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Arbaciauskaite M, Pirhanov A, Ammermann E, Lei Y, Cho YK. Yeast biopanning against site-specific phosphorylations in tau. Protein Eng Des Sel 2023; 36:gzad005. [PMID: 37294629 PMCID: PMC10281017 DOI: 10.1093/protein/gzad005] [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] [Received: 01/30/2023] [Revised: 05/11/2023] [Accepted: 06/01/2023] [Indexed: 06/11/2023] Open
Abstract
The detection of site-specific phosphorylation in the microtubule-associated protein tau is emerging as a means to diagnose and monitor the progression of Alzheimer's Disease and other neurodegenerative diseases. However, there is a lack of phospho-specific monoclonal antibodies and limited validation of their binding specificity. Here, we report a novel approach using yeast biopanning against synthetic peptides containing site-specific phosphorylations. Using yeast cells displaying a previously validated phospho-tau (p-tau) single-chain variable region fragment (scFv), we show selective yeast cell binding based on single amino acid phosphorylation on the antigen. We identify conditions that allow phospho-specific biopanning using scFvs with a wide range of affinities (KD = 0.2 to 60 nM). Finally, we demonstrate the capability of screening large libraries by performing biopanning in 6-well plates. These results show that biopanning can effectively select yeast cells based on phospho-site specific antibody binding, opening doors for the facile identification of high-quality monoclonal antibodies.
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Affiliation(s)
- Monika Arbaciauskaite
- Department of Chemical and Biomolecular Engineering, University of Connecticut, Storrs, CT 06269, USA
| | - Azady Pirhanov
- Department of Biomedical Engineering, University of Connecticut, Storrs, CT 06269, USA
| | - Erik Ammermann
- Department of Chemical and Biomolecular Engineering, University of Connecticut, Storrs, CT 06269, USA
| | - Yu Lei
- Department of Chemical and Biomolecular Engineering, University of Connecticut, Storrs, CT 06269, USA
- Department of Biomedical Engineering, University of Connecticut, Storrs, CT 06269, USA
| | - Yong Ku Cho
- Department of Chemical and Biomolecular Engineering, University of Connecticut, Storrs, CT 06269, USA
- Department of Biomedical Engineering, University of Connecticut, Storrs, CT 06269, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA
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2
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Nakazawa H, Umetsu M, Hirose T, Hattori T, Kumagai I. Identification of Indium Tin Oxide Nanoparticle-Binding Peptides via Phage Display and Biopanning Under Various Buffer Conditions. Protein Pept Lett 2019; 27:557-566. [PMID: 31729292 DOI: 10.2174/0929866526666191113151934] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2019] [Revised: 09/04/2019] [Accepted: 10/08/2019] [Indexed: 11/22/2022]
Abstract
BACKGROUND By recent advances in phage-display approaches, many oligopeptides exhibiting binding affinities for metal oxides have been identified. Indium tin oxide is one of the most widely used conductive oxides, because it has a large band gap of 3.7-4.0 eV. In recent years, there have been reports about several ITO-based biosensors. Development of an ITO binding interface for the clustering of sensor proteins without complex bioconjugates is required. OBJECTIVE In this article, we aimed to identify peptides that bind to indium tin oxide nanoparticles via different binding mechanisms. METHODS Indium tin oxide nanoparticles binding peptide ware selected using phage display and biopanning against indium tin oxide, under five different buffer conditions and these peptides characterized about binding affinity and specificity. RESULTS Three types of indium tin oxide nanoparticles-binding peptides were selected from 10 types of peptide candidates identified in phage display and biopanning. These included ITOBP8, which had an acidic isoelectric point, and was identified when a buffer containing guanidine was used, and ITOBP6 and ITOBP7, which contained a His-His-Lys sequence at their N-termini, and were identified when a highly concentrated phosphate elution buffer with a low ionic strength was used. Among these peptides, ITOBP6 exhibited the strongest indium tin oxide nanoparticlesbinding affinity (dissociation constant, 585 nmol/L; amount of protein bound at saturation, 17.5 nmol/m 2 - particles). CONCLUSION These results indicate that peptides with specific binding properties can be obtained through careful selection of the buffer conditions in which the biopanning procedure is performed.
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Affiliation(s)
- Hikaru Nakazawa
- Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai, Japan
| | - Mitsuo Umetsu
- Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai, Japan
| | - Tatsuya Hirose
- Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai, Japan
| | - Takamitsu Hattori
- Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai, Japan
| | - Izumi Kumagai
- Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai, Japan
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3
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Abstract
Enzyme immobilization to solid matrices often presents a challenge due to protein conformation sensitivity, desired enzyme purity, and requirements for the particular carrier properties and immobilization technique. Surface display of enzymes at the cell walls of microorganisms presents an alternative that has been the focus of many research groups worldwide in different fields, such as biotechnology, energetics, pharmacology, medicine, and food technology. The range of systems by which a heterologous protein can be displayed at the cell surface allows the appropriate one to be found for almost every case. However, the efficiency of display systems is still quite low. The most frequently used yeast for the surface display of proteins is Saccharomyces cerevisiae. However, apart from its many advantages, Saccharomyces cerevisiae has some disadvantages, such as low robustness in industrial applications, hyperglycosylation of some heterologous proteins, and relatively low efficiency of surface display. Thus, in the recent years the display systems for alternative yeast hosts with better performances including Pichia pastoris, Hansenula polymorpha, Blastobotrys adeninivorans, Yarrowia lipolytica, Kluyveromyces marxianus, and others have been developed. Different strategies of surface display aimed to increase the amount of displayed protein, including new anchoring systems and new yeast hosts are reviewed in this paper.
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Wang H, Liu R, Liu Y, Meng Y, Liu Y, Zhai H, Di D. Investigation on Adsorption Mechanism of Peptides with Surface-Modified Super-Macroporous Resins. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:4471-4480. [PMID: 30793909 DOI: 10.1021/acs.langmuir.8b03997] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Macroporous adsorption resins (MARs) have experienced rapid growth because of their unique properties and applications. Recently, it was discovered that a series of MARs with super-macroporous and diverse functional groups were synthesized to adsorb and enrich peptides; however, the detailed change mechanism of pore diameter and element composition and peptide adsorption mechanism have not yet been established. In this study, MARs and modified MARs were prepared by the surfactant reverse micelles swelling method and Friedel-Crafts reaction, and the pore diameter and element changes of these super-macroporous resin particles were accurately determined to elucidate formation processes of modified MARs. The adsorption mechanism of four peptides on different MARs was investigated. Sieving effect, electrostatic, hydrophobic, and hydrogen bonds interactions were found to play a major role in the adsorption process of peptides. Compared to that of the traditional resins, the adsorption capacity of super-macroporous MARs for peptides enormously increased. Electrostatic interactions have been explained perfectly by determining the isoelectric point. The molecular docking technology proved that the hydrogen-bonding receptor in MARs was a crucial factor for the adsorption capacity by autodock 4.26 and gromacs 5.14. These findings will enable selective adsorption of peptides by MARs, which also provides a theoretical basis for the construction of specific resin to adsorb different peptides.
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Affiliation(s)
- Hao Wang
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources, Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics , Chinese Academy of Sciences , Lanzhou 730000 , P. R. China
- University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Ruirui Liu
- College of Chemistry & Chemical Engineering , Lanzhou University , Lanzhou 730000 , P. R. China
| | - Yongfeng Liu
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources, Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics , Chinese Academy of Sciences , Lanzhou 730000 , P. R. China
- Qingdao Center of Resource Chemistry & New Materials , Qingdao 266071 , P. R. China
| | - Yajie Meng
- College of Chemistry & Chemical Engineering , Lanzhou University , Lanzhou 730000 , P. R. China
| | - Yi Liu
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources, Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics , Chinese Academy of Sciences , Lanzhou 730000 , P. R. China
- Qingdao Center of Resource Chemistry & New Materials , Qingdao 266071 , P. R. China
| | - Honglin Zhai
- College of Chemistry & Chemical Engineering , Lanzhou University , Lanzhou 730000 , P. R. China
| | - Duolong Di
- CAS Key Laboratory of Chemistry of Northwestern Plant Resources, Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics , Chinese Academy of Sciences , Lanzhou 730000 , P. R. China
- Qingdao Center of Resource Chemistry & New Materials , Qingdao 266071 , P. R. China
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5
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Faccio G. From Protein Features to Sensing Surfaces. SENSORS (BASEL, SWITZERLAND) 2018; 18:E1204. [PMID: 29662030 PMCID: PMC5948494 DOI: 10.3390/s18041204] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Revised: 04/08/2018] [Accepted: 04/12/2018] [Indexed: 12/25/2022]
Abstract
Proteins play a major role in biosensors in which they provide catalytic activity and specificity in molecular recognition. However, the immobilization process is far from straightforward as it often affects the protein functionality. Extensive interaction of the protein with the surface or significant surface crowding can lead to changes in the mobility and conformation of the protein structure. This review will provide insights as to how an analysis of the physico-chemical features of the protein surface before the immobilization process can help to identify the optimal immobilization approach. Such an analysis can help to preserve the functionality of the protein when on a biosensor surface.
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Affiliation(s)
- Greta Faccio
- Independent Scientist, St. Gallen 9000, Switzerland.
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6
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Seker UOS, Chen AY, Citorik RJ, Lu TK. Synthetic Biogenesis of Bacterial Amyloid Nanomaterials with Tunable Inorganic-Organic Interfaces and Electrical Conductivity. ACS Synth Biol 2017; 6:266-275. [PMID: 27794590 PMCID: PMC6422533 DOI: 10.1021/acssynbio.6b00166] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Amyloids are highly ordered, hierarchal protein nanoassemblies. Functional amyloids in bacterial biofilms, such as Escherichia coli curli fibers, are formed by the polymerization of monomeric proteins secreted into the extracellular space. Curli is synthesized by living cells, is primarily composed of the major curlin subunit CsgA, and forms biological nanofibers with high aspect ratios. Here, we explore the application of curli fibers for nanotechnology by engineering curli to mediate tunable biological interfaces with inorganic materials and to controllably form gold nanoparticles and gold nanowires. Specifically, we used cell-synthesized curli fibers as templates for nucleating and growing gold nanoparticles and showed that nanoparticle size could be modulated as a function of curli fiber gold-binding affinity. Furthermore, we demonstrated that gold nanoparticles can be preseeded onto curli fibers and followed by gold enhancement to form nanowires. Using these two approaches, we created artificial cellular systems that integrate inorganic-organic materials to achieve tunable electrical conductivity. We envision that cell-synthesized amyloid nanofibers will be useful for interfacing abiotic and biotic systems to create living functional materials..
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Affiliation(s)
- Urartu Ozgur Safak Seker
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, United States
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- UNAM-Institute of Materials Science and Nanotechnology, Bilkent University, 06800 Ankara, Turkey
| | - Allen Y. Chen
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, United States
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Robert J. Citorik
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, United States
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- MIT Microbiology Program, 77 Massachusetts Avenue, Cambridge Massachusetts 02139, United States
| | - Timothy K. Lu
- Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, United States
- Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- MIT Microbiology Program, 77 Massachusetts Avenue, Cambridge Massachusetts 02139, United States
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7
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Peptide engineered microcantilevers for selective chemical force microscopy and monitoring of nanoparticle capture. Biointerphases 2016; 11:04B312. [PMID: 28010112 DOI: 10.1116/1.4972417] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Engineered peptides capable of binding to silica have been used to provide contrast in chemical force microscopy and tested for their capacity to selectively capture silica nanoparticles (NPs). Gold coated atomic force microscopy (AFM) microcantilevers with integrated tips and colloidal probes were functionalized with engineered peptides through a thiol group of a terminal cysteine which was linked via a glycine trimer to a 12-mer binding sequence. The functionalized probes demonstrated a significantly increased binding force on silicon oxide areas of a gold-patterned silicon wafer, whereas plain gold probes, and those functionalized with a random permutation of the silica binding peptide motif or an all-histidine sequence displayed similar adhesion forces to gold and silicon oxide. As the functionalized probes also allowed contact mode imaging subsequently to the adhesion mapping, also the associated friction contrast was measured and found to be similar to the adhesion contrast. Furthermore, the adsorption of silica NPs onto planar gold surfaces functionalized in the same manner was observed to be selective. Notably, the surface coverage with silica NPs was found to decrease with increasing pH, implying the importance of electrostatic interactions between the peptide and the NPs. Finally, the adsorption of silica NPs was monitored via the decrease in fundamental resonance frequency of an AFM microcantilever functionalized with silica binding peptides.
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8
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Cruz-Teran CA, Carlin KB, Efimenko K, Genzer J, Rao BM. Targeted Mutagenesis and Combinatorial Library Screening Enables Control of Protein Orientation on Surfaces and Increased Activity of Adsorbed Proteins. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2016; 32:8660-8667. [PMID: 27490089 DOI: 10.1021/acs.langmuir.6b01446] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
While nonspecific adsorption is widely used for immobilizing proteins on solid surfaces, the random nature of protein adsorption may reduce the activity of immobilized proteins due to occlusion of the active site. We hypothesized that the orientation a protein assumes on a given surface can be controlled by systematically introducing mutations into a region distant from its active site, thereby retaining activity of the immobilized protein. To test this hypothesis, we generated a combinatorial protein library by randomizing six targeted residues in a binding protein derived from highly stable, nonimmunoglobulin Sso7d scaffold; mutations were targeted in a region that is distant from the binding site. This library was screened to isolate binders that retain binding to its cognate target (chicken immunoglobulin Y, cIgY) as well as exhibit adsorption on unmodified silica at pH 7.4 and high ionic strength conditions. A single mutant, Sso7d-2B5, was selected for further characterization. Sso7d-2B5 retained binding to cIgY with an apparent dissociation constant similar to that of the parent protein; both mutant and parent proteins saturated the surface of silica with similar densities. Strikingly, however, silica beads coated with Sso7d-2B5 could achieve up to 7-fold higher capture of cIgY than beads coated with the parent protein. These results strongly suggest that mutations introduced in Sso7d-2B5 alter its orientation relative to the parent protein, when adsorbed on silica surfaces. Our approach also provides a generalizable strategy for introducing mutations in proteins so as to improve their activity upon immobilization, and has direct relevance to development of protein-based biosensors and biocatalysts.
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Affiliation(s)
- Carlos A Cruz-Teran
- Department of Chemical and Biomolecular Engineering, North Carolina State University , Raleigh, North Carolina 27695, United States
| | - Kevin B Carlin
- Department of Chemical and Biomolecular Engineering, North Carolina State University , Raleigh, North Carolina 27695, United States
| | - Kirill Efimenko
- Department of Chemical and Biomolecular Engineering, North Carolina State University , Raleigh, North Carolina 27695, United States
| | - Jan Genzer
- Department of Chemical and Biomolecular Engineering, North Carolina State University , Raleigh, North Carolina 27695, United States
| | - Balaji M Rao
- Department of Chemical and Biomolecular Engineering, North Carolina State University , Raleigh, North Carolina 27695, United States
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9
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Abdelhamid MAA, Ikeda T, Motomura K, Tanaka T, Ishida T, Hirota R, Kuroda A. Application of volcanic ash particles for protein affinity purification with a minimized silica-binding tag. J Biosci Bioeng 2016; 122:633-638. [PMID: 27212265 DOI: 10.1016/j.jbiosc.2016.04.011] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2016] [Revised: 04/27/2016] [Accepted: 04/28/2016] [Indexed: 10/21/2022]
Abstract
We recently reported that the spore coat protein, CotB1 (171 amino acids), from Bacillus cereus mediates silica biomineralization and that the polycationic C-terminal sequence of CotB1 (14 amino acids), designated CotB1p, serves as a silica-binding tag when fused to other proteins. Here, we reduced the length of this silica-binding tag to only seven amino acids (SB7 tag: RQSSRGR) while retaining its affinity for silica. Alanine scanning mutagenesis indicated that the three arginine residues in the SB7 tag play important roles in binding to a silica surface. Monomeric l-arginine, at concentrations of 0.3-0.5 M, was found to serve as a competitive eluent to release bound SB7-tagged proteins from silica surfaces. To develop a low-cost, silica-based affinity purification procedure, we used natural volcanic ash particles with a silica content of ∼70%, rather than pure synthetic silica particles, as an adsorbent for SB7-tagged proteins. Using green fluorescent protein, mCherry, and mKate2 as model proteins, our purification method achieved 75-90% recovery with ∼90% purity. These values are comparable to or even higher than that of the commonly used His-tag affinity purification. In addition to low cost, another advantage of our method is the use of l-arginine as the eluent because its protein-stabilizing effect would help minimize alteration of the intrinsic properties of the purified proteins. Our approach paves the way for the use of naturally occurring materials as adsorbents for simple, low-cost affinity purification.
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Affiliation(s)
- Mohamed A A Abdelhamid
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan; Department of Botany and Microbiology, Faculty of Science, Minia University, Minia 61519, Egypt
| | - Takeshi Ikeda
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan.
| | - Kei Motomura
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan
| | - Tatsuya Tanaka
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan
| | - Takenori Ishida
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan
| | - Ryuichi Hirota
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan
| | - Akio Kuroda
- Department of Molecular Biotechnology, Graduate School of Advanced Sciences of Matter, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8530, Japan
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10
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In Vitro Selection of Cancer Cell-Specific Molecular Recognition Elements from Amino Acid Libraries. J Immunol Res 2015; 2015:186586. [PMID: 26436100 PMCID: PMC4576012 DOI: 10.1155/2015/186586] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2015] [Revised: 08/17/2015] [Accepted: 08/23/2015] [Indexed: 11/27/2022] Open
Abstract
Differential cell systematic evolution of ligands by exponential enrichment (SELEX) is an in vitro selection method for obtaining molecular recognition elements (MREs) that specifically bind to individual cell types with high affinity. MREs are selected from initial large libraries of different nucleic or amino acids. This review outlines the construction of peptide and antibody fragment libraries as well as their different host types. Common methods of selection are also reviewed. Additionally, examples of cancer cell MREs are discussed, as well as their potential applications.
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11
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Zhang S, Karaca BT, VanOosten SK, Yuca E, Mahalingam S, Edirisinghe M, Tamerler C. Coupling Infusion and Gyration for the Nanoscale Assembly of Functional Polymer Nanofibers Integrated with Genetically Engineered Proteins. Macromol Rapid Commun 2015; 36:1322-8. [PMID: 26033345 PMCID: PMC5215549 DOI: 10.1002/marc.201500174] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2015] [Revised: 04/22/2015] [Indexed: 12/26/2022]
Abstract
Nanofibers featuring functional nanoassemblies show great promise as enabling constituents for a diverse range of applications in areas such as tissue engineering, sensing, optoelectronics, and nanophotonics due to their controlled organization and architecture. An infusion gyration method is reported that enables the production of nanofibers with inherent biological functions by simply adjusting the flow rate of a polymer solution. Sufficient polymer chain entanglement is obtained at Berry number > 1.6 to make bead‐free fibers integrated with gold nanoparticles and proteins, in the diameter range of 117–216 nm. Integration of gold nanoparticles into the nanofiber assembly is followed using a gold‐binding peptide tag genetically conjugated to red fluorescence protein (DsRed). Fluorescence microscopy analysis corroborated with Fourier transform infrared spectroscopy (FTIR) data confirms the integration of the engineered red fluorescence protein with the nanofibers. The gold nanoparticle decorated nanofibers having red fluorescence protein as an integral part keep their biological functionality including copper‐induced fluorescence quenching of the DsRed protein due to its selective Cu+2 binding. Thus, coupling the infusion gyration method in this way offers a simple nanoscale assembly approach to integrate a diverse repertoire of protein functionalities into nanofibers to generate biohybrid materials for imaging, sensing, and biomaterial applications.
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Affiliation(s)
- Siqi Zhang
- Department of Mechanical Engineering, University College London, Torrington Place, London, WC1E 7JE, UK
| | - Banu Taktak Karaca
- Bioengineering Research Center (BERC), Department of Mechanical Engineering, University of Kansas (KU), Lawrence, KS, 66045, USA
| | - Sarah Kay VanOosten
- Bioengineering Research Center (BERC), Department of Mechanical Engineering, University of Kansas (KU), Lawrence, KS, 66045, USA
| | - Esra Yuca
- Bioengineering Research Center (BERC), Department of Mechanical Engineering, University of Kansas (KU), Lawrence, KS, 66045, USA
| | | | - Mohan Edirisinghe
- Department of Mechanical Engineering, University College London, Torrington Place, London, WC1E 7JE, UK
| | - Candan Tamerler
- Bioengineering Research Center (BERC), Department of Mechanical Engineering, University of Kansas (KU), Lawrence, KS, 66045, USA
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12
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Yucesoy DT, Karaca BT, Cetinel S, Caliskan HB, Adali E, Gul-Karaguler N, Tamerler C. Direct bioelectrocatalysis at the interfaces by genetically engineered dehydrogenase. BIOINSPIRED BIOMIMETIC AND NANOBIOMATERIALS 2015. [DOI: 10.1680/bbn.14.00022] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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13
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Gabryelczyk B, Szilvay GR, Linder MB. The structural basis for function in diamond-like carbon binding peptides. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:8798-8802. [PMID: 25007096 DOI: 10.1021/la502396p] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
The molecular structural basis for the function of specific peptides that bind to diamond-like carbon (DLC) surfaces was investigated. For this, a competition assay that provided a robust way of comparing relative affinities of peptide variants was set up. Point mutations of specific residues resulted in significant effects, but it was shown that the chemical composition of the peptide was not sufficient to explain peptide affinity. More significantly, rearrangements in the sequence indicated that the binding is a complex recognition event that is dependent on the overall structure of the peptide. The work demonstrates the unique properties of peptides for creating functionality at interfaces via noncovalent binding for potential applications in, for example, nanomaterials, biomedical materials, and sensors.
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Affiliation(s)
- Bartosz Gabryelczyk
- VTT Technical Research Centre of Finland , P.O. Box 1000, 02044 VTT, Finland
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14
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Thermodynamics of Engineered Gold Binding Peptides: Establishing the Structure–Activity Relationships. Biomacromolecules 2014; 15:2369-77. [DOI: 10.1021/bm4019006] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Micksch T, Liebelt N, Scharnweber D, Schwenzer B. Investigation of the peptide adsorption on ZrO2, TiZr, and TiO2 surfaces as a method for surface modification. ACS APPLIED MATERIALS & INTERFACES 2014; 6:7408-7416. [PMID: 24735333 DOI: 10.1021/am500823m] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Specific surface binding peptides offer a versatile and interesting possibility for the development of biocompatible implant materials. Therefore, eight peptide sequences were examined in regard to their adsorption on zirconium oxide (ZrO2), titanium zircon (TiZr), and titanium (c.p. Ti). Surface plasmon resonance (SPR) measurements were performed on Ti coated sensor chips to determine the kinetics of the interactions and kinetic rate constants (kon, koff, KD, and Rmax). We also investigated the interactions which are present in our system. Electrostatic and coordinative interactions were found to play a major role in the adsorption process. Four of the eight examined peptide sequences showed a significant adsorption on all investigated materials. Moreover, the two peptides with the highest adsorption could be quantified (up to 370 pmol/cm(2)). For potential biomaterials applications, we proved the stability of the adsorption of selected peptides in cell culture media, under competition with proteins and at body temperature (37 °C), and their biocompatibility via their effects on the adhesion and proliferation of human mesenchymal stem cells (hMSCs). The results qualify the peptides as anchor peptides for the biofunctionalization of implants.
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Affiliation(s)
- Tina Micksch
- Lehrstuhl für Allgemeine Biochemie, Technische Universität Dresden , Bergstr. 66, Dresden, Saxony 01069, Germany
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16
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Seker UOS, Sharma VK, Akhavan S, Demir HV. Engineered peptides for nanohybrid assemblies. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:2137-2143. [PMID: 24494655 DOI: 10.1021/la500160p] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Inspired by biological material synthesis, synthetic biomineralization peptides have been screened through a laboratory evolution using biocombinatorial techniques. In this study, using the fine examples in nature, silica binding peptides and gold binding peptides were fused together to form a hybrid peptide. We designed fusion peptides with different gold binding and silica binding parts. First, we have tested the binding capability of the fusion peptides using quartz crystal microbalance on gold surface and silica surface. Second, S1G1 hybrid peptide enabled assembly of gold nanoparticles on a silica surface was achieved. Finally, nanomaterial synthesis ability of the S1G1 peptide was presented by the formation of a silica film on a gold surface. In this study, we are presenting a hybrid peptide tool for nanohybrid assembly as a promising route for nanotechnology applications.
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Affiliation(s)
- Urartu Ozgur Safak Seker
- Luminous! Center of Excellence for Semiconductor Lighting and Displays, School of Electrical and Electronic Engineering, School of Physical and Mathematical Sciences, Nanyang Technological University , Nanyang Avenue, Singapore 639798, Singapore
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17
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Hassert R, Beck-Sickinger AG. Tuning peptide affinity for biofunctionalized surfaces. Eur J Pharm Biopharm 2013; 85:69-77. [DOI: 10.1016/j.ejpb.2013.02.006] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2012] [Revised: 02/05/2013] [Accepted: 02/12/2013] [Indexed: 01/16/2023]
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18
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Meder F, Hintz H, Koehler Y, Schmidt MM, Treccani L, Dringen R, Rezwan K. Adsorption and Orientation of the Physiological Extracellular Peptide Glutathione Disulfide on Surface Functionalized Colloidal Alumina Particles. J Am Chem Soc 2013; 135:6307-16. [DOI: 10.1021/ja401590c] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Fabian Meder
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Henrik Hintz
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Yvonne Koehler
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Maike M. Schmidt
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Laura Treccani
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Ralf Dringen
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
| | - Kurosch Rezwan
- Faculty
of Production Engineering, Advanced Ceramics, ‡Center for Biomolecular Interactions
Bremen, and §Center for Environmental Research and Sustainable Technology, University of Bremen, Bremen, Germany
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19
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Choi N, Tan L, Jang JR, Um YM, Yoo PJ, Choe WS. The interplay of peptide sequence and local structure in TiO2 biomineralization. J Inorg Biochem 2012; 115:20-7. [DOI: 10.1016/j.jinorgbio.2012.05.011] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2012] [Revised: 05/03/2012] [Accepted: 05/21/2012] [Indexed: 01/31/2023]
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20
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21
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Hnilova M, Liu X, Yuca E, Jia C, Wilson B, Karatas AY, Gresswell C, Ohuchi F, Kitamura K, Tamerler C. Multifunctional protein-enabled patterning on arrayed ferroelectric materials. ACS APPLIED MATERIALS & INTERFACES 2012; 4:1865-71. [PMID: 22458431 DOI: 10.1021/am300177t] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
This study demonstrates a biological route to programming well-defined protein-inorganic interfaces with an arrayed geometry via modular peptide tag technology. To illustrate this concept, we designed a model multifunctional fusion protein, which simultaneously displays a maltose-binding protein (MBP), a green fluorescence protein (GFPuv) and an inorganic-binding peptide (AgBP2C). The fused combinatorially selected AgBP2C tag controls and site-directs the multifunctional fusion protein to immobilize on silver nanoparticle arrays that are fabricated on specific domain surfaces of ferroelectric LiNbO(3) via photochemical deposition and in situ synthesis. Our combined peptide-assisted biological and ferroelectric lithography approach offers modular design and versatility in tailoring surface reactivity for fabrication of nanoscale devices in environmentally benign conditions.
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22
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Hnilova M, Karaca BT, Park J, Jia C, Wilson BR, Sarikaya M, Tamerler C. Fabrication of hierarchical hybrid structures using bio-enabled layer-by-layer self-assembly. Biotechnol Bioeng 2011; 109:1120-30. [PMID: 22170333 DOI: 10.1002/bit.24405] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2011] [Revised: 11/15/2011] [Accepted: 11/28/2011] [Indexed: 11/12/2022]
Abstract
Development of versatile and flexible assembly systems for fabrication of functional hybrid nanomaterials with well-defined hierarchical and spatial organization is of a significant importance in practical nanobiotechnology applications. Here we demonstrate a bio-enabled self-assembly technique for fabrication of multi-layered protein and nanometallic assemblies utilizing a modular gold-binding (AuBP1) fusion tag. To accomplish the bottom-up assembly we first genetically fused the AuBP1 peptide sequence to the C'-terminus of maltose-binding protein (MBP) using two different linkers to produce MBP-AuBP1 hetero-functional constructs. Using various spectroscopic techniques, surface plasmon resonance (SPR) and localized surface plasmon resonance (LSPR), we verified the exceptional binding and self-assembly characteristics of AuBP1 peptide. The AuBP1 peptide tag can direct the organization of recombinant MBP protein on various gold surfaces through an efficient control of the organic-inorganic interface at the molecular level. Furthermore using a combination of soft-lithography, self-assembly techniques and advanced AuBP1 peptide tag technology, we produced spatially and hierarchically controlled protein multi-layered assemblies on gold nanoparticle arrays with high molecular packing density and pattering efficiency in simple, reproducible steps. This model system offers layer-by-layer assembly capability based on specific AuBP1 peptide tag and constitutes novel biological routes for biofabrication of various protein arrays, plasmon-active nanometallic assemblies and devices with controlled organization, packing density and architecture.
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Affiliation(s)
- Marketa Hnilova
- Department of Material Science and Engineering, Genetically Engineered Materials Science and Engineering Center (GEMSEC), University of Washington, Seattle, Washington 98195, USA
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23
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Abstract
Molecular imaging allows clinicians to visualize disease-specific molecules, thereby providing relevant information in the diagnosis and treatment of patients. With advances in genomics and proteomics and underlying mechanisms of disease pathology, the number of targets identified has significantly outpaced the number of developed molecular imaging probes. There has been a concerted effort to bridge this gap with multidisciplinary efforts in chemistry, proteomics, physics, material science, and biology—all essential to progress in molecular imaging probe development. In this review, we discuss target selection, screening techniques, and probe optimization with the aim of developing clinically relevant molecularly targeted imaging agents.
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Affiliation(s)
- Fred Reynolds
- From the Robert M. Berne Cardiovascular Research Center and the Department of Biomedical Engineering, University of Virginia, Charlottesville, VA. Reprints not available
| | - Kimberly A. Kelly
- From the Robert M. Berne Cardiovascular Research Center and the Department of Biomedical Engineering, University of Virginia, Charlottesville, VA. Reprints not available
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24
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Chen J, Serizawa T, Komiyama M. Recognition of Photoresponsive Polymer Targets by Protein Fused withcis-Form Azobenzene-binding Peptide. CHEM LETT 2011. [DOI: 10.1246/cl.2011.482] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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25
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Yuca E, Karatas AY, Seker UOS, Gungormus M, Dinler-Doganay G, Sarikaya M, Tamerler C. In vitro labeling of hydroxyapatite minerals by an engineered protein. Biotechnol Bioeng 2011; 108:1021-30. [PMID: 21190171 DOI: 10.1002/bit.23041] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2010] [Revised: 11/29/2010] [Accepted: 12/09/2010] [Indexed: 11/08/2022]
Abstract
Biological and biomimetic synthesis of inorganics have been a major focus in hard tissue engineering as well as in green processing of advanced materials. Among the minerals formed by organisms, calcium phosphate mineralization is studied extensively to understand the formation of mineral-rich tissues. Herein, we report an engineered fusion protein that not only targets calcium phosphate minerals but also allows monitoring of biomineralization. To produce the bi-functional fusion protein, nucleotide sequence encoding combinatorially selected hydroxyapatite-binding peptides (HABP) was genetically linked to the 3' end of the open reading frame of green fluorescence protein (GFPuv) and successfully expressed in Escherichia coli. The fluorescence and binding activities of the bi-functional proteins were characterized by, respectively, using fluorescence microscopy and quartz crystal microbalance spectroscopy. The utility of GFPuv-HABP fusion protein was assessed for both time-wise monitoring of mineralization and the visualization of the mineralized tissues. We used an alkaline phosphatase-based reaction to control phosphate release, thereby mimicking biological processes, to monitor calcium phosphate mineralization. The increase in mineral amount was observed using the fusion protein at different time points. GFPuv-HABP1 was also used for efficient fluorescence labeling of mineralized regions on the extracted human incisors. Our results demonstrate a simple and versatile application of inorganic-binding peptides conjugated with bioluminescence proteins as bi-functional bioimaging molecular probes that target mineralization, and which can be employed to a wide range of biomimetic processing and cell-free tissue engineering.
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Affiliation(s)
- Esra Yuca
- Department of Molecular Biology, Genetics and Biotechnology, Istanbul Technical University, Istanbul, Turkey
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26
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Ostrov N, Gazit E. Genetic engineering of biomolecular scaffolds for the fabrication of organic and metallic nanowires. Angew Chem Int Ed Engl 2010; 49:3018-21. [PMID: 20349481 DOI: 10.1002/anie.200906831] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Nili Ostrov
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel
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27
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Exploitation of peptide motif sequences and their use in nanobiotechnology. Curr Opin Biotechnol 2010; 21:412-25. [DOI: 10.1016/j.copbio.2010.07.008] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2010] [Revised: 07/13/2010] [Accepted: 07/15/2010] [Indexed: 12/18/2022]
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28
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Kokh DB, Corni S, Winn PJ, Hoefling M, Gottschalk KE, Wade RC. ProMetCS: An Atomistic Force Field for Modeling Protein−Metal Surface Interactions in a Continuum Aqueous Solvent. J Chem Theory Comput 2010; 6:1753-68. [DOI: 10.1021/ct100086j] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Daria B. Kokh
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
| | - Stefano Corni
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
| | - Peter J. Winn
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
| | - Martin Hoefling
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
| | - Kay E. Gottschalk
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
| | - Rebecca C. Wade
- Molecular and Cellular Modeling Group, Heidelberg Institute for Theoretical Studies (HITS gGmbH), Schloss-Wolfsbrunnenweg 35, D-69118 Heidelberg, Germany, INFM-CNR National Research Center on nanoStructures and BioSystems at Surface (S3), Modena, Italy, Centre for Systems Biology, School of Biosciences, The University of Birmingham, Edgbaston, Birmingham, B15 2TT, United Kingdom, and Ludwig Maximilians University, Munich, German
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29
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Ostrov N, Gazit E. Genetic Engineering of Biomolecular Scaffolds for the Fabrication of Organic and Metallic Nanowires. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.200906831] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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30
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Hattori T, Umetsu M, Nakanishi T, Togashi T, Yokoo N, Abe H, Ohara S, Adschiri T, Kumagai I. High affinity anti-inorganic material antibody generation by integrating graft and evolution technologies: potential of antibodies as biointerface molecules. J Biol Chem 2010; 285:7784-93. [PMID: 20044483 PMCID: PMC2844222 DOI: 10.1074/jbc.m109.020156] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2009] [Revised: 12/23/2009] [Indexed: 02/02/2023] Open
Abstract
Recent advances in molecular evolution technology enabled us to identify peptides and antibodies with affinity for inorganic materials. In the field of nanotechnology, the use of the functional peptides and antibodies should aid the construction of interface molecules designed to spontaneously link different nanomaterials; however, few material-binding antibodies, which have much higher affinity than short peptides, have been identified. Here, we generated high affinity antibodies from material-binding peptides by integrating peptide-grafting and phage-display techniques. A material-binding peptide sequence was first grafted into an appropriate loop of the complementarity determining region (CDR) of a camel-type single variable antibody fragment to create a low affinity material-binding antibody. Application of a combinatorial library approach to another CDR loop in the low affinity antibody then clearly and steadily promoted affinity for a specific material surface. Thermodynamic analysis demonstrated that the enthalpy synergistic effect from grafted and selected CDR loops drastically increased the affinity for material surface, indicating the potential of antibody scaffold for creating high affinity small interface units. We show the availability of the construction of antibodies by integrating graft and evolution technology for various inorganic materials and the potential of high affinity material-binding antibodies in biointerface applications.
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Affiliation(s)
- Takamitsu Hattori
- From the Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai 980-8579
| | - Mitsuo Umetsu
- From the Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai 980-8579
- the Center for Interdisciplinary Research, Tohoku University, Sendai 980-8578
| | - Takeshi Nakanishi
- From the Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai 980-8579
| | - Takanari Togashi
- the Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai 980-8577, and
| | - Nozomi Yokoo
- the Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai 980-8577, and
| | - Hiroya Abe
- the Joining and Welding Research Institute, Osaka University, Osaka 567-0047, Japan
| | - Satoshi Ohara
- the Joining and Welding Research Institute, Osaka University, Osaka 567-0047, Japan
| | - Tadafumi Adschiri
- the Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Sendai 980-8577, and
| | - Izumi Kumagai
- From the Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai 980-8579
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31
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Puthenveetil S, Liu DS, White KA, Thompson S, Ting AY. Yeast display evolution of a kinetically efficient 13-amino acid substrate for lipoic acid ligase. J Am Chem Soc 2010; 131:16430-8. [PMID: 19863063 DOI: 10.1021/ja904596f] [Citation(s) in RCA: 81] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Escherichia coli lipoic acid ligase (LplA) catalyzes ATP-dependent covalent ligation of lipoic acid onto specific lysine side chains of three acceptor proteins involved in oxidative metabolism. Our lab has shown that LplA and engineered mutants can ligate useful small-molecule probes such as alkyl azides ( Nat. Biotechnol. 2007 , 25 , 1483 - 1487 ) and photo-cross-linkers ( Angew. Chem., Int. Ed. 2008 , 47 , 7018 - 7021 ) in place of lipoic acid, facilitating imaging and proteomic studies. Both to further our understanding of lipoic acid metabolism, and to improve LplA's utility as a biotechnological platform, we have engineered a novel 13-amino acid peptide substrate for LplA. LplA's natural protein substrates have a conserved beta-hairpin structure, a conformation that is difficult to recapitulate in a peptide, and thus we performed in vitro evolution to engineer the LplA peptide substrate, called "LplA Acceptor Peptide" (LAP). A approximately 10(7) library of LAP variants was displayed on the surface of yeast cells, labeled by LplA with either lipoic acid or bromoalkanoic acid, and the most efficiently labeled LAP clones were isolated by fluorescence activated cell sorting. Four rounds of evolution followed by additional rational mutagenesis produced a "LAP2" sequence with a k(cat)/K(m) of 0.99 muM(-1) min(-1), >70-fold better than our previous rationally designed 22-amino acid LAP1 sequence (Nat. Biotechnol. 2007, 25, 1483-1487), and only 8-fold worse than the k(cat)/K(m) values of natural lipoate and biotin acceptor proteins. The kinetic improvement over LAP1 allowed us to rapidly label cell surface peptide-fused receptors with quantum dots.
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Affiliation(s)
- Sujiet Puthenveetil
- Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, USA
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32
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Tamerler C, Khatayevich D, Gungormus M, Kacar T, Oren EE, Hnilova M, Sarikaya M. Molecular biomimetics: GEPI-based biological routes to technology. Biopolymers 2010; 94:78-94. [DOI: 10.1002/bip.21368] [Citation(s) in RCA: 83] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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33
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Yokoo N, Togashi T, Umetsu M, Tsumoto K, Hattori T, Nakanishi T, Ohara S, Takami S, Naka T, Abe H, Kumagai I, Adschiri T. Direct and Selective Immobilization of Proteins by Means of an Inorganic Material-Binding Peptide: Discussion on Functionalization in the Elongation to Material-Binding Peptide. J Phys Chem B 2009; 114:480-6. [DOI: 10.1021/jp907731b] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Nozomi Yokoo
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Takanari Togashi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Mitsuo Umetsu
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Kouhei Tsumoto
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Takamitsu Hattori
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Takeshi Nakanishi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Satoshi Ohara
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Seiichi Takami
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Takashi Naka
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Hiroya Abe
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Izumi Kumagai
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
| | - Tadafumi Adschiri
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, Katahira 2-1-1, Aoba-ku, Sendai 980-8577, Japan, Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Aoba 6-6-11, Aramaki, Aoba-ku, Sendai 980-8579, Japan, Center for Interdisciplinary Research, Tohoku University, Aoba 6-3, Aramaki, Aoba-ku, Sendai 980-8578, Japan, Bio- and Electromechanical Autonomous Nano Systems (BEANS) Laboratories, New Energy and Industrial Technology Development
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34
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Tulip P, Bates S. First principles determination of structural, electronic and lattice dynamical properties of a model dipeptide molecular crystal. Mol Phys 2009. [DOI: 10.1080/00268970903224955] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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35
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Kacar T, Zin MT, So C, Wilson B, Ma H, Gul-Karaguler N, Jen AKY, Sarikaya M, Tamerler C. Directed self-immobilization of alkaline phosphatase on micro-patterned substrates via genetically fused metal-binding peptide. Biotechnol Bioeng 2009; 103:696-705. [PMID: 19309754 PMCID: PMC7161797 DOI: 10.1002/bit.22282] [Citation(s) in RCA: 78] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Current biotechnological applications such as biosensors, protein arrays, and microchips require oriented immobilization of enzymes. The characteristics of recognition, self-assembly and ease of genetic manipulation make inorganic binding peptides an ideal molecular tool for site-specific enzyme immobilization. Herein, we demonstrate the utilization of gold binding peptide (GBP1) as a molecular linker genetically fused to alkaline phosphatase (AP) and immobilized on gold substrate. Multiple tandem repeats (n = 5, 6, 7, 9) of gold binding peptide were fused to N-terminus of AP (nGBP1-AP) and the enzymes were expressed in E. coli cells. The binding and enzymatic activities of the bi-functional fusion constructs were analyzed using quartz crystal microbalance spectroscopy and biochemical assays. Among the multiple-repeat constructs, 5GBP1-AP displayed the best bi-functional activity and, therefore, was chosen for self-immobilization studies. Adsorption and assembly properties of the fusion enzyme, 5GBP1-AP, were studied via surface plasmon resonance spectroscopy and atomic force microscopy. We demonstrated self-immobilization of the bi-functional enzyme on micro-patterned substrates where genetically linked 5GBP1-AP displayed higher enzymatic activity per area compared to that of AP. Our results demonstrate the promising use of inorganic binding peptides as site-specific molecular linkers for oriented enzyme immobilization with retained activity. Directed assembly of proteins on solids using genetically fused specific inorganic-binding peptides has a potential utility in a wide range of biosensing and bioconversion processes.
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Affiliation(s)
- Turgay Kacar
- Department of Materials Science and Engineering, University of Washington, Seattle, WA 98195, USA
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Skelton AA, Liang T, Walsh TR. Interplay of sequence, conformation, and binding at the Peptide-titania interface as mediated by water. ACS APPLIED MATERIALS & INTERFACES 2009; 1:1482-1491. [PMID: 20355952 DOI: 10.1021/am9001666] [Citation(s) in RCA: 70] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
The initial stages of the adsorption of a hexapeptide at the aqueous titania interface are modeled using atomistic molecular dynamics simulations. This hexapeptide has been identified by experiment [Sano, K. I.; Shiba, K. J. Am. Chem. Soc. 2003, 125, 14234] to bind to Ti particles. We explore the current hypothesis presented by these authors that binding at this peptide-titania interface is the result of electrostatic interactions and find that contact with the surface appears to take place via a pair of oppositely charged groups in the peptide. Our data indicate that the peptide may initially recognize the water layers at the interface, not the titania surface itself, via these charged groups. We also report results of simulations for hexapeptide sequences with selected single-point mutations for alanine and compare these behaviors with those suggested from observed binding affinities from existing alanine scan experiments. Our results indicate that factors in addition to electrostatics also contribute, with the structural rigidity conferred by proline suggested to play a significant role. Finally, our findings suggest that intrapeptide interaction may provide mechanisms for surface detachment that could be detrimental to binding at the interface.
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Affiliation(s)
- Adam A Skelton
- Department of Chemistry and Centre for Scientific Computing, University of Warwick, Coventry CV4 7AL, UK.
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Chen H, Su X, Neoh KG, Choe WS. Context-dependent adsorption behavior of cyclic and linear peptides on metal oxide surfaces. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2009; 25:1588-1593. [PMID: 19170646 DOI: 10.1021/la8030304] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Peptides with specific binding affinity to inorganic materials bridge biological systems with synthetic inorganic materials. Many inorganic-binding peptides were isolated using combinatorial peptide libraries without a good understanding of the interaction mechanism, which thus hinders the practical application of these peptides. Besides the amino acid composition, peptides' structure (e.g., cyclic structure constrained by disulfide bond) is believed to play an important role in their binding behavior. A cyclic peptide STB1 (-CHKKPSKSC-) was previously identified to electrostatically bind to TiO2 and SiO2. In the present study, the binding behavior (affinity and conformation) of STB1 and its linear version LSTB1 (-AHKKPSKSA-) on a TiO2 or SiO2 surface was investigated in three different contexts (i.e., free peptides, phage particles displaying peptides, and LacI-peptide fusion protein) using quartz crystal microbalance with energy dissipation measurement (QCM-D). The binding kinetics of STB1 and LSTB1 in the context of fusion protein to either metal oxide was quantitatively analyzed. LSTB1 showed similar binding behavior on both TiO2 and SiO2 surfaces. In the context of phage-displayed and LacI-hosted peptides, STB1 was found to have weaker binding affinity than LSTB1 for either metal oxide, but it was able to distinguish between SiO2 and TiO2. This is probably because LSTB1 has a much more flexible structure than STB1, as shown by the molecular dynamics simulation. The structural flexibility of LSTB1 enables it to explore a wider range of conformations to maximize its interaction with TiO2 and SiO2.
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Affiliation(s)
- Haibin Chen
- Department of Chemical and Biomolecular Engineering, National University of Singapore, 10 Kent Ridge Crescent, Singapore 119260
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Hnilova M, Oren EE, Seker UOS, Wilson BR, Collino S, Evans JS, Tamerler C, Sarikaya M. Effect of molecular conformations on the adsorption behavior of gold-binding peptides. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:12440-5. [PMID: 18839975 DOI: 10.1021/la801468c] [Citation(s) in RCA: 140] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Despite extensive recent reports on combinatorially selected inorganic-binding peptides and their bionanotechnological utility as synthesizers and molecular linkers, there is still only limited knowledge about the molecular mechanisms of peptide binding to solid surfaces. There is, therefore, much work that needs to be carried out in terms of both the fundamentals of solid-binding kinetics of peptides and the effects of peptide primary and secondary structures on their recognition and binding to solid materials. Here we discuss the effects of constraints imposed on FliTrx-selected gold-binding peptide molecular structures upon their quantitative gold-binding affinity. We first selected two novel gold-binding peptide (AuBP) sequences using a FliTrx random peptide display library. These were, then, synthesized in two different forms: cyclic (c), reproducing the original FliTrx gold-binding sequence as displayed on bacterial cells, and linear (l) dodecapeptide gold-binding sequences. All four gold-binding peptides were then analyzed for their adsorption behavior using surface plasmon resonance spectroscopy. The peptides exhibit a range of binding affinities to and adsorption kinetics on gold surfaces, with the equilibrium constant, Keq, varying from 2.5x10(6) to 13.5x10(6) M(-1). Both circular dichroism and molecular mechanics/energy minimization studies reveal that each of the four peptides has various degrees of random coil and polyproline type II molecular conformations in solution. We found that AuBP1 retained its molecular conformation in both the c- and l-forms, and this is reflected in having similar adsorption behavior. On the other hand, the c- and l-forms of AuBP2 have different molecular structures, leading to differences in their gold-binding affinities.
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Affiliation(s)
- Marketa Hnilova
- Materials Science and Engineering, University of Washington, Seattle, WA 98195, USA
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Matsuno H, Sekine J, Yajima H, Serizawa T. Biological selection of peptides for poly(l-lactide) substrates. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:6399-6403. [PMID: 18500833 DOI: 10.1021/la8008442] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Short peptides that recognize the alpha form of poly( l-lactide) (PLLA) crystalline films were identified from a phage-displayed peptide library. An enzyme-linked immunosorbent assay (ELISA) revealed that the apparent binding constants of the phage clones for the alpha form of PLLA were greater than those of the unselected phage library. The specificity index for the alpha form of PLLA referred to a structurally similar atactic poly(methyl methacrylate) (at-PMMA), supporting the alpha form of PLLA specific binding of the selected phage. Amino acid residues with proton-donor lateral groups and hydrophobic alkyl groups were relatively enriched in a sequence of heptapeptides on the specific phage clones, thereby suggesting the presence of hydrogen bonding as well as hydrophobic interactions between the alpha form of PLLA and the peptides. Surface plasmon resonance (SPR) analysis revealed that the binding constant of the freed c22 heptapeptide (Gln-Leu-Met-His-Asp-Tyr-Arg) for the alpha form of PLLA was greater than those for reference at-PMMA, amorphous PLLA, and the beta form of PLLA. It was found that c22 peptide can recognize slight differences in PLLA polymorphs such as a crystalline state and an arrangement of PLLA functional groups.
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Affiliation(s)
- Hisao Matsuno
- Komaba Open Laboratory, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8904, Japan
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Chen H, Su X, Neoh KG, Choe WS. Probing the interaction between peptides and metal oxides using point mutants of a TiO2-binding peptide. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:6852-6857. [PMID: 18533692 DOI: 10.1021/la800314p] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
An increasing number of peptides with specific binding affinity to inorganic materials are being isolated using combinatorial peptide libraries without prior knowledge about the interaction between peptides and target materials. The lack of understanding of the mechanism and the contribution of constituent amino acids to the peptides' inorganic-binding ability poses an obstacle to optimizing and tuning of the binding affinity of peptides to inorganic materials and thus hinders the practical application of these peptides. Using the phage surface display technique, we previously identified a disulfide-bond-constrained peptide (-CHKKPSKSC-, STB1) cognitive of TiO2. In the present study, the interaction of STB1 with TiO2 was probed using a series of point mutants of STB1 displayed on phage surfaces. Their binding affinity was measured using a quartz crystal microbalance with energy dissipation measurement and compared on the basis of the delta f or delta D values. The three K residues of STB1 were found to be essential and sufficient for phage particle binding to TiO2. One mutant with five K residues showed not stronger but weaker binding affinity than STB1 due to its conformational restriction, as illustrated by molecular dynamics simulation, to align five K residues in a way conducive to their simultaneous interaction with the TiO2 surface. The contextual influence of noncharged residues on STB1's binding affinity was also investigated. Our results may provide insight into the electrostatic interaction between peptides and inorganic surfaces.
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Affiliation(s)
- Haibin Chen
- Department of Chemical & Biomolecular Engineering, National University of Singapore, 10 Kent Ridge Crescent, Singapore 119260
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Qi M, O'Brien JP, Yang J. A recombinant triblock protein polymer with dispersant and binding properties for digital printing. Biopolymers 2008; 90:28-36. [PMID: 17972282 DOI: 10.1002/bip.20878] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
A structured triblock protein was designed to explore the potential of engineered peptides to function as high-performance ink dispersants and binders. The protein consists of three functional elements, including a pigment binding domain, a hydrophilic linker, and a printing surface binding domain. To construct such a chimeric protein, a carbon black binding peptide, FHENWPS, and a cellulose binding peptide, THKTSTQRLLAA, were identified from phage display libraries through biopanning, based on their strong and specific binding affinities to carbon black and cellulose. They were used as carbon black and cellulose binding domains, respectively, in a recombinant triblock protein. A linker sequence, PTPTPTPTPTPTPTPTPTPTPTP, was adapted from endoglucanase A of the bacterium Cellulomonas fimi, as a small, rigid, and hydrophilic interdomain linker. When incorporated into the triblock structure between the carbon black and cellulose binding sequences, the linker sufficiently isolates these two elements and allows dual binding activity. The structured triblock protein was shown to disperse carbon black particles and attach it to paper surfaces. Thus, the utility of structured proteins having useful dispersant and binding properties for digital printing inks was demonstrated.
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Affiliation(s)
- Min Qi
- DuPont Central Research and Development, Experimental Station, Wilmington, DE 19880-0402, USA
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Gai SA, Wittrup KD. Yeast surface display for protein engineering and characterization. Curr Opin Struct Biol 2007; 17:467-73. [PMID: 17870469 PMCID: PMC4038029 DOI: 10.1016/j.sbi.2007.08.012] [Citation(s) in RCA: 269] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2007] [Revised: 08/03/2007] [Accepted: 08/19/2007] [Indexed: 11/23/2022]
Abstract
Yeast surface display is being employed to engineer desirable properties into proteins for a broad variety of applications. Labeling with soluble ligands enables rapid and quantitative analysis of yeast-displayed libraries by flow cytometry, while cell-surface selections allow screening of libraries with insoluble or even as-yet-uncharacterized binding targets. In parallel, the utilization of yeast surface display for protein characterization, including in particular the mapping of functional epitopes mediating protein–protein interactions, represents a significant recent advance.
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Affiliation(s)
- S Annie Gai
- Department of Chemical Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Room E19-563, Cambridge, MA 02139, USA
| | - K Dane Wittrup
- Department of Chemical Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Room E19-563, Cambridge, MA 02139, USA
- Department of Biological Engineering, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Room E19-563, Cambridge, MA 02139, USA
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