Interaction of amino acids with gold and silver clusters

Suzuki-Miyaura Cross-Coupling Reaction Catalyzed by Al12M (M = Be, Al, C, and P) Superatoms with Different Numbers of Valence Electrons

The exploration of low-cost, efficient, environmentally safe, and selective catalysts for the activation of carbon-halogen bonds has become an important and challenging topic in modern chemistry. With the help of density functional theory (DFT), it is found that phenyl bromide (PhBr) can be efficiently chemisorbed by the Al12M (M = Be, Al, C, and P) superatoms via forming highly polarized Al-Br covalent bonds, where the C-Br bonds of PhBr can be effectively activated through the electron transfer from Al12M. The different electronic structures of these four Al12M superatoms pose a substantial effect on their performances on the activation of PhBr and the catalytic mechanisms of the Suzuki-Miyaura (SM) reaction. Among them, the alkali-metal-like superatom Al12P exhibits the best performance for the activation of PhBr. In particular, Al13 and Al12P with open-shell electronic structures exhibit catalytic performances comparable to those of previously reported catalysts for this coupling reaction. Hence, it is highly expected that Al13 and Al12P could be used as novel superatom catalysts for C-C coupling reactions and, therefore, open up new possibilities to use nonprecious superatoms in catalyzing the activation and transformation of carbon-halogen bonds.

Binding Mechanism and Surface-Enhanced Raman Scattering of the Antimicrobial Sulfathiazole on Gold Nanoparticles

A combined study using the surface-enhanced Raman scattering (SERS) technique and quantum chemical calculations was carried out to elucidate the adsorption behavior of sulfathiazole, an antibiotic drug, on gold nanoparticles. The tetrahedral Au20 cluster was used as a simple model to mimic a nanostructured gold surface. Computations using density functional theory with the PBE functional were performed in both the gas phase and aqueous medium using a continuum model. The drug is found to bind to the Au metals via the nitrogen of the thiazole ring. The interaction is also partially stabilized by the ring-surface π coupling rather than a sideway adsorption as previously proposed. In an aqueous solution, the drug molecule mainly exists as a deprotonated form, which gives rise to a much greater affinity toward Au nanoparticles as compared to the neutral forms. The drug adsorption further induces a significant alteration on the energy gap of the gold cluster Aun, which could result in an electrical noise. Notable SERS signals below 1600 cm-1, which result from a coupling of several vibrations including the ring breathing, C-C stretching, and N-H bending, could be employed for both qualitative and quantitative detection and assessment of sulfathiazole at trace concentrations.

Interaction of glycine with Li+ in the (H2O)n (n = 0-8) clusters

CONTEXT

We investigated the interaction between glycine and Li⁺ in water environment based on the Gly·Li⁺(H₂O)_n (n = 0-8) cluster. Our study shows that for Gly·Li⁺, Li⁺ binds to both carbonyl oxygen and amino nitrogen to form a bidentate structure, and the first three water molecules preferentially interact with Li⁺. For n = 0-5, the complexes of Gly·Li⁺(H₂O)_n exist in neutral form, and when the water number reached 6, the complex can coexist in neutral and zwitterionic form, then zwitterionic structures are dominant for n = 7, 8. The analyses by RDG, AIM, and ESP in conjunction with the calculated interaction energies show that the interaction between Li⁺ and Gly decreases gradually with the water molecules involved successively from n = 1 to 6 and then increases for n = 7-8. Additionally, the infrared spectra of Gly·Li⁺(H₂O)_n (n = 0-8) are also calculated.

METHODS

The initial structures were optimized using Gaussian 09 program package in B3LYP-D3 (BJ)/6-311G(d, p) method, and the frequency was calculated with 6-311 + G(2d, p) basis set. GaussView5.0.9 was used to view simulation infrared spectra. The noncovalent interaction method (NCl), energy decomposition (EDA), atoms in molecules (AIM) analysis, and electrostatic potential (ESP) analyses were conducted using Multiwfn software to gain a deeper understanding of the interaction properties of Gly, Li⁺, and water.

Density Functional Theory Computation and Machine Learning Studies of Interaction between Au3 Clusters and 20 Natural Amino Acid Molecules

The optimal adsorption sites and the binding energies of neutral Au₃ clusters with 20 natural amino acids under the gas phase and water solvation were systematically investigated based on density functional theory (DFT) calculations. The calculation results showed that in the gas phase Au₃ tends to bind with N atoms of amino groups in amino acids, except methionine, which tends to bind with Au₃ through S atoms. Under water solvation, Au₃ clusters tended to bind to N atoms of amino groups and N atoms of side chain amino groups in amino acids. However, methionine and cysteine bind more strongly to the gold atom through the S atom. Based on the binding energy data of Au₃ clusters and 20 natural amino acids under water solvation calculated by DFT, a machine learning model (gradient boosted decision tree) was proposed to predict the optimal binding Gibbs free energy (ΔG) of the interaction between Au₃ clusters and amino acids. The main factors affecting the strength of the interaction between Au₃ and amino acids were uncovered by the feature importance analysis.

Advances in Ultra-small Fluorescence Nanoprobes for Detection of Metal Ions, Drugs, Pesticides and Biomarkers

Identification of trace level chemical species (drugs, pesticides, metal ions and biomarkers) plays key role in environmental monitoring. Recently, fluorescence assay has shown significant advances in detecting of trace level drugs, pesticides, metal ions and biomarkers in real samples. Ultra-small nanostructure materials (metal nanoclusters (NCs), quantum dots (QDs) and carbon dots (CDs)) have been integrated with fluorescence spectrometer for sensitive and selective analysis of trace level target analytes in various samples including environmental and biological samples. This review summarizes the properties of metal NCs and ligand chemistry for the fabrication of metal NCs. We also briefly summarized the synthetic routes for the preparation of QDs and CDs. Advances of ultra-small fluorescent nanosensors (NCs, QDs and CDs) for sensing of metal ions, drugs, pesticides and biomarkers in various sample matrices are briefly discussed. Additionally, we discuss the recent challenges and future perspectives of ultra-small materials as fluorescent sensors for assaying of wide variety of target analytes in real samples.

Binding mechanism and SERS spectra of 5-fluorouracil on gold clusters

The adsorption behaviour of the 5-fluorouracil (5FU) on small gold clusters Au _N with N = 6, 8, 20 was evaluated by means of density functional theory using the PBE-D3 functional in combination with a mixed basis set, i.e. cc-pVDZ-PP for gold atoms and cc-pVTZ for non-metal elements. The binding energies between 5FU and gold clusters were determined in the range of 16-24 and 11-19 kcal/mol in gas-phase and aqueous media, respectively. The corresponding Gibbs energies were found to be around -7 to -10 kcal/mol in vacum and sigificantly reduced to -1 to -6 kcal/mol in water solution, indicating that both the association and dissociation processes are likely spontaneous. An analysis on the charge density difference tends to confirm the existence of a charge transfer from the 5FU molecule to Au atoms. Analysis of the surface-enhanced Raman scattering (SERS) spectra of 5FU adsorbed on the Au surfaces shows that the stretching vibrations of N-H and C=O bonds play a major role in the SERS phenomenon. A mechanism for the drug releasing from the gold surfaces is also proposed. The process is triggered by either the low pH in cancerous tumors or the presence of cysteine residues in protein matrices.

Precise size-control and functionalization of gold nanoparticles synthesized by plasma-liquid interactions: using carboxylic, amino, and thiol ligands

Using gold nanoparticles (GNPs) in high-standard applications requires GNPs to be fabricated with high-quality size and surface properties. Plasma-liquid interactions (PLIs) have the unique ability to synthesize GNPs without using any reducing agents, and the GNP surface is free of stabilizing agents. It is an extreme advantage that ensures success for the subsequent functionalization processes for GNPs. However, fabricating GNPs via PLIs at the desired size has still been a challenge. Here, we present a simple approach to achieving the precise size-control of GNPs synthesized by PLIs. By adding suitable ligands to the precursor solution, the ligands wrap GNPs which interrupts and slows down the rapid growth of GNPs under PLIs. This way, the size of the GNPs can be precisely controlled by adjusting the ligand concentration. Our results showed that the size of the GNPs in the range of 10-60 nm can be fitted to reciprocal functions of the ligand concentration. The potency of the size-control depends on the type of ligands in the order of thiol > amine > carboxylate. The size-control has been well investigated with four common ligands: l-cysteine, glucosamine, salicylic acid, and terephthalic acid. XPS, FTIR, and zeta potential techniques confirmed the presence of these ligands on GNPs. The results indicated that functionalized ligands could be utilized to control the size and functionalize the GNP surface. Hence our approach could simultaneously achieve two goals: precise size-control and functionalization of GNPs without the ligand-exchange step.

Silver cluster interactions with Pterin: Complex structure, binding energies and spectroscopy

Metal nanoclusters (NCs) are widely present today in biosensing, bioimaging, and diagnostics due to their small size, great biocompatibility, and sensitivity to the biomolecular environment. Silver (Ag) NCs often possess intense fluorescence, photostability, and low photobleaching, which is in high demand during the detection of organic molecules. Pterins are small compounds, which are used in medicine as biomarkers of oxidative stress, cardiovascular diseases, neurotransmitter synthesis, inflammation and immune system activation. It is experimentally possible to detect pterin (Ptr) through the adsorption on Ag colloid. We optimized geometries and evaluated the binding energy in Ptr-Ag_n^q complexes (n = 1-6; q = 0, +1, +2) using quantum chemistry methods. Different Ptr atoms were preferential for silver attachment depending on NC charge and size. The highest E_b was obtained for the complexes between the Ptr⁰ and Ag₃²⁺ (-50.8 kcal mol^-1), between Ptr^-1 and Ag₃²⁺ (-64.8 kcal mol^-1), which means that these complexes should be formed preferably in aqueous solutions in acidic and alkaline media, respectively. The colorimetric detection of pterin with silver clusters does not seem to be promising. However, intense S_0→S₁ transitions of Ag₅⁺ complexes look promising for luminescent Ptr detection. SERS detection of pterin is better to be done at pH > 8 since deprotonated pterin Raman undergo more dramatic changes upon addition of Ag than the neutral pterin. The characteristics of absorption and vibrational spectra of silver-pterin should be exploited during biosensor development.

One-step synthesis of gold nanoparticles for catalysis and SERS applications using selectively dicarboxylated cellulose and hyaluronate

Properties and applications of gold nanoparticles (AuNPs) depend on their characteristics which are intrinsically connected to the reducing and capping agents used in their synthesis. Although polysaccharides are commonly used for Au salt reduction, the control over the result is often limited. Here, the selectively dicarboxylated cellulose (DCC) and hyaluronate (DCH) with adjustable composition and molecular weight are used for the first time as reducing and capping agents for AuNPs preparation in an environmental friendly one-step synthesis. Mechanism of reduction and structure-function relationships between the composition of oxidized polysaccharides and properties of formed AuNPs are elucidated and the variances in the macromolecular architecture of dicarboxypolysaccharides are applied to guide the growth of AuNPs. While the homogenous structure and high density of carboxyl groups of fully-oxidized DCC induced isotropic growth of small and uniform AuNPs with good catalytic performance (d = ~20 nm, TOF = 7.3 min^-1, k = 1.47 min^-1), the lower stabilizing potential and slower reduction rates of the DCH induced the anisotropic growth of larger polyhedral ~50 nm nanoparticles, which increased the Surface-Enhanced Raman Scattering efficacy (9× stronger Raman signals on average compared to AuDCC). The use of dicarboxypolysaccharides with adjustable composition and properties thus introduced a new degree of freedom for the preparation of AuNPs with desired properties.

Innovative and versatile nanoplasmonic approach for the full sensing of proteinogenic aminoacids in nutritional supplements

A current nourishment issue is the development of smart and reliable analytical strategies to control in a simple way main bioactive compounds of nutritional supplements whose increasing use is deemed a trend nowadays. With this aim a quick and highly sensitive plasmonic sensor using simple citrate coated gold nanoparticles (AuNPs) as optical probe, was developed for both qualitative and quantitative global assessment of all the proteinogenic amino acids in nutritional supplements. AuNPs of five different sizes (from 19 to 74 nm) were synthesized, characterized and evaluated as optimal transductor element for the sensing approach. Critical physic-chemical conditions controlling aggregation (pH, incubation time, AuNPs amount and ionic strength) were investigated on the main five types of aas, structurally different attending to their R-side chain and with expected distinctive behaviour on aggregation mechanisms, which are also discussed. All proteinogenic amino acids induced AuNPs aggregation at low pH (2.5) causing a change in the colour solution from red to blue, as well as a redshift in the plasmon band from 518 nm (disperse NPs) to 650 nm (aggregated NPs). Based on this sensing approach two different strategies are allowed, a preliminary qualitative/semi-quantitative screening just by the naked eye (simple spot test) and a second quantitative confirmation procedure using the analytical signal (A₆₅₀/A₅₁₈). Reliability of quantitative approach was assessed by an exhaustive validation procedure, where matrix effects and potential interferences usually present in commercial samples and affecting the analytical signal were mainly focussed. The results for the analysis of complex nutritional samples were validated by means of a statistical comparison with those ones of the official reference Kjeldahl method (paired Student test-t) at a 95% confidence level. This is the first sensing approach able to provide the global estimation of proteinogenic aas amount based on their simply AuNPs aggregation induction, irrespectively of their R-side chain structure.

Silver Cluster Interactions with Tyrosine: Towards Amino Acid Detection

Tyrosine (Tyr) is involved in the synthesis of neurotransmitters, catecholamines, thyroid hormones, etc. Multiple pathologies are associated with impaired Tyr metabolism. Silver nanoclusters (Ag NCs) can be applied for colorimetric, fluorescent, and surface-enhanced Raman spectroscopy (SERS) detection of Tyr. However, one should understand the theoretical basics of interactions between Tyr and Ag NCs. Thereby, we calculated the binding energy (Eb) between Tyr and Agnq (n = 1-8; q = 0-2) NCs using the density functional theory (DFT) to find the most stable complexes. Since Ag NCs are synthesized on Tyr in an aqueous solution at pH 12.5, we studied Tyr-1, semiquinone (SemiQ-1), and Tyr-2. Ag32+ and Ag5+ had the highest Eb. The absorption spectrum of Tyr-2 significantly red-shifts with the attachment of Ag32+, which is prospective for colorimetric Tyr detection. Ag32+ interacts with all functional groups of SemiQ-1 (phenolate, amino group, and carboxylate), which makes detection of Tyr possible due to band emergence at 1324 cm-1 in the vibrational spectrum. The ground state charge transfer between Ag and carboxylate determines the band emergence at 1661 cm-1 in the Raman spectrum of the SemiQ-1-Ag32+ complex. Thus, the prospects of Tyr detection using silver nanoclusters were demonstrated.

Chiral Recognition on Bare Gold Surfaces by Quartz Crystal Microbalance

Quartz crystal microbalance (QCM) is one of the powerful tools for the studies of molecular recognition and chiral discrimination. Its efficiency mainly relies on the design of the functional sensitive layer on the electrode surface. However, the organic sensitive layer may easily cause dissipation of oscillation or detachment and weaken the signal transfer during the molecular recognition processes. In this work, we reveal for the first time that the bare metal surface without the organic selector layer has the capability for chiral recognition in the QCM system. During the adsorption of various chiral amino acids, relatively higher selectivity of D-enantiomers on gold (Au) surface was shown by the QCM detection. Based on analyses of the surface crystalline structure and density functional theory calculations, we demonstrate that the chiral nature of Au surface plays an important role in the selective binding of specific D-amino acids. These results may open new insights on chiral detection by QCM system. It will also promote the construction of novel chiral sensing systems with both efficient detection and separation capability.

DFT calculations to investigate silver ions as a virucide from SARS-CoV-2

The world has face the COVID-19 pandemic which has already caused millions of death. Due to the urgency in fighting the virus, we study five residues of free amino acids present in the structure of the SARS-CoV-2 spike protein (S). We investigated the spontaneous interaction between amino acids and silver ions (Ag⁺), considering these ions as a virucide chemical agent for SARS-CoV-2. The amino acid-Ag⁺ systems were investigated in a gaseous medium and a simulated water environment was described with a continuum model (PCM) the calculations were performed within the framework of density functional theory (DFT). Calculations related to the occupied orbitals of higher energy showed that Ag⁺ has a tendency to interact with the nitrile groups (-NH). The negative values of the Gibbs free energies show that the interaction process between amino acids-Ag⁺ in both media occurs spontaneously. There is a decrease in Gibbs free energy from the amino acid-Ag⁺ interactions immersed in a water solvation simulator.

A magneto-optical biochip for rapid assay based on the Cotton-Mouton effect of γ-Fe2O3@Au core/shell nanoparticles

Background

In the past decades, different diseases and viruses, such as Ebola, MERS and COVID-19, impacted the human society and caused huge cost in different fields. With the increasing threat from the new or unknown diseases, the demand of rapid and sensitive assay method is more and more urgent.

Results

In this work, we developed a magneto-optical biochip based on the Cotton–Mouton effect of γ-Fe₂O₃@Au core/shell magnetic nanoparticles. We performed a proof-of-concept experiment for the detection of the spike glycoprotein S of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The assay was achieved by measuring the magneto-optical Cotton–Mouton effect of the biochip. This magneto-optical biochip can not only be used to detect SARS-CoV-2 but also can be easily modified for other diseases assay.

Conclusion

The assay process is simple and the whole testing time takes only 50 min including 3 min for the CM rotation measurement. The detection limit of our method for the spike glycoprotein S of SARS-CoV-2 is estimated as low as 0.27 ng/mL (3.4 pM).

Graphic abstract

Supplementary Information

The online version contains supplementary material available at 10.1186/s12951-021-01030-z.

We developed a biochip for rapid assay based on the magneto-optical Cotton–Mouton (CM) effect of γ-Fe₂O₃@Au core/shell magnetic nanoparticles.

The easy and quick assay for detection of the spike glycoprotein S of SARS-CoV-2 was demonstrated, and whole process takes approximately 50 min including 3 min for the CM rotation measurement with the detection limit of 0.27 ng/mL (3.4 pM).

This magneto-optical biochip we proposed can be easily modified to use as assays for other diseases.

Influence of Nuclear Localization Sequences on the Intracellular Fate of Gold Nanoparticles

Directing nanoparticles to the nucleus by attachment of nuclear localization sequences (NLS) is an aim in many applications. Gold nanoparticles modified with two different NLS were studied while crossing barriers of intact cells, including uptake, endosomal escape, and nuclear translocation. By imaging of the nanoparticles and by characterization of their molecular interactions with surface-enhanced Raman scattering (SERS), it is shown that nuclear translocation strongly depends on the particular incubation conditions. After an 1 h of incubation followed by a 24 h chase time, 14 nm gold particles carrying an adenoviral NLS are localized in endosomes, in the cytoplasm, and in the nucleus of fibroblast cells. In contrast, the cells display no nanoparticles in the cytoplasm or nucleus when continuously incubated with the nanoparticles for 24 h. The ultrastructural and spectroscopic data indicate different processing of NLS-functionalized particles in endosomes compared to unmodified particles. NLS-functionalized nanoparticles form larger intraendosomal aggregates than unmodified gold nanoparticles. SERS spectra of cells with NLS-functionalized gold nanoparticles contain bands assigned to DNA and were clearly different from those with unmodified gold nanoparticles. The different processing in the presence of an NLS is influenced by a continuous exposure of the cells to nanoparticles and an ongoing nanoparticle uptake. This is supported by mass-spectrometry-based quantification that indicates enhanced uptake of NLS-functionalized nanoparticles compared to unmodified particles under the same conditions. The results contribute to the optimization of nanoparticle analysis in cells in a variety of applications, e.g., in theranostics, biotechnology, and bioanalytics.

Adsorption/Desorption Behaviors and SERS Chemical Enhancement of 6-Mercaptopurine on a Nanostructured Gold Surface: The Au20 Cluster Model

Computational approaches are employed to elucidate the binding mechanism and the SERS phenomenon of 6-mercaptopurine (6MP) adsorbed on the tetrahedral Au20 cluster as a simple model for a nanostructured gold surface. Computations are carried out in both vacuum and aqueous environments using a continuum model. In the gaseous phase and neutral conditions, interaction of 6MP with the gold cluster is mostly dominated by a covalent Au-S bond and partially stabilized by the Au⋅⋅⋅H-N coupling. However, in acidic solution, the nonconventional Au⋅⋅⋅H-S hydrogen-bond becomes the most favorable binding mode. The 6MP affinity for gold clusters decreases in the order of vacuum > neutral solution > acidic medium. During the adsorption, the energy gap of Au20 substantially declines, leading to an increase in its electrical conductivity, which can be converted to an electrical noise. Moreover, such interaction is likely a reversible process and triggered by either the low pH in sick tissues or the presence of cysteine residues in protein matrices. While N-H bending and stretching vibrations play major roles in the SERS phenomenon of 6MP on gold surfaces in neutral solution, the strongest enhancement in acidic environment is mostly due to an Au⋅⋅⋅H-S coupling, rather than an aromatic ring-gold surface π overlap as previously proposed.

Role of pH in the synthesis and growth of gold nanoparticles using L-asparagine: a combined experimental and simulation study

The use of biomolecules as capping and reducing agents in the synthesis of metallic nanoparticles constitutes a promising framework to achieve desired functional properties with minimal toxicity. The system's complexity and the large number of variables involved represent a challenge for theoretical and experimental investigations aiming at devising precise synthesis protocols. In this work, we use L-asparagine (Asn), an amino acid building block of large biomolecular systems, to synthesise gold nanoparticles (AuNPs) in aqueous solution at controlled pH. The use of Asn offers a primary system that allows us to understand the role of biomolecules in synthesising metallic nanoparticles. Our results indicate that AuNPs synthesised in acidic (pH 6) and basic (pH 9) environments exhibit somewhat different morphologies. We investigate these AuNPs via Raman scattering experiments and classical molecular dynamics simulations of zwitterionic and anionic Asn states adsorbing on (111)-, (100)-, (110)-, and (311)-oriented gold surfaces. A combined analysis suggests that the underlying mechanism controlling AuNPs geometry correlates with amine's preferential adsorption over ammonium groups, enhanced upon increasing pH. Our simulations reveal that Asn (both zwitterionic and anionic) adsorption on gold (111) is essentially different from adsorption on more open surfaces. Water molecules strongly interact with the gold face-centred-cubic lattice and create traps, on the more open surfaces, that prevent the Asn from diffusing. These results indicate that pH is a relevant parameter in green-synthesis protocols with the capability to control the nanoparticle's geometry, and pave the way to computational studies exploring the effect of water monolayers on the adsorption of small molecules on wet gold surfaces.

Recent advances in biosensors for detecting viruses in water and wastewater

As there is a considerable number of virus particles in wastewater which cause numerous infectious diseases, it is necessary to eliminate viruses from domestic wastewater before it is released in the environment. In addition, on-site detection of viruses in wastewater can provide information on possible virus exposures in the community of a given wastewater catchment. For this purpose, the pre-detection of different strains of viruses in wastewaters is an essential environmental step. Epidemiological studies illustrate that viruses are the most challenging pathogens to be detected in water samples because of their nano sizes, discrete distribution, and low infective doses. Over the past decades, several methods have been applied for the detection of waterborne viruses which include polymerase chain reaction-based methods (PCR), enzyme-linked immunosorbent assay (ELISA), and nucleic acid sequence-based amplification (NASBA). Although they have shown acceptable performance in virus measurements, their drawbacks such as complicated and time-consuming procedures, low sensitivity, and high analytical cost call for alternatives. Although biosensors are still in an early stage for practical applications, they have shown great potential to become an alternative means for virus detection in water and wastewater. This comprehensive review addresses the different types of viruses found in water and the recent development of biosensors for detecting waterborne viruses.

Silver Nanoparticle-Anchored Human Hair Kerateine/PEO/PVA Nanofibers for Antibacterial Application and Cell Proliferation

The main core of wound treatment is cell growth and anti-infection. To accelerate the proliferation of fibroblasts in the wound and prevent wound infections, various strategies have been tried. It remains a challenge to obtain good cell proliferation and antibacterial effects. Here, human hair kerateine (HHK)/poly(ethylene oxide) (PEO)/poly(vinyl alcohol) (PVA) nanofibers were prepared using cysteine-rich HHK, and then, silver nanoparticles (AgNPs) were in situ anchored in the sulfur-containing amino acid residues of HHK. After the ultrasonic degradation test, HHK/PEO/PVA nanofibrous mats treated with 0.005-M silver nitrate were selected due to their relatively complete structures. It was observed by TEM-EDS that the sulfur-containing amino acids in HHK were the main anchor points of AgNPs. The results of FTIR, XRD and the thermal analysis suggested that the hydrogen bonds between PEO and PVA were broken by HHK and, further, by AgNPs. AgNPs could act as a catalyst to promote the thermal degradation reaction of PVA, PEO and HHK, which was beneficial for silver recycling and medical waste treatment. The antibacterial properties of AgNP-HHK/PEO/PVA nanofibers were examined by the disk diffusion method, and it was observed that they had potential antibacterial capability against Gram-positive bacteria, Gram-negative bacteria and fungi. In addition, HHK in the nanofibrous mats significantly improved the cell proliferation of NIH3T3 cells. These results illustrated that the AgNP-HHK/PEO/PVA nanofibrous mats exhibited excellent antibacterial activity and the ability to promote the proliferation of fibroblasts, reaching our target applications.

Gold nanoclusters as prospective carriers and detectors of pramipexole

Pramipexole (PPX) is known in the treatment of Parkinson's disease and restless legs syndrome. We carried out a theoretical investigation on pramipexole–Au cluster interactions for the applications of drug delivery and detection. Three Au_N clusters with sizes N = 6, 8 and 20 were used as reactant models to simulate the metallic nanostructured surfaces. Quantum chemical computations were performed in both gas phase and aqueous environments using density functional theory (DFT) with the PBE functional and the cc-pVDZ-PP/cc-pVTZ basis set. The PPX drug is mainly adsorbed on gold clusters via its nitrogen atom of the thiazole ring with binding energies of ca. −22 to −28 kcal mol⁻¹ in vacuum and ca. −18 to −24 kcal mol⁻¹ in aqueous solution. In addition to such Au–N covalent bonding, the metal–drug interactions are further stabilized by electrostatic effects, namely hydrogen-bond NH⋯Au contributions. Surface-enhanced Raman scattering (SERS) of PPX adsorbed on the Au surfaces and its desorption process were also examined. In comparison to Au₈, both Au₆ and Au₂₀ clusters undergo a shorter recovery time and a larger change of energy gap, being possibly conducive to electrical conversion, thus signaling for detection of the drug. A chemical enhancement mechanism for SERS procedure was again established in view of the formation of nonconventional hydrogen interactions Au⋯H–N. The binding of PPX to a gold cluster is expected to be reversible and triggered by the presence of cysteine residues in protein matrices or lower-shifted alteration of environment pH. These findings would encourage either further theoretical probes to reach more accurate views on the efficiency of pramipexole–Au interactions, or experimental attempts to build appropriate gold nanostructures for practical trials, harnessing their potentiality for applications.

Gold clusters as prospective carriers and detectors of pramipexole.

Theoretical Study of the Binding of the Thiol-Containing Cysteine Amino Acid to the Silver Surface Using a Cluster Model

Computational approaches within the framework of density functional theory (DFT) were employed to elucidate the binding mechanism of the cysteine amino acid on silver nanoparticles using several small silver clusters Ag_n with n = 2-10 as surface models. The long-range corrected LC-BLYP functional and correlation consistent basis sets cc-pVTZ-PP and cc-pVTZ were used to determine the structural features, energetics, and spectroscopic and electronic properties of the resulting complexes. In vacuum and highly acidic conditions, cysteine molecules prefer to adsorb on silver clusters via their amine group. In aqueous solution, the thiolate head turns out to be the most energetically favorable binding site. The cysteine affinity of silver clusters is greatly altered in different conditions, i.e., acidic solution < vacuum < aqueous solution, and is strongly dependent on the cluster size. As compared to free clusters, the frontier orbital energy gap of the ones capped by cysteine is significantly improved, which corresponds to stronger stability, especially in aqueous solution. The analysis of frontier orbitals also reveals that both forward and backward electron donations exhibit comparable contributions to the enhancement of stabilizing interactions. As for an application, a chemical enhancement mechanism of the surface-enhanced Raman scattering (SERS) procedure of cysteine by silver clusters was also analyzed.

Interaction of Cun, Agn and Aun (n = 1-4) nanoparticles with ChCl:Urea deep eutectic solvent

In this study, the interaction of noble metal nanoparticles (M_n, M = Cu, Ag, and Au; n = 1-4) with ChCl:Urea deep eutectic solvent was investigated using density functional theory (DFT) method. We find that ChCl:Urea mostly interact with the M_n nanoparticles through [Cl]^- anion ([Cl]^-…M_n) and nonconventional H-bonds of C-H⋯M_n and N-H⋯M_n. NBO, QTAIM, NCI and EDA analyses show that [Cl]^-…M_n interactions are stronger than the nonconventional H-bonds interactions. Our results indicate that the nature of [Cl]^-…M_n interactions is electrostatic, while the nonconventional H-bonds of C-H⋯M_n and N-H⋯M_n are van der Waals in nature. The negative values of enthalpy (ΔH) and free energy (ΔG) for the ChCl:Urea…M_n complexes reveal that the formation of ChCl:Urea…M_n complexes is exothermic and proceeds spontaneously. The calculation of binding energy (ΔE_b) of M_n nanoparticles with ChCl:Urea shows that the strength of interaction of Au_n nanoparticles with ChCl:Urea is more favorable than Cu_n and Ag_n, following the order ChCl:Urea…Au_n > ChCl:Urea…Cu_n > ChCl:Urea…Ag_n. Furthermore, the ΔE_b, ΔH and ΔG values enhance with increasing nanoparticle size from n = 1 to n = 4, ChCl:Urea…M₄> ChCl:Urea…M₃> ChCl:Urea…M₂> ChCl:Urea…M₁ (M = Cu, Ag, and Au).

Combined NMR and Computational Study of Cysteine Oxidation during Nucleation of Metallic Clusters in Biological Systems

The widespread biomedical applications of silver and gold nanoparticles (AgNPs and AuNPs, respectively) prompt the need for mechanistic evaluation of their interaction with biomolecules. In biological media, metallic NPs are known to transform by various pathways, especially in the presence of thiols. The interplay between metallic NPs and thiols may lead to unpredictable consequences for the health status of an organism. This study explored the potential events occurring during biotransformation, dissolution, and reformation of NPs in the thiol-rich biological media. The study employed a model system evaluating the interaction of cysteine with small-sized AgNPs and AuNPs. The interplay of cysteine on transformation and reformation pathways of these NPs was experimentally investigated by nuclear magnetic resonance (NMR) spectroscopy and supported by light scattering techniques and transmission electron microscopy (TEM). As the main outcome, Ag- or Au-catalyzed oxidation of cysteine to cystine was found to occur through generation of reactive oxygen species (ROS). Computational simulations confirmed this mechanism and the role of ROS in the oxidative dimerization of biothiol during NPs reformation. The obtained results represent valuable mechanistic data about the complex events during the transport of metallic NPs in thiol-rich biological systems that should be considered for the future biomedical applications of metal-based nanomaterials.

First principle simulation of coated hydroxychloroquine on Ag, Au and Pt nanoparticles

From the first month of the COVID-19 pandemic, the potential antiviral properties of hydroxychloroquine (HCQ) and chloroquine (CQ) against SARS-CoV-2 suggested that these drugs could be the appropriate therapeutic candidates. However, their side effects directed clinical tests towards optimizing safe utilization strategies. The noble metal nanoparticles (NP) are promising materials with antiviral and antibacterial properties that can deliver the drug to the target agent, thereby reducing the side effects. In this work, we applied both the quantum mechanical and classical atomistic molecular dynamics approaches to demonstrate the adsorption properties of HCQ/CQ on Ag, Au, AgAu, and Pt nanoparticles. We found the adsorption energies of HCQ/CQ towards nanoparticles have the following trend: PtNP > AuNP > AuAgNP > AgNP. This shows that PtNP has the highest affinity in comparison to the other types of nanoparticles. The (non)perturbative effects of this drug on the plasmonic absorption spectra of AgNP and AuNP with the time-dependent density functional theory. The effect of size and composition of NPs on the coating with HCQ and CQ were obtained to propose the appropriate candidate for drug delivery. This kind of modeling could help experimental groups to find efficient and safe therapies.

DFT study of cyclic glycine-alanine dipeptide binding to gold nanoclusters

In this work, we studied the interactions between cyclic glycine-alanine dipeptide c(GA) and gold nanoclusters (Au_nNCs, where n = 2-10) using density functional theory (DFT), atoms-in-molecules theory (AIM), and natural bond orbital analysis (NBO). This dipeptide (DP) consists of two amino acid residues (glycine and alanine); thus, the preference of both residues for binding to gold atoms was examined. The preference of alanine residue to the studied Au_nNCs was found to be greater than that of glycine residue. Two types of interactions were exhibited between the Au_nNCs and c(GA), the partially-covalent partially-electrostatic type and electrostatic interaction. Performance of two DFT functionals and different basis sets is assessed. The results benchmark the importance of the DFT functional with dispersion and long-range corrections, as well as the polarization functions in the basis sets for the gold lusters-peptide binding. The binding energy (ΔE_bind) values of the c(GA)-Au_nNCs complexes in gas and water implicit solvent were compared with those previously published for cyclic glycine-glycine DP-Au_nNCs complexes. It was found that the ΔE_bind values of the former complexes are greater than those of latter ones in water solvent.

Comparative study of gold and silver interactions with amino acids and nucleobases

Metal nanoclusters (NCs) have gained much attention in the last decade. In solution, metal nanoclusters can be stabilized by proteins, and, thus, exhibit many advantages in biocatalysis, biosensing, and bioimaging. In spite of much progress in the synthesis of polypeptide-stabilized gold (Au) clusters, their structure, as well as amino acid-cluster and amino acid-Au+ interactions, remain poorly understood. It is not entirely clear which amino acid (AA) residues and sites in the protein are preferred for binding. The understanding of NC-protein interactions and how they evolve in the polypeptide templates is the key to designing Au NCs. In this work, binding of gold ion Au+ and diatomic neutral gold nanocluster Au2 with a full set of α-proteinogenic amino acids is studied using Density Functional Theory (DFT) and the ab initio RI-MP2 method in order to find the preferred sites of gold interaction in proteins. We demonstrated that the interaction of gold cations and clusters with protonated and deprotonated amino acid residues do not differ greatly. The binding affinity of AAs to the Au2 cluster increases in the following order: Cys(-H+) > Asp(-H+) > Tyr(-H+) > Glu(-H+) > Arg > Gln, His, Met ≫ Asn, Pro, Trp > Lys, Tyr, Phe > His(+H+) > Asp > Lys(+H+) > Glu, Leu > Arg(+H+) > Ile, Val, Ala > Thr, Ser > Gly, Cys, which agrees with the available experimental data that gold cluster synthesis occurs in a wide range of pH - amino acid residues with different protonation states are involved in this process. The significant difference in the binding energy of metal atoms with nucleobases and amino acids apparently means that unlike on DNA templates, neutral metal atoms are strongly bound to amino acid residues and can't freely diffuse in a polypeptide globula. This fact allows one to conclude that formation of metal NCs in proteins occurs through the nucleation of reduced Au atoms bound to the neighboring amino acid residues, and the flexibility of the amino acid residue side-chains and protein chain as a whole plays a significant role in this process.

Elucidating the binding mechanism of thione-containing mercaptopurine and thioguanine drugs to small gold clusters

Density functional theory methods were employed to clarify the adsorption/desorption behaviors of the thione-containing mercaptopurine and thioguanine drugs on the gold surface using both small Au₆ and Au₈ clusters as model reactants. Structural features, thermodynamic parameters, bonding characteristics, and electronic properties of the resulting complexes were investigated using the Perdew-Burke-Ernzerhof (PBE) and LC-BLYP functionals along with correlation-consistent basis sets, namely cc-pVDZ-PP for gold and cc-pVTZ for non-metals. Computed results show that the drug molecules tend to anchor on the gold cluster at the S atom with binding energies around -34 to -40 kcal/mol (in vacuum) and - 28 to -32 kcal/mol (in aqueous solution). As compared to Au₈ , Au₆ undergoes a shorter recovery time and a larger change of energy gap that could be converted to an electrical signal for selective detection of the drugs. Furthermore, interactions between the drugs and gold clusters are reversible processes and a drug release mechanism was also proposed. Accordingly, the drugs are able to separate from the gold surface due to either a slight change of pH in tumor cells or the presence of cysteine residues in protein matrices.

On the Interaction between Superatom Al12Be and DNA Nucleobases/Base Pairs: Bonding Nature and Potential Applications in O2 Activation and CO Oxidation

The interaction between quasi-chalcogen superatom Al₁₂Be and DNA nucleobases/base pairs has been explored by searching for the most stable Al₁₂Be-X (X = DNA bases and base pairs) complexes. Our results reveal that Al₁₂Be prefers to combine with guanine by two Al-O and Al-N bonds rather than the other DNA bases, no matter in free state or base pair. The formed Al-N and Al-O bonds between Al₁₂Be and DNA bases proved to be strong polar covalent bonds by the Wiberg bond index, nature bond orbitals, atoms in molecules theory, localized molecular orbitals, and electron localization functions analyses. More importantly, it is found that the formed global minimum of Al₁₂Be-G has the ability to activate an oxygen molecule into a peroxide dianion ¹O₂ ^2-, which can further catalyze the CO oxidation via the Eley-Rideal mechanism with a small energy barrier of 7.78 kcal/mol. We hope that this study could not only provide an in-depth understanding on the intermolecular interaction between metallic superatoms and DNA at the molecular level but also attract more interest in designing and synthesizing superatom-based heterogeneous catalysts with DNA/nucleobases as basic building blocks.

Gold Nanorod Synthesis with Small Thiolated Molecules

Size and shape tunability have been widely demonstrated for gold nanorods (AuNRs), but reproducible and reliable protocols for the synthesis of small nanocrystals with high yield are still needed for potential biomedical applications. Here, we present novel seed-mediated and seedless protocols for gold nanorods by incorporating bioadditives or small thiolated molecules during the growth stage. The bioadditives glutathione (GSH), oxidized glutathione (GSSG), l-cysteine (l-cys), and l-methionine (l-met) are utilized in nanomolar and micromolar concentrations to modify the aspect ratio of AuNRs in a reproducible form. Overall, smaller aspect ratios are achieved for both synthetic approaches due to reduction in length or increment in length and width depending on the method, type of bioadditive and the strength of its interaction with the nanorod surface. For the seeded synthesis, only GSSG produces large nanorods in high yield, whereas for the seedless method GSH and GSSG form small nanorods with higher quality when compared to controls.

Controlled Synthesis of Au Nanocrystals-Metal Selenide Hybrid Nanostructures toward Plasmon-Enhanced Photoelectrochemical Energy Conversion

A simple method for the controllable synthesis of Au nanocrystals–metal selenide hybrid nanostructures via amino acid guiding strategy is proposed. The results show that the symmetric overgrowth mode of PbSe shells on Au nanorods can be precisely manipulated by only adjusting the initial concentration of Pb²⁺. The shape of Au–PbSe hybrids can evolve from dumbbell-like to yolk-shell. Interestingly, the plasmonic absorption enhancement could be tuned by the symmetry of these hybrid nanostructures. This provides an effective pathway for maneuvering plasmon-induced energy transfer in metal–semiconductor hybrids. In addition, the photoactivities of Au–PbSe nanorods sensitized TiO₂ electrodes have been further evaluated. Owing to the synergism between effective plasmonic enhancement effect and efficient interfacial charge transfer in these hybrid nanostructures, the Au–PbSe yolk-shell nanorods exhibit an outstanding photocurrent activity. Their photocurrent density is 4.38 times larger than that of Au–PbSe dumbbell-like nanorods under light irradiation at λ > 600 nm. As a versatile method, the proposed strategy can also be employed to synthesize other metal–selenide hybrid nanostructures (such as Au–CdSe, Au–Bi₂Se₃ and Au–CuSe).

A computational study of thiol-containing cysteine amino acid binding to Au6 and Au8 gold clusters

Density functional theory (DFT) calculations are employed to examine the adsorption behaviors of cysteine on the gold surface using Au₆ and Au₈ species as model reactants. Computed results show that cysteine molecules prefer to bind with gold clusters via the S-atom of the thiol group in vacuum and thiolate group in water. The gas-phase adsorption energies are around 20.2 kcal/mol for Au₆ and 24.4 kcal/mol for Au₈. In water environment, such values are slightly reduced for Au₆ (19.6 kcal/mol), but increased a little more for Au₈ (25.6 kcal/mol). As a result, if a visible light with a frequency of ν ≈ 6 × 10¹⁴ Hz (500 nm) is applied, the time for the recovery of Au₆ and Au₈ from the most stable complexes will be about 0.38 and 9.3 × 10³ s, respectively, at 298 K in water. The Au₆ is in addition found to benefit from a larger change of energy gap that could be converted to an electrical signal for detection of cysteine.

Dispersion-Corrected Density Functional Theory Study of the Noncovalent Complexes Formed with Imidazo[1,2-a]pyrazines Adsorbed onto Silver Clusters

Imidazo[1,2-a]pyrazines are cyclic amidine-type compounds composed of α-amino acid residues. A full structural identification of these molecules constitutes an analytical challenge, especially when imidazo[1,2-a]pyrazines are obtained from physical processes (e.g., sublimation and pyrolysis of amino acids). A valuable source of molecular information can be obtained from absorption spectroscopies and related techniques encompassing the use of metallic substrates. The aim of this study is to provide new knowledge and insights into the noncovalent intermolecular interactions between imidazo[1,2-a]pyrazines and two Ag _n (n = 4 and 20) clusters using density functional theory (DFT) methods. Semiempirical DFT dispersion (DFT-D) corrections were addressed using Grimme's dispersion (GD2) and Austin-Petersson-Frisch (APF) functionals in conjunction with the 6-31+G(d,p) + LANL2DZ mixed basis set. These DFT-D methods describe strong interactions; besides, in all cases, the APF dispersion (APF-D) energies of interaction appear to be consistently overestimated. In comparison with B3LYP calculations, the mean values for the difference in the energies of interaction calculated are 2.25 (GD2) and 6.24 (APF-D) kcal mol^-1 for Ag₄-molecules, and 2.30 (GD2) and 8.53 (APF-D) kcal mol^-1 for Ag₂₀-molecules. The effect of applying GD2 and APF-D corrections to the noncovalent complexes is nuanced in the intermolecular distances calculated, mainly in the Ag···N(amidine) bonding, which appears to play the most important role for the adsorptive process. Selective enhancement and considerable red shifts for Raman vibrations suggest strong interactions, whereas a charge redistribution involving the metallic substrate and the absorbate leads to a significant rearrangement of frontier molecular orbitals mainly in the Ag₂₀-molecule complexes. Finally, time-dependent DFT calculations were carried out to access the orbital contributions to each of the transitions observed in the absorption spectrum. The corresponding UV-vis spectra involve transitions in the visible region at around 400 and 550 nm for the Ag₄-molecule and the Ag₂₀-molecule complexes, respectively.

Cysteine-silver-gold Nanocomposite as potential stable green corrosion inhibitor for mild steel under acidic condition

Cysteine based silver-gold nanocomposite (Cys/Ag-Au NCz) was synthesized, this was followed by its characterization using Fourier-transform infrared spectroscopy (FTIR), X-ray diffraction (XRD), Ultraviolet-visible spectroscopy (UV-Vis), Scanning electron microscopy (SEM), Energy-dispersive X-ray spectroscopy (EDAX), Thermogravimetric analysis (TGA) and Transmission electron microscopy (TEM). Cys/Ag-Au NCz was studied as novel green corrosion inhibitor for mild steel in 1M HCl solution at varying concentration and temperature using gravimetric, Potentiodynamic polarization (PDP), Electrochemical impedance spectroscopy (EIS), SEM, EDAX and FTIR. Weight loss, PDP and EIS studies confirmed Cys/Ag-Au NCz as efficient corrosion inhibitor at moderately low concentration. The maximum inhibition efficiency of 96 % was observed at 303 K at 300 ppm. Cys/Ag-Au NCz acted by affecting both anodic and cathodic processes and its adsorption on steel surface followed the Langmuir adsorption isotherm. EIS data displayed the existence of protective film at mild steel/solution interface in Cys/Ag-Au NCz inhibited system. SEM micrograph in presence of Cys/Ag-Au NCz inhibited acid solution displayed better morphology as compared to blank solution. The UV-Vis and FTIR data indicates good interaction between the Cys/Ag-Au NCz and steel surface.

First principle study of silver nanoparticle interactions with antimalarial drugs extracted from Artemisia annua plant

Silver nanoparticles have a great potential in a broad range of applications such as drug-delivery carriers because of their antiviral and antibacterial properties. In this study, the coating properties of silver nanoparticle (size range of 1.6 nm) with three common anti-malarial drugs, Artemisinin, Artemether, and Artesunate have been studied by using the quantum mechanical and classical atomistic molecular dynamics simulation in order to use as the drug delivery to treat malaria and COVID-19 diseases. The optimized structure, frequencies, charge distribution, and the electrostatic potential maps of the three drug molecules were simulated by using the density functional theory (DFT) at the B3LYP/6-311++g(d,p) level of theory. Then, molecular dynamics simulation was used to study the coating of AgNP with each of these drugs. The affinity of interaction was obtained as Artesunate > Artemether > Artemisinin which is in agreement with the DFT results on the adsorption of drugs on the Ag(111) slab.

Ionic Liquid-Modulated Synthesis of Porous Worm-Like Gold with Strong SERS Response and Superior Catalytic Activities

Porous gold with well-defined shape and size have aroused extensive research enthusiasm due to their prominent properties in various applications. However, it is still a great challenge to explore a simple, green, and low-cost route to fabricate porous gold with a “clean” surface. In this work, porous worm-like Au has been easily synthesized in a one-step procedure from aqueous solution at room temperature under the action of ionic liquid tetrapropylammonium glycine ([N₃₃₃₃][Gly]). It is shown that the as-prepared porous worm-like Au has the length from 0.3 to 0.6 μm and the width of approximately 100–150 nm, and it is composed of lots of small nanoparticles about 6–12 nm in diameter. With rhodamine 6G (R6G) as a probe molecule, porous worm-like Au displays remarkable surface enhanced Raman scattering (SERS) sensitivity (detection limit is lower than 10⁻¹³ M), and extremely high reproducibility (average relative standard deviations is less than 2%). At the same time, owing to significantly high specific surface area, various pore sizes and plenty of crystal defects, porous worm-like Au also exhibits excellent catalytic performance in the reduction of nitroaromatics, such as p-nitrophenol and p-nitroaniline, which can be completely converted within only 100 s and 150 s, respectively. It is expected that the as-prepared porous worm-like Au with porous and self-supported structures will also present the encouraging advances in electrocatalysis, sensing, and many others.

Development of a Label-Free Electrochemical Aptasensor for the Detection of Tau381 and its Preliminary Application in AD and Non-AD Patients' Sera

The electrochemical aptamer sensor has been designed for detecting tau381, a critical biomarker of Alzheimer's disease in human serum. The aptasensor is obtained by immobilizing the aptamer on a carboxyl graphene/thionin/gold nanoparticle modified glassy-carbon electrode. As a probe and bridge molecule, thionin connected carboxyl graphene and gold nanoparticles, and gave the electrical signal. Under optimal conditions, the increment of differential pulse voltammetry signal increased linearly with the logarithm of tau381 concentration in the range from 1.0 pM to 100 pM, and limit of detection was 0.70 pM. The aptasensor reliability was evaluated by determining its selectivity, reproducibility, stability, detection limit, and recovery. Performance analysis of the tau381 aptasensor in 10 patients' serum samples showed that the aptasensor could screen patients with and without Alzheimer's disease. The proposed aptasensor has potential for use in clinically diagnosing Alzheimer's disease in the early stage.