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Basu A, Tolbatov I, Marrone A, Vaskevich A, Chuntonov L. Noble Metal Nanoparticles with Nanogel Coatings: Coinage Metal Thiolate-Stabilized Glutathione Hydrogel Shells. THE JOURNAL OF PHYSICAL CHEMISTRY. C, NANOMATERIALS AND INTERFACES 2024; 128:3438-3448. [PMID: 38445015 PMCID: PMC10911076 DOI: 10.1021/acs.jpcc.4c00433] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/21/2024] [Revised: 01/27/2024] [Accepted: 01/29/2024] [Indexed: 03/07/2024]
Abstract
Developing biocompatible nanocoatings is crucial for biomedical applications. Noble metal colloidal nanoparticles with biomolecular shells are thought to combine diverse chemical and optothermal functionalities with biocompatibility. Herein, we present nanoparticles with peptide hydrogel shells that feature an unusual combination of properties: the metal core possesses localized plasmon resonance, whereas a few-nanometer-thick shells open opportunities to employ their soft framework for loading and scaffolding. We demonstrate this concept with gold and silver nanoparticles capped by glutathione peptides stacked into parallel β-sheets as they aggregate on the surface. A key role in the formation of the ordered structure is played by coinage metal(I) thiolates, i.e., Ag(I), Cu(I), and Au(I). The shell thickness can be controlled via the concentration of either metal ions or peptides. Theoretical modeling of the shell's molecular structure suggests that the thiolates have a similar conformation for all the metals and that the parallel β-sheet-like structure is a kinetic product of the peptide aggregation. Using third-order nonlinear two-dimensional infrared spectroscopy, we revealed that the ordered secondary structure is similar to the bulk hydrogels of the coinage metal thiolates of glutathione, which also consist of aggregated stacked parallel β-sheets. We expect that nanoparticles with hydrogel shells will be useful additions to the nanomaterial toolbox. The present method of nanogel coating can be applied to arbitrary surfaces where the initial deposition of the seed glutathione monolayer is possible.
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Affiliation(s)
- Arghyadeep Basu
- Schulich
Faculty of Chemistry and Solid-State Institute, Technion—Israel Institute of Technology, Haifa 3200003, Israel
| | - Iogann Tolbatov
- Department
of Physics and Astronomy, University of
Padova, via F. Marzolo 8, 35131 Padova, Italy
- Institute
of Chemical Research of Catalonia (ICIQ), Barcelona Institute of Science and Technology, Av. Països Catalans 16, 43007 Tarragona, Spain
| | - Alessandro Marrone
- Dipartimento
di Farmacia, Università degli Studi
“G. D’Annunzio” Chieti-Pescara, Via dei Vestini, 66100 Chieti, Italy
| | - Alexander Vaskevich
- Department
of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Lev Chuntonov
- Schulich
Faculty of Chemistry and Solid-State Institute, Technion—Israel Institute of Technology, Haifa 3200003, Israel
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2
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Mizutani Y, Mizuno M. Time-resolved spectroscopic mapping of vibrational energy flow in proteins: Understanding thermal diffusion at the nanoscale. J Chem Phys 2022; 157:240901. [PMID: 36586981 DOI: 10.1063/5.0116734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Vibrational energy exchange between various degrees of freedom is critical to barrier-crossing processes in proteins. Hemeproteins are well suited for studying vibrational energy exchange in proteins because the heme group is an efficient photothermal converter. The released energy by heme following photoexcitation shows migration in a protein moiety on a picosecond timescale, which is observed using time-resolved ultraviolet resonance Raman spectroscopy. The anti-Stokes ultraviolet resonance Raman intensity of a tryptophan residue is an excellent probe for the vibrational energy in proteins, allowing the mapping of energy flow with the spatial resolution of a single amino acid residue. This Perspective provides an overview of studies on vibrational energy flow in proteins, including future perspectives for both methodologies and applications.
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Affiliation(s)
- Yasuhisa Mizutani
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Misao Mizuno
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
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3
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Yamashita S, Mizuno M, Mizutani Y. High suitability of tryptophan residues as a spectroscopic thermometer for local temperature in proteins under nonequilibrium conditions. J Chem Phys 2022; 156:075101. [DOI: 10.1063/5.0079797] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Affiliation(s)
- Satoshi Yamashita
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Misao Mizuno
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
| | - Yasuhisa Mizutani
- Department of Chemistry, Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka 560-0043, Japan
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4
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Podder C, Gong X, Pan H. Ultrafast, Non-Equilibrium and Transient Heating and Sintering of Nanocrystals for Nanoscale Metal Printing. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2021; 17:e2103436. [PMID: 34617399 DOI: 10.1002/smll.202103436] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2021] [Revised: 08/04/2021] [Indexed: 06/13/2023]
Abstract
The carrier excitation, relaxation, energy transport, and conversion processes during light-nanocrystal (NC) interactions have been intensively investigated for applications in optoelectronics, photocatalysis, and photovoltaics. However, there are limited studies on the non-equilibrium heating under relatively high laser excitation that leads to NCs sintering. Here, the authors use femtosecond laser two-pulse correlation and in-situ optical transmission probing to investigate the non-equilibrium heating of NCs and transient sintering dynamics. First, a two-pulse correlation study reveals that the sintering rate strongly increases when the two heating laser pulses are temporally separated by <10 ps. Second, the sintering rate is found to increase nonlinearly with laser fluence when heating with ≈700 fs laser pulses. By three-temperature modeling, the NC sintering mechanism mediated by electron induced ligand transformation is suggested. The ultrafast and non-equilibrium process facilitates sintering in dry (spin-coated) and wet (solvent suspended) environments. The nonlinear dependence of sintering rate on laser fluence is exploited to print sub-diffraction-limited features in NC suspension. The smallest feature printed is ≈200 nm, which is ≈¼ of the laser wavelength. These findings provide a new perspective toward nanomanufacturing development based on probing and engineering ultrafast transport phenomena in functional NCs.
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Affiliation(s)
- Chinmoy Podder
- J. Mike Walker '66 Department of Mechanical Engineering, Texas A&M University, College Station, TX, 77843, USA
| | - Xiangtao Gong
- J. Mike Walker '66 Department of Mechanical Engineering, Texas A&M University, College Station, TX, 77843, USA
| | - Heng Pan
- J. Mike Walker '66 Department of Mechanical Engineering, Texas A&M University, College Station, TX, 77843, USA
- Department of Mechanical and Aerospace Engineering, Missouri University of Science and Technology, Rolla, MO, 65401, USA
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5
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Locarno S, Bucci R, Impresari E, Gelmi ML, Pellegrino S, Clerici F. Ultrashort Peptides and Gold Nanoparticles: Influence of Constrained Amino Acids on Colloidal Stability. Front Chem 2021; 9:736519. [PMID: 34660531 PMCID: PMC8517408 DOI: 10.3389/fchem.2021.736519] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2021] [Accepted: 09/16/2021] [Indexed: 11/13/2022] Open
Abstract
Poor colloidal stability of gold nanoparticles (AuNPs) in physiological environments remains one of the major limitations that contribute to their difficult translation from bench to clinic. For this reason, an active research field is the development of molecules able to hamper AuNPs aggregation tendency in physiological environments. In this context, synthetic peptides are gaining an increased interest as an alternative to the use of biomacromolecules and polymers, due to their easiness of synthesis and their profitable pharmacokinetic profile. In this work, we reported on the use of ultrashort peptides containing conformationally constrained amino acids (AAs) for the stabilization of AuNPs. A small library of non-natural self-assembled oligopeptides were synthesized and used to functionalize spherical AuNPs of 20 nm diameter, via the ligand exchange method. The aim was to investigate the role of the constrained AA, the anchor point (at C- or N-terminus) and the peptide length on their potential use as gold binding motif. Ultrashort Aib containing peptides were identified as effective tools for AuNPs colloidal stabilization. Furthermore, peptide coated AuNPs were found to be storable as powders without losing the stabilization properties once re-dispersed in water. Finally, the possibility to exploit the developed systems for binding proteins via molecular recognition was also evaluated using biotin as model.
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Affiliation(s)
- Silvia Locarno
- Dipartimento di Fisica “Aldo Pontremoli”, Università degli Studi di Milano, Milano, Italy
| | - Raffaella Bucci
- DISFARM-Dipartimento di Scienze Farmaceutiche, Sezione Chimica Generale e Organica ‘‘A. Marchesini”, Università degli Studi di Milano, Milano, Italy
| | - Elisa Impresari
- DISFARM-Dipartimento di Scienze Farmaceutiche, Sezione Chimica Generale e Organica ‘‘A. Marchesini”, Università degli Studi di Milano, Milano, Italy
| | - Maria Luisa Gelmi
- DISFARM-Dipartimento di Scienze Farmaceutiche, Sezione Chimica Generale e Organica ‘‘A. Marchesini”, Università degli Studi di Milano, Milano, Italy
| | - Sara Pellegrino
- DISFARM-Dipartimento di Scienze Farmaceutiche, Sezione Chimica Generale e Organica ‘‘A. Marchesini”, Università degli Studi di Milano, Milano, Italy
| | - Francesca Clerici
- DISFARM-Dipartimento di Scienze Farmaceutiche, Sezione Chimica Generale e Organica ‘‘A. Marchesini”, Università degli Studi di Milano, Milano, Italy
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6
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Acceleration of catalysis in dihydrofolate reductase by transient, site-specific photothermal excitation. Proc Natl Acad Sci U S A 2021; 118:2014592118. [PMID: 33468677 DOI: 10.1073/pnas.2014592118] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
We have studied the role of protein dynamics in chemical catalysis in the enzyme dihydrofolate reductase (DHFR), using a pump-probe method that employs pulsed-laser photothermal heating of a gold nanoparticle (AuNP) to directly excite a local region of the protein structure and transient absorbance to probe the effect on enzyme activity. Enzyme activity is accelerated by pulsed-laser excitation when the AuNP is attached close to a network of coupled motions in DHFR (on the FG loop, containing residues 116-132, or on a nearby alpha helix). No rate acceleration is observed when the AuNP is attached away from the network (distal mutant and His-tagged mutant) with pulsed excitation, or for any attachment site with continuous wave excitation. We interpret these results within an energy landscape model in which transient, site-specific addition of energy to the enzyme speeds up the search for reactive conformations by activating motions that facilitate this search.
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7
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Reid KM, Yamato T, Leitner DM. Variation of Energy Transfer Rates across Protein–Water Contacts with Equilibrium Structural Fluctuations of a Homodimeric Hemoglobin. J Phys Chem B 2020; 124:1148-1159. [DOI: 10.1021/acs.jpcb.9b11413] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Korey M. Reid
- Department of Chemistry, University of Nevada, Reno, Reno, Nevada 89557, United States
| | - Takahisa Yamato
- Graduate School of Science, Division of Material Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Japan
| | - David M. Leitner
- Department of Chemistry, University of Nevada, Reno, Reno, Nevada 89557, United States
- Graduate School of Science, Division of Material Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Japan
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8
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Leitner DM, Pandey HD, Reid KM. Energy Transport across Interfaces in Biomolecular Systems. J Phys Chem B 2019; 123:9507-9524. [DOI: 10.1021/acs.jpcb.9b07086] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- David M. Leitner
- Department of Chemistry, University of Nevada, Reno, Nevada 89557, United States
| | - Hari Datt Pandey
- Department of Chemistry, University of Nevada, Reno, Nevada 89557, United States
| | - Korey M. Reid
- Department of Chemistry, University of Nevada, Reno, Nevada 89557, United States
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9
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Rubtsov IV, Burin AL. Ballistic and diffusive vibrational energy transport in molecules. J Chem Phys 2019; 150:020901. [PMID: 30646721 DOI: 10.1063/1.5055670] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023] Open
Abstract
Energy transport in molecules is essential for many areas of science and technology. Strong covalent bonds of a molecular backbone can facilitate the involvement of the molecule's high-frequency modes in energy transport, which, under certain conditions, makes the transport fast and efficient. We discuss such conditions and describe various transport regimes in molecules, including ballistic, diffusive, directed diffusion, and intermediate regime cases, in light of recently developed experimental and theoretical approaches.
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Affiliation(s)
- Igor V Rubtsov
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, USA
| | - Alexander L Burin
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, USA
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10
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Basu TS, Diesch S, Obergfell M, Demsar J, Scheer E. Energy scales and dynamics of electronic excitations in functionalized gold nanoparticles measured at the single particle level. Phys Chem Chem Phys 2019; 21:13446-13452. [DOI: 10.1039/c9cp02378j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
The knowledge of the electronic structure in nanoparticles and their dynamics is a prerequisite to develop miniaturized single electron devices based on nanoparticles.
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Affiliation(s)
| | - Simon Diesch
- Department of Physics
- University of Konstanz
- 78457 Konstanz
- Germany
| | - Manuel Obergfell
- Institute of Physics
- Johannes Gutenberg-University Mainz
- 55128 Mainz
- Germany
| | - Jure Demsar
- Institute of Physics
- Johannes Gutenberg-University Mainz
- 55128 Mainz
- Germany
| | - Elke Scheer
- Department of Physics
- University of Konstanz
- 78457 Konstanz
- Germany
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11
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Kozlowski R, Ragupathi A, Dyer RB. Characterizing the Surface Coverage of Protein-Gold Nanoparticle Bioconjugates. Bioconjug Chem 2018; 29:2691-2700. [PMID: 30004227 PMCID: PMC6093776 DOI: 10.1021/acs.bioconjchem.8b00366] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Functional enzyme-nanoparticle bioconjugates are increasingly important in biomedical and biotechnology applications such as drug delivery and biosensing. Optimization of the function of such bioconjugates requires careful control and characterization of their structures and activity, but current methods are inadequate for this purpose. A key shortcoming of existing approaches is the lack of an accurate method for quantitating protein content of bioconjugates for low (monolayer) surface coverages. In this study, an integrated characterization methodology for protein-gold nanoparticle (AuNP) bioconjugates is developed, with a focus on site-specific attachment and surface coverage of protein on AuNPs. Single-cysteine-containing mutants of dihydrofolate reductase are covalently attached to AuNPs with diameters of 5, 15, and 30 nm, providing a range of surface curvature. Site-specific attachment to different regions of the protein surface is investigated, including attachment to a flexible loop versus a rigid α helix. Characterization methods include SDS-PAGE, UV-vis spectrophotometry, dynamic light scattering, and a novel fluorescence-based method for accurate determination of low protein concentration on AuNPs. An accurate determination of both protein and AuNP concentration in conjugate samples allows for the calculation of the surface coverage. We find that surface coverage is related to the surface curvature of the AuNP, with a higher surface coverage observed for higher surface curvature. The combination of these characterization methods is important for understanding the functionality of protein-AuNP bioconjugates, particularly enzyme activity.
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Affiliation(s)
- Rachel Kozlowski
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Ashwin Ragupathi
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - R. Brian Dyer
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
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12
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Wadhwani P, Heidenreich N, Podeyn B, Bürck J, Ulrich AS. Antibiotic gold: tethering of antimicrobial peptides to gold nanoparticles maintains conformational flexibility of peptides and improves trypsin susceptibility. Biomater Sci 2018; 5:817-827. [PMID: 28275774 DOI: 10.1039/c7bm00069c] [Citation(s) in RCA: 49] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Peptide-coated nanoparticles are valuable tools for diverse biological applications, such as drug delivery, molecular recognition, and antimicrobial action. The functionalization of pre-fabricated nanoparticles with free peptides in solution is inefficient either due to aggregation of the particles or due to the poor ligand exchange reaction. Here, we present a one-pot synthesis for preparing gold nanoparticles with a homogeneous distribution that are covered in situ with cationic peptides in a site-selective manner via Cys-residue at the N-terminus. Five representative peptides were selected, which are known to perturb cellular membranes and exert their antimicrobial and/or cell penetrating activity by folding into amphiphilic α-helical structures. When tethered to the nanoparticles at a single site, all peptides were found to switch their conformation from unordered state (in aqueous buffers) to their functionally relevant α-helical conformation in the presence of model membranes, as shown by circular dichroism spectroscopy. The conjugated peptides also maintained the same antibacterial activity as in the free form. Most importantly, when tethered to the gold nanoparticles the peptides showed an enormous increase in stability against trypsin digestion compared to the free forms, leading to a dramatic improvement of their lifetimes and activities. These findings suggest that site-selective surface tethering of peptides to gold nanoparticles has several advantages: (i) it does not prevent the peptides from folding into their biologically active conformation, (ii) such conjugation protects the peptides against protease digestion, and (iii) this way it is possible to prepare stable, water soluble antimicrobial nanoparticles as promising antibacterial agents.
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Affiliation(s)
- Parvesh Wadhwani
- Karlsruhe Institute of Technology (KIT), 1Institute of Biological Interfaces (IBG-2) P.O.B. 3640, D 76021 Karlsruhe, Germany.
| | - Nico Heidenreich
- KIT, 2Institute of Organic Chemistry & CFN, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Benjamin Podeyn
- KIT, 2Institute of Organic Chemistry & CFN, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
| | - Jochen Bürck
- Karlsruhe Institute of Technology (KIT), 1Institute of Biological Interfaces (IBG-2) P.O.B. 3640, D 76021 Karlsruhe, Germany.
| | - Anne S Ulrich
- Karlsruhe Institute of Technology (KIT), 1Institute of Biological Interfaces (IBG-2) P.O.B. 3640, D 76021 Karlsruhe, Germany. and KIT, 2Institute of Organic Chemistry & CFN, Fritz-Haber-Weg 6, D-76131 Karlsruhe, Germany
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13
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Chuntonov L. 2D-IR spectroscopy of hydrogen-bond-mediated vibrational excitation transfer. Phys Chem Chem Phys 2016; 18:13852-60. [DOI: 10.1039/c6cp01640e] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
Inter-molecular vibrational energy transfer in the hydrogen-bonded complexes of methyl acetate and 4-cyanophenol is studied by dual-frequency 2D-IR spectroscopy.
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Affiliation(s)
- Lev Chuntonov
- Schulich Faculty of Chemistry and Solid State Institute
- Technion – Israel Institute of Technology
- Haifa 32000
- Israel
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14
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Marafon G, Mosconi D, Mazzier D, Biondi B, De Zotti M, Moretto A. Shaping bioinspired photo-responsive microstructures by the light-driven modulation of selective interactions. RSC Adv 2016. [DOI: 10.1039/c6ra17673a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
The selective adenine–thymine binding occurring between complementary self-organized complex systems can be modulated by the activation of the plasmon resonance.
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Affiliation(s)
- Giulia Marafon
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - Dario Mosconi
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - Daniela Mazzier
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - Barbara Biondi
- Institute of Biomolecular Chemistry
- Padova Unit
- CNR
- 35131 Padova
- Italy
| | - Marta De Zotti
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - Alessandro Moretto
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
- Institute of Biomolecular Chemistry
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15
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Anisotropic energy flow and allosteric ligand binding in albumin. Nat Commun 2015; 5:3100. [PMID: 24445265 DOI: 10.1038/ncomms4100] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Accepted: 12/12/2013] [Indexed: 11/08/2022] Open
Abstract
Allosteric interactions in proteins generally involve propagation of local structural changes through the protein to a remote site. Anisotropic energy transport is thought to couple the remote sites, but the nature of this process is poorly understood. Here, we report the relationship between energy flow through the structure of bovine serum albumin and allosteric interactions between remote ligand binding sites of the protein. Ultrafast infrared spectroscopy is used to probe the flow of energy through the protein backbone following excitation of a heater dye, a metalloporphyrin or malachite green, bound to different binding sites in the protein. We observe ballistic and anisotropic energy flow through the protein structure following input of thermal energy into the flexible ligand binding sites, without local heating of the rigid helix bundles that connect these sites. This efficient energy transport mechanism enables the allosteric propagation of binding energy through the connecting helix structures.
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16
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Abstract
Fascinating anisotropy decay experiments have recently been performed on H2O ice Ih by Timmer and Bakker [R. L. A. Timmer, and H. J. Bakker, J. Phys. Chem. A 114, 4148 (2010)]. The very fast decay (on the order of 100 fs) is indicative of resonant energy transfer between OH stretches on different molecules. Isotope dilution experiments with deuterium show a dramatic dependence on the hydrogen mole fraction, which confirms the energy transfer picture. Timmer and Bakker have interpreted the experiments with a Förster incoherent hopping model, finding that energy transfer within the first solvation shell dominates the relaxation process. We have developed a microscopic theory of vibrational spectroscopy of water and ice, and herein we use this theory to calculate the anisotropy decay in ice as a function of hydrogen mole fraction. We obtain very good agreement with experiment. Interpretation of our results shows that four nearest-neighbor acceptors dominate the energy transfer, and that while the incoherent hopping picture is qualitatively correct, vibrational energy transport is partially coherent on the relevant timescale.
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Affiliation(s)
- L Shi
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - F Li
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
| | - J L Skinner
- Theoretical Chemistry Institute and Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
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17
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Rubtsova NI, Rubtsov IV. Vibrational energy transport in molecules studied by relaxation-assisted two-dimensional infrared spectroscopy. Annu Rev Phys Chem 2015; 66:717-38. [PMID: 25747112 DOI: 10.1146/annurev-physchem-040214-121337] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
This review presents an overview of the relaxation-assisted two-dimensional infrared (RA 2DIR) spectroscopy method for measuring structures and energy transport dynamics in molecules. The method strongly enhances the range of accessible distances compared to traditional 2DIR and offers new structural reporters, such as the energy transport time, cross-peak amplification factors, and connectivity patterns. The use of the method for assigning vibrational modes with various levels of delocalization is illustrated. RA 2DIR relies on vibrational energy transport in molecules; as such, the transport mechanism can be conveniently studied by the method. Applications to identify diffusive and ballistic energy transport are demonstrated.
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Affiliation(s)
- Natalia I Rubtsova
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118;
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18
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Agbo JK, Gnanasekaran R, Leitner DM. Communication Maps: Exploring Energy Transport through Proteins and Water. Isr J Chem 2014. [DOI: 10.1002/ijch.201300139] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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19
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Hassan S, Schade M, Shaw CP, Lévy R, Hamm P. Response of villin headpiece-capped gold nanoparticles to ultrafast laser heating. J Phys Chem B 2014; 118:7954-62. [PMID: 24597838 DOI: 10.1021/jp500845f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Abstract
The integrity of a small model protein, the 36-residue villin headpiece HP36, attached to gold nanoparticles (AuNP) is examined, and its response to laser excitation of the AuNPs is investigated. To that end, it is first verified by stationary IR and CD spectroscopy, together with denaturation experiments, that the folded structure of the protein is fully preserved when attached to the AuNP surface. It is then shown by time-resolved IR spectroscopy that the protein does not unfold, even upon the highest pump fluences that lead to local temperature jumps on the order of 1000 K of the phonon system of the AuNPs, since that temperature jump persists for too short a time of a few nanoseconds only to be destructive. Judged from a blue shift of the amide I band, indicating destabilized or a few broken hydrogen bonds, the protein either swells, becomes more unstructured from the termini, or changes its degree of solvation. In any case, it recovers immediately after the excess energy dissipates into the bulk solvent. The process is entirely reversible for millions of laser shots without any indication of aggregation of the protein or the AuNPs and with only a minor fraction of broken protein-AuNP thiol bonds. The work provides important cornerstones in designing laser pulse parameters for maximal heating with protein-capped AuNPs without destroying the capping layer.
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Affiliation(s)
- Shabir Hassan
- Department of Chemistry, University of Zurich , Zurich, Switzerland
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20
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Longo E, Orlandin A, Mancin F, Scrimin P, Moretto A. Reversible chirality control in peptide-functionalized gold nanoparticles. ACS NANO 2013; 7:9933-9939. [PMID: 24127829 DOI: 10.1021/nn403816a] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
We report the induction of chiroptical properties in 2 nm diameter gold nanoparticles passivated with short peptides characterized by the Aib-l-Ala repetition in their sequence. The nanoparticles present relevant ECD signals in the 300-650 nm wavelength region, corresponding to the gold nanoparticle's quantized electronic structure. Although the only chiral amino acid present in the peptide sequences is l-Ala, the particles show mirror image spectra like those of enantiomers according to the number of amino acids in the main chain (odd or even). Such a behavior appears to be strongly influenced by the secondary structure assumed by the peptides when passivating the nanoparticles and vanishes when the sequence is long enough to assume a 310-helix conformation. Moreover, chirality control is a reversible process and can be deactivated or reactivated by increasing or decreasing the temperature.
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Affiliation(s)
- Edoardo Longo
- Department of Chemical Sciences, University of Padova , Via Marzolo 1, 35131 Padova, Italy
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Leitner DM. Thermal Boundary Conductance and Thermal Rectification in Molecules. J Phys Chem B 2013; 117:12820-8. [DOI: 10.1021/jp402012z] [Citation(s) in RCA: 63] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- David M. Leitner
- Department of Chemistry and Chemical
Physics Program, University of Nevada,
Reno, Nevada 89557, United States
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Yu CX, Wu LA, Segal D. Theory of quantum energy transfer in spin chains: superexchange and ballistic motion. J Chem Phys 2011; 135:234508. [PMID: 22191887 DOI: 10.1063/1.3668083] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023] Open
Abstract
Quantum energy transfer in a chain of two-level (spin) units, connected at its ends to two thermal reservoirs, is analyzed in two limits: (i) in the off-resonance regime, when the characteristic subsystem excitation energy gaps are larger than the reservoirs frequencies, or the baths temperatures are low and (ii) in the resonance regime, when the chain excitation gaps match populated bath modes. In the latter case, the model is studied using a master equation approach, showing that the dynamics is ballistic for the particular chain model explored. In the former case, we analytically study the system dynamics utilizing the recently developed Energy-Transfer Born-Oppenheimer formalism [L.-A. Wu and D. Segal, Phys. Rev. E 83, 051114 (2011)], demonstrating that energy transfers across the chain in a superexchange (bridge assisted tunneling) mechanism, with the energy current decreasing exponentially with distance. This behavior is insensitive to the chain details. Since at low temperatures the excitation spectrum of molecular systems can be truncated to resemble a spin chain model, we argue that the superexchange behavior obtained here should be observed in widespread systems satisfying the off-resonance condition.
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Affiliation(s)
- Claire X Yu
- Chemical Physics Group, Department of Chemistry and Center for Quantum Information and Quantum Control, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
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Soler MA, Bastida A, Farag MH, Zúñiga J, Requena A. A method for analyzing the vibrational energy flow in biomolecules in solution. J Chem Phys 2011; 135:204106. [DOI: 10.1063/1.3663707] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Helbing J, Devereux M, Nienhaus K, Nienhaus GU, Hamm P, Meuwly M. Temperature dependence of the heat diffusivity of proteins. J Phys Chem A 2011; 116:2620-8. [PMID: 22047554 DOI: 10.1021/jp2061877] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
In a combined experimental-theoretical study, we investigated the transport of vibrational energy from the surrounding solvent into the interior of a heme protein, the sperm whale myoglobin double mutant L29W-S108L, and its dependence on temperature from 20 to 70 K. The hindered libration of a CO molecule that is not covalently bound to any part of the protein but is trapped in one of its binding pockets (the Xe4 pocket) was used as the local thermometer. Energy was deposited into the solvent by IR excitation. Experimentally, the energy transfer rate increased from (30 ps)(-1) at 20 K to (8 ps)(-1) at 70 K. This temperature trend is opposite to what is expected, assuming that the mechanism of heat transport is similar to that in glasses. In order to elucidate the mechanism and its temperature dependence, nonequilibrium molecular dynamics (MD) simulations were performed, which, however, predicted an essentially temperature-independent rate of vibrational energy flow. We tentatively conclude that the MD potentials overestimate the coupling between the protein and the CO molecule, which appears to be the rate-limiting step in the real system at low temperatures. Assuming that this coupling is anharmonic in nature, the observed temperature trend can readily be explained.
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Affiliation(s)
- Jan Helbing
- Physikalisch-Chemisches Institut, Universität Zürich, Winterthurerstrasse 190, CH-8057 Zürich, Switzerland
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Kobus M, Nguyen PH, Stock G. Coherent vibrational energy transfer along a peptide helix. J Chem Phys 2011; 134:124518. [DOI: 10.1063/1.3574395] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
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Rio-Echevarria IM, Tavano R, Causin V, Papini E, Mancin F, Moretto A. Water-soluble peptide-coated nanoparticles: control of the helix structure and enhanced differential binding to immune cells. J Am Chem Soc 2010; 133:8-11. [PMID: 21142034 DOI: 10.1021/ja107588q] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
The stabilizing action of C(α)-tetrasubstituted α-amino acids inserted into a sequence of short peptides allowed for the first time the preparation of water-soluble nanoparticles of different materials coated with a helix-structured undecapeptide. This peptide coating strongly favors nanoparticle uptake by human immune system cells.
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Affiliation(s)
- Iria M Rio-Echevarria
- Dipartimento di Scienze Chimiche, Università di Padova, via Marzolo 1, 35131 Padova, Italy
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Halas NJ. Plasmonics: an emerging field fostered by Nano Letters. NANO LETTERS 2010; 10:3816-22. [PMID: 20853888 DOI: 10.1021/nl1032342] [Citation(s) in RCA: 127] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
While studies of surface plasmons on metals have been pursued for decades, the more recent appearance of nanoscience has created a revolution in this field with "Plasmonics" emerging as a major area of research. The direct optical excitation of surface plasmons on metallic nanostructures provides numerous ways to control and manipulate light at nanoscale dimensions. This has stimulated the development of novel optical materials, deeper theoretical insight, innovative new devices, and applications with potential for significant technological and societal impact. Nano Letters has been instrumental in the emergence of plasmonics, providing its readership with rapid advances in this dynamic field.
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Affiliation(s)
- Naomi J Halas
- Department of Electrical and Computer Engineering, Rice University, 6100 Main Street, Houston, Texas 77005-1892, USA.
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