayer film was swollen at pH 5 by the charge imbalance within the film, which we believe gives enough mobility for κ-caseins to form fibrils with adjacent κ-caseins within the multilayer. The fibrils were found to be uniformly distributed across the entire film thickness, and the aspect ratio as well as the number density of fibrils increased as a function of incubation time. The present study reveals a strategy to realize in situ nanocomposites within LbL multilayer films simply by triggering the formation of protein fibrils by controlling the intermolecular interactions between amyloid precursors and polyelectrolytes (PEs).
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Affiliation(s)
- Ji-Hye Lee
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
| | - Hyun Joo Hwang
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
| | - Ghibom Bhak
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
| | - Yeongseon Jang
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
| | - Seung R. Paik
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
| | - Kookheon Char
- The National Creative Research Initiative Center for Intelligent Hybrids, The WCU Program of Chemical Convergence for Energy & Environment, and ‡School of Chemical & Biological Engineering, Seoul National University, 1 Gwanak-ro, Gwanak-gu, Seoul 151-744, Korea
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Kasotakis E, Mitraki A. Designed self-assembling peptides as templates for the synthesis of metal nanoparticles. Methods Mol Biol 2013; 996:195-202. [PMID: 23504425 DOI: 10.1007/978-1-62703-354-1_11] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Self-assembling peptides are water soluble and form biocompatible nanostructures under mild conditions through non-covalent interactions. They form supramolecular structures such as ribbons, nanotubes, and fibrils. Of particular interest is the possibility of using these peptide fibrils as templates for the growth of inorganic materials, such as metallic nanoparticles. The ability to reliably produce metal-coated fibrils with robust binding of metal nanoparticles is a vital first step towards the exploitation of these fibrils as conducting nanowires with applications in nano-circuitry. One promising strategy consists of the rational introduction of metal-binding amino acids (such as cysteine) at the level of the peptide building block. Upon assembly of the building blocks into fibrils, cysteine residues that remain accessible at the outside of the fibril core could serve as nucleation sites for metals. We will review in this chapter a case study of rationally designed cysteine-containing peptides and basic protocols for their metallization with silver, gold, and platinum nanoparticles.
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Affiliation(s)
- Emmanouil Kasotakis
- Department of Materials Science and Technology, and Institute for Electronic Structure and Laser, Foundation for Research and Technology-Hellas, (IESL-FORTH), University of Crete, Vassilika Vouton, Heraklion, Crete, Greece
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Abstract
The current landscape of nanotechnology is such that attention is being given to those materials that self-assemble, as a mode of "bottom-up" fabrication of nanomaterials. The field of nanotubes and nanowires has long been dominated by carbon nanotubes and inorganic materials. However in more recent years, the search for materials with desirable properties, such as self-assembly, has unsurprisingly led to the biological world, where functional nanoscale biomolecular assemblies are in abundance.Potential has been seen for a number of these assemblies to be translated into functional nanomaterials. The early days of bionanotechnology saw a lot of attention given to DNA molecules as nanowires, and proteins and peptides have now also been seen to have promise in this area. With most of the biological structures investigated having low conductivity in the native state, the use of biomolecules as templates for the formation of metallic and semiconductor nanowires has been the direction taken.This chapter will discuss the use of various biomolecules and biomolecular assemblies as nanowires, with a particular emphasis on proteins, beginning with an introduction into the field of nanotubes and nanowires. Many applications are now recognized for nanowires, but for brevity, this chapter will focus solely on their use as biosensors, using glucose sensors as a case study.
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Affiliation(s)
- Laura J Domigan
- Biomolecular Interaction Centre and School of Biological Sciences, MacDiarmid Institute for Advanced Materials and Nanotechnology, University of Canterbury, Christchurch, New Zealand
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Tao K, Wang J, Li Y, Xia D, Shan H, Xu H, Lu JR. Short peptide-directed synthesis of one-dimensional platinum nanostructures with controllable morphologies. Sci Rep 2013; 3:2565. [PMID: 23995118 PMCID: PMC3759059 DOI: 10.1038/srep02565] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2013] [Accepted: 08/15/2013] [Indexed: 02/02/2023] Open
Abstract
Although one dimensional (1D) Pt nanostructures with well-defined sizes and shapes have fascinating physiochemical properties, their preparation remains a great challenge. Here we report an easy and novel synthesis of 1D Pt nanostructures with controllable morphologies, through the combination of designer self-assembling I3K and phage-displayed P7A peptides. The nanofibrils formed via I3K self-assembly acted as template. Pt precursors ((PtCl4)(2-) and (PtCl6)(2-)) were immobilized by electrostatic interaction on the positively charged template surface and subsequent reduction led to the formation of 1D Pt nanostructures. P7A was applied to tune the continuity of the Pt nanostructures. Here, the electrostatic repulsion between the deprotonated C-terminal carboxyl groups of P7A molecules was demonstrated to play a key role. We finally showed that continuous and ordered 1D Pt morphology had a significantly improved electrochemical performance for the hydrogen and methanol electro-oxidation in comparison with either 1D discrete Pt nanoparticle assemblies or isolated Pt nanoparticles.
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Affiliation(s)
- Kai Tao
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Jiqian Wang
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Yanpeng Li
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Daohong Xia
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Honghong Shan
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Hai Xu
- State Key Laboratory of Heavy Oil Processing and Center for Bioengineering and Biotechnology, China University of Petroleum (East China), 66 Changjiang West Road, Qingdao 266580, China
| | - Jian R. Lu
- Biological Physics Group, School of Physics and Astronomy, the University of Manchester, Manchester M13 9PL, United Kingdom
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Kasotakis E, Mitraki A. Silica biotemplating by self-assembling peptides via serine residues activated by the peptide amino terminal group. Biopolymers 2012. [DOI: 10.1002/bip.22091] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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41
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On the use of size exclusion chromatography for the resolution of mixed amyloid aggregate distributions: I. Equilibrium partition models. Anal Biochem 2012; 426:69-85. [DOI: 10.1016/j.ab.2012.04.001] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2012] [Revised: 03/30/2012] [Accepted: 04/01/2012] [Indexed: 11/24/2022]
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Cetinel S, Dincer S, Cebeci A, Oren EE, Whitaker JD, Schwartz DT, Karaguler NG, Sarikaya M, Tamerler C. Peptides to bridge biological-platinum materials interface. BIOINSPIRED BIOMIMETIC AND NANOBIOMATERIALS 2012. [DOI: 10.1680/bbn.12.00008] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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43
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Genetic engineering in biomimetic composites. Trends Biotechnol 2012; 30:191-7. [DOI: 10.1016/j.tibtech.2012.01.001] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2011] [Revised: 01/02/2012] [Accepted: 01/03/2012] [Indexed: 11/22/2022]
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44
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Short self-assembling peptides as building blocks for modern nanodevices. Trends Biotechnol 2012; 30:155-65. [DOI: 10.1016/j.tibtech.2011.11.001] [Citation(s) in RCA: 190] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2011] [Revised: 11/01/2011] [Accepted: 11/01/2011] [Indexed: 01/01/2023]
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Mammadov R, Tekinay AB, Dana A, Guler MO. Microscopic characterization of peptide nanostructures. Micron 2012; 43:69-84. [DOI: 10.1016/j.micron.2011.07.006] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2011] [Revised: 07/07/2011] [Accepted: 07/08/2011] [Indexed: 10/18/2022]
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Hall D. Semi-automated methods for simulation and measurement of amyloid fiber distributions obtained from transmission electron microscopy experiments. Anal Biochem 2012; 421:262-77. [DOI: 10.1016/j.ab.2011.10.012] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2011] [Revised: 10/04/2011] [Accepted: 10/04/2011] [Indexed: 11/27/2022]
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Zhou X, Zheng L, Li R, Li B, Pillai S, Xu P, Zhang Y. Biotemplated fabrication of size controlled palladium nanoparticle chains. ACTA ACUST UNITED AC 2012. [DOI: 10.1039/c2jm16411f] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Wang Y, Cao L, Guan S, Shi G, Luo Q, Miao L, Thistlethwaite I, Huang Z, Xu J, Liu J. Silver mineralization on self-assembled peptide nanofibers for long term antimicrobial effect. ACTA ACUST UNITED AC 2012. [DOI: 10.1039/c1jm14090f] [Citation(s) in RCA: 58] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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Carlsen A, Higashiya S, Topilina NI, Dunn KA, Geer RE, Eisenbraun ET, Kaloyeros AE, Welch JT. Metallization of a Genetically Engineered Polypeptide. Macromol Biosci 2011; 12:269-73. [DOI: 10.1002/mabi.201100245] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2011] [Indexed: 11/10/2022]
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