1
|
S S, Shamili C, K Y S, Peethambharan SK, Chandran A. Nanomolar level electrochemical detection of glycine on a miniaturized modified screen-printed carbon-based electrode: a comparison of performance with glassy carbon electrode system. J Mater Chem B 2024; 12:7557-7563. [PMID: 38979673 DOI: 10.1039/d4tb01133c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/10/2024]
Abstract
In this work, we demonstrate the electrochemical (EC) sensing of glycine (GLY) on a gold-copper nanocluster on nitrogen-doped graphene quantum dot-modified (indigenously fabricated) screen-printed electrode (AuCuNC@N-GQD/SPE). SPE was fabricated by step-by-step printing of reference, working, and counter electrodes to develop an all-printed SPE. A comparison strategy between SPE and the glassy carbon electrode (GCE) towards the EC sensing of GLY was carried out. The sensing performance was enhanced while replacing GCE with SPE. The limit of detection (LOD) for GLY obtained by EC sensing with AuCuNC@N-GQD/GCE was 10 nM and that with AuCuNC@N-GQD/SPE was 10 times lower, 1 nM, and is the lowest LOD value reported hitherto. Compared with AuCuNC@N-GQD/GCE, the current response of AuCuNC@N-GQD/SPE exhibited a ∼2.6-times enhancement with a sensitivity of 0.206 μA μM-1 cm-2. Thus, the successful shift from GCE to SPE not only miniaturizes the sensor device but also enhances the electrochemical detection performance.
Collapse
Affiliation(s)
- Saisree S
- Materials Science and Technology Division, CSIR-National Institute of Interdisciplinary Science and Technology, Industrial Estate, Thiruvananthapuram-695 019, Kerala, India.
| | - Chandradas Shamili
- Materials Science and Technology Division, CSIR-National Institute of Interdisciplinary Science and Technology, Industrial Estate, Thiruvananthapuram-695 019, Kerala, India.
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad- 201002, India
| | - Sandhya K Y
- Department of Chemistry, Indian Institute of Space Science and Technology Valiyamala, Thiruvananthapuram 695547, Kerala, India
| | - Surendran Kuzhichalil Peethambharan
- Materials Science and Technology Division, CSIR-National Institute of Interdisciplinary Science and Technology, Industrial Estate, Thiruvananthapuram-695 019, Kerala, India.
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad- 201002, India
| | - Achu Chandran
- Materials Science and Technology Division, CSIR-National Institute of Interdisciplinary Science and Technology, Industrial Estate, Thiruvananthapuram-695 019, Kerala, India.
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad- 201002, India
| |
Collapse
|
2
|
Yang Y, Yu J, Jiang X, Lai K, Miao J. Insight into the interaction between amino acids and SO 2: Detailed bonding modes. J Mol Model 2024; 30:291. [PMID: 39073631 DOI: 10.1007/s00894-024-06083-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Accepted: 07/15/2024] [Indexed: 07/30/2024]
Abstract
CONTEXT Amino acids are a highly effective and environmentally friendly adsorbent for SO2. However, there has been no comprehensive study of the binding modes between amino acids and SO2 at the molecular level. In this paper, the binding modes of three amino acids (Asp, Lys, and Val) with SO2 are studied comprehensively and in detail using quantum chemical calculations. The results indicate that each amino acid has multiple binding modes: 22 for Asp, 49 for Lys, and 10 for Val. Both the amino and carboxyl groups in amino acids, as well as those in side chains, can serve as binding sites for chalcogen bonds. The binding energies range from - 6.42 to - 1.06 kcal/mol for Asp, - 12.43 to - 1.63 kcal/mol for Lys, and - 7.42 to - 0.60 kcal/mol for Val. Chalcogen and hydrogen bonds play a crucial role in the stronger binding modes. The chalcogen bond is the strongest when interacting with an amino group, with an adiabatic force constant of 0.475 mDyn/Å. Energy decomposition analysis indicates that the interaction is primarily electrostatic attraction, with the orbital and dispersive interactions dependent on the binding mode. METHODS Amino acids and complexes of amino acids with SO2 were used to do semi-empirical MD using Molclus combined with xtb at the GFN2 level. Optimization and frequency calculations of the structures were conducted using density-functional theory (DFT) B3LYP/6-311G* (with DFT-D3 correction). Single-point energy calculations were performed for all structures using DLPNO-CCSD(T)/aug-cc-pVTZ with tightPNO. Further analysis of the structures was conducted using ESP, AIM, IGMH, and sob-EDA to gain a deeper understanding of the interactions between amino acids and SO2.
Collapse
Affiliation(s)
- Yue Yang
- College of Food Science and Technology, Shanghai Ocean University, No. 999 Hucheng Huan Road, LinGang New City, Shanghai, 201306, People's Republic of China
| | - Jialing Yu
- College of Oceanography and Ecological Science, Shanghai Ocean University, No. 999 Hucheng Huan Road, LinGang New City, Shanghai, 201306, People's Republic of China
| | - Xiankai Jiang
- School of Sciences, Changzhou Institute of Technology, Changzhou, 213032, People's Republic of China
| | - Keqiang Lai
- College of Food Science and Technology, Shanghai Ocean University, No. 999 Hucheng Huan Road, LinGang New City, Shanghai, 201306, People's Republic of China
| | - Junjian Miao
- College of Food Science and Technology, Shanghai Ocean University, No. 999 Hucheng Huan Road, LinGang New City, Shanghai, 201306, People's Republic of China.
| |
Collapse
|
3
|
Peng J, Wang L, Wang P, Pei Y. Density Functional Theory Computation and Machine Learning Studies of Interaction between Au 3 Clusters and 20 Natural Amino Acid Molecules. ACS OMEGA 2023; 8:23024-23031. [PMID: 37396243 PMCID: PMC10308543 DOI: 10.1021/acsomega.3c02195] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/01/2023] [Accepted: 05/17/2023] [Indexed: 07/04/2023]
Abstract
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.
Collapse
Affiliation(s)
- Jiao Peng
- Department
of Chemistry, Key Laboratory for Green Organic Synthesis and Application
of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry
and Applications of Ministry of Education, Xiangtan University, Xiangtan, Hunan 411105, China
| | - Li Wang
- Department
of Chemistry, Key Laboratory for Green Organic Synthesis and Application
of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry
and Applications of Ministry of Education, Xiangtan University, Xiangtan, Hunan 411105, China
| | - Pu Wang
- Department
of Chemistry, Key Laboratory for Green Organic Synthesis and Application
of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry
and Applications of Ministry of Education, Xiangtan University, Xiangtan, Hunan 411105, China
| | - Yong Pei
- Department
of Chemistry, Key Laboratory for Green Organic Synthesis and Application
of Hunan Province, Key Laboratory of Environmentally Friendly Chemistry
and Applications of Ministry of Education, Xiangtan University, Xiangtan, Hunan 411105, China
- School
of Minerals Processing and Bioengineering, Central South University, Changsha, Hunan 410083, China
- State
Key Laboratory of Complex Nonferrous Metal Resources Clean Utilization, Kunming 650093, China
| |
Collapse
|
4
|
Sarvar M, Shafaei Tonkaboni Z, Noaparast M, Badiei AR, Amiri A. Application of amino acids for gold leaching: Effective parameters and the role of amino acid structure. JOURNAL OF CLEANER PRODUCTION 2023; 391:136123. [DOI: 10.1016/j.jclepro.2023.136123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/20/2023]
|
5
|
Bahota AS, Singh KK, Kumar R, Tandon P. Ab-initio simulation of the interaction of gold nanoclusters with glycine. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133447] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
|
6
|
Gao SS, Zhang J, Yin K, Chen YL, He YZ, Li T, Chen LS, Zeng YY, Zheng WX, Ni CL, Liu W, Zhang YM. Syntheses, crystal structures, optical properties, antibacterial activity and DFT calculations of two substituted benzyl triphenylphosphinium picrates. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
7
|
Vu Nhat P, Si NT, Tien NT, Nguyen MT. Theoretical Study of the Binding of the Thiol-Containing Cysteine Amino Acid to the Silver Surface Using a Cluster Model. J Phys Chem A 2021; 125:3244-3256. [PMID: 33861072 DOI: 10.1021/acs.jpca.0c11182] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
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 Agn 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.
Collapse
Affiliation(s)
- Pham Vu Nhat
- Department of Chemistry, Can Tho University, Can Tho 900000, Vietnam
| | - Nguyen Thanh Si
- Computational Chemistry Research Group, Ton Duc Thang University, Ho Chi Minh City 700000, Vietnam.,Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City 700000, Vietnam
| | | | - Minh Tho Nguyen
- Computational Chemistry Research Group, Ton Duc Thang University, Ho Chi Minh City 700000, Vietnam.,Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City 700000, Vietnam
| |
Collapse
|
8
|
Lin N, Li S, Chen X, Song J, Ge Y, Wu X, Zhang H, Wu B. Three Sulfur-Containing Natural Products From Rubus Hirsutus Thunb. Nat Prod Commun 2021. [DOI: 10.1177/1934578x211011383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Chemical investigation of the leaves and stems of Rubus hirsutus Thunb has resulted in the isolation and characterization of a rare new tricyclic thienocyclopentapyran (1) and 2 known thiophenes, 5-(3-buten-1-ynul)−2,2’-bithiophene (2) and α-terthienyl (3). The structure of compound 1 was unambiguously determined by nuclear magnetic resonance (NMR) spectroscopy, mass spectrometry and time-dependent density functional theory electronic circular dichroism calculations. The new compound 1 exhibited impressive antibiotic properties against methicillin resistant Staphylococcus aureus (MRSA), with an MIC value of around 1 µg/mL.
Collapse
Affiliation(s)
- Na Lin
- Lishui Hospital of Traditional Chinese Medicine, Lishui, China
- Ocean College, Zhejiang University, Zhoushan, China
| | - Sihui Li
- Ocean College, Zhejiang University, Zhoushan, China
| | - Xuexia Chen
- Ocean College, Zhejiang University, Zhoushan, China
| | - Jianfeng Song
- Quzhou Institute for Food and Drug Control, Quzhou, China
| | - Yichao Ge
- Ocean College, Zhejiang University, Zhoushan, China
| | - Xiaodan Wu
- Center of Analysis and Measurement, Zhejiang University, Hangzhou, China
| | - Huifang Zhang
- Jinhua College of Vocation and Technology, Jinhua, China
| | - Bin Wu
- Ocean College, Zhejiang University, Zhoushan, China
| |
Collapse
|
9
|
Pem B, Toma M, Vrček V, Vinković Vrček I. Combined NMR and Computational Study of Cysteine Oxidation during Nucleation of Metallic Clusters in Biological Systems. Inorg Chem 2021; 60:4144-4161. [PMID: 33657797 DOI: 10.1021/acs.inorgchem.1c00321] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
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.
Collapse
Affiliation(s)
- Barbara Pem
- Institute for Medical Research and Occupational Health, Ksaverska cesta 2, 10000 Zagreb, Croatia
| | - Mateja Toma
- Faculty of Pharmacy and Biochemistry, University of Zagreb, Ante Kovačića 1, 10000 Zagreb, Croatia
| | - Valerije Vrček
- Faculty of Pharmacy and Biochemistry, University of Zagreb, Ante Kovačića 1, 10000 Zagreb, Croatia
| | - Ivana Vinković Vrček
- Institute for Medical Research and Occupational Health, Ksaverska cesta 2, 10000 Zagreb, Croatia
| |
Collapse
|
10
|
DFT study of cyclic glycine-alanine dipeptide binding to gold nanoclusters. J Mol Graph Model 2020; 103:107823. [PMID: 33373854 DOI: 10.1016/j.jmgm.2020.107823] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 11/10/2020] [Accepted: 12/05/2020] [Indexed: 12/21/2022]
Abstract
In this work, we studied the interactions between cyclic glycine-alanine dipeptide c(GA) and gold nanoclusters (AunNCs, 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 AunNCs was found to be greater than that of glycine residue. Two types of interactions were exhibited between the AunNCs 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 (ΔEbind) values of the c(GA)-AunNCs complexes in gas and water implicit solvent were compared with those previously published for cyclic glycine-glycine DP-AunNCs complexes. It was found that the ΔEbind values of the former complexes are greater than those of latter ones in water solvent.
Collapse
|
11
|
Yadav S, Springborg M, Singhal S, Molayem M, Goel N. Mechanistic Details and Conformational Behavior of Selective Peptide Linkage Facilitated by Au nClusters. ChemistrySelect 2020. [DOI: 10.1002/slct.202001564] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Sarita Yadav
- Theoretical and Computational Chemistry Group Department of Chemistry Centre of Advanced Studies in Chemistry Panjab University Chandigarh 160014 India
| | - Michael Springborg
- Physical and Theoretical Chemistry University of Saarland Saarbrücken Germany
- School of Materials Science and Engineering Tianjin University Tianjin 300072 China
| | - Sonal Singhal
- Theoretical and Computational Chemistry Group Department of Chemistry Centre of Advanced Studies in Chemistry Panjab University Chandigarh 160014 India
| | - Mohammad Molayem
- Physical and Theoretical Chemistry University of Saarland Saarbrücken Germany
| | - Neetu Goel
- Theoretical and Computational Chemistry Group Department of Chemistry Centre of Advanced Studies in Chemistry Panjab University Chandigarh 160014 India
| |
Collapse
|
12
|
Optoplasmonic characterisation of reversible disulfide interactions at single thiol sites in the attomolar regime. Nat Commun 2020; 11:2043. [PMID: 32341342 PMCID: PMC7184569 DOI: 10.1038/s41467-020-15822-8] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2020] [Accepted: 03/26/2020] [Indexed: 12/14/2022] Open
Abstract
Probing individual chemical reactions is key to mapping reaction pathways. Trace analysis of sub-kDa reactants and products is obfuscated by labels, however, as reaction kinetics are inevitably perturbed. The thiol-disulfide exchange reaction is of specific interest as it has many applications in nanotechnology and in nature. Redox cycling of single thiols and disulfides has been unresolvable due to a number of technological limitations, such as an inability to discriminate the leaving group. Here, we demonstrate detection of single-molecule thiol-disulfide exchange using a label-free optoplasmonic sensor. We quantify repeated reactions between sub-kDa thiolated species in real time and at concentrations down to 100’s of attomolar. A unique sensing modality is featured in our measurements, enabling the observation of single disulfide reaction kinetics and pathways on a plasmonic nanoparticle surface. Our technique paves the way towards characterising molecules in terms of their charge, oxidation state, and chirality via optoplasmonics. Visualising single-molecule reactions, to understand their mechanisms, is a challenging task. Here, the authors investigate disulfide exchange reactions with thiolates immobilised on a gold nanoparticle through a label-free optoplasmonic sensor, and detect individual disulfide interactions in solution
Collapse
|
13
|
Taha M, Lee MJ. Influence of the alanine side-chain methyl group on the peptide-gold nanoparticles interactions. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.112528] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
|
14
|
Nhat PV, Nguyen PTN, Si NT. A computational study of thiol-containing cysteine amino acid binding to Au 6 and Au 8 gold clusters. J Mol Model 2020; 26:58. [PMID: 32055987 DOI: 10.1007/s00894-020-4312-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2019] [Accepted: 01/27/2020] [Indexed: 12/23/2022]
Abstract
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.
Collapse
Affiliation(s)
- Pham Vu Nhat
- Department of Chemistry, Can Tho University, Can Tho, Vietnam
| | - Pham Tran Nguyen Nguyen
- Institute for Computational Science and Technology, Ho Chi Minh City, Vietnam
- Computational Chemistry Lab, Faculty of Chemistry, VNUHCM-University of Sciences, Ho Chi Minh City, Vietnam
| | - Nguyen Thanh Si
- Faculty of Applied Sciences, Ton Duc Thang University, Ho Chi Minh City, 700000, Vietnam.
- Computational Chemistry Research Group, Ton Duc Thang University, Ho Chi Minh City, 700000, Vietnam.
| |
Collapse
|
15
|
Exploring the intermolecular interaction of serine and threonine dipeptides with gold nanoclusters and nanoparticles of different shapes and sizes by quantum mechanics and molecular simulations. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2019.111903] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
|
16
|
Umar Ndagi, Lawal MM, Soliman ME. DFT Study of the Structural and Electronic Properties of Selected Organogold(III) Compounds with Characteristic Anticancer Activity. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY A 2019. [DOI: 10.1134/s0036024419080302] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
17
|
Qin S, Ma LY, Sun X, Mao X, Xu L. Hierarchically porous poly(ethylenimine) modified poly(styrene-co-divinylbenzene) microspheres for the adsorption of gold nanoparticles and simultaneously being transformed as the nanoparticles immobilized catalyst. JOURNAL OF HAZARDOUS MATERIALS 2019; 366:529-537. [PMID: 30572292 DOI: 10.1016/j.jhazmat.2018.12.033] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2018] [Revised: 12/09/2018] [Accepted: 12/10/2018] [Indexed: 06/09/2023]
Abstract
With the extensive applications of gold nanoparticles (AuNPs) and the confirmation of their toxicity on human health and environment, it was urgent to remove AuNPs from environment. The hierarchically porous poly(ethylenimine) modified poly(styrene-co-divinylbenzene) microsphere (PEI-PS-DVB) was prepared and characterized by scanning electron microscopy, X-ray diffraction, transform infrared spectrometry, energy dispersive X-ray spectrometry, elemental analysis, contact angle, zeta potential analysis, N2 adsorption-desorption and mercury intrusion porosimetry. PEI-PS-DVB possessed abundant flow-through pores (70-120 nm) and meso/micropores (<50 nm); the former pores enabled full availability of the adsorbent to relatively large adsorbate, i.e. AuNPs, with fast mass transfer, while the latter ones ensured large surface area for high adsorption capacity. Thanks to its plentiful nitrogen and special hierarchical pores, PEI-PS-DVB was suitable for the adsorption of AuNPs by electrostatic interaction and special affinity between nitrogen and Au. The adsorption obeyed the pseudo-first-order kinetic and Langmuir isotherm models. The maximum adsorption capacity based on Langmuir model was 806.5 mg/g. Moreover, PEI-PS-DVB adsorbing AuNPs could be the efficient catalyst for the reduction of 4-nitrophenol with satisfactory reusability. The developed hierarchically porous PEI-PS-DVB was a promising adsorbent for AuNPs with high adsorption capacity, and recycling usage of waste AuNPs conformed to the green and sustainable concept.
Collapse
Affiliation(s)
- Si Qin
- Tongji School of Pharmacy, Huazhong University of Science and Technology, Wuhan 430030, China
| | - Li-Yun Ma
- Department of Pharmacy, Union Hospital of Huazhong University of Science and Technology, Wuhan 430022, China
| | - Xiao Sun
- Tongji School of Pharmacy, Huazhong University of Science and Technology, Wuhan 430030, China
| | - Xiaojing Mao
- Tongji School of Pharmacy, Huazhong University of Science and Technology, Wuhan 430030, China
| | - Li Xu
- Tongji School of Pharmacy, Huazhong University of Science and Technology, Wuhan 430030, China.
| |
Collapse
|
18
|
Auckloo BN, Pan C, Akhter N, Wu B, Wu X, He S. Stress-Driven Discovery of Novel Cryptic Antibiotics from a Marine Fungus Penicillium sp. BB1122. Front Microbiol 2017; 8:1450. [PMID: 28824581 PMCID: PMC5540946 DOI: 10.3389/fmicb.2017.01450] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Accepted: 07/17/2017] [Indexed: 11/13/2022] Open
Abstract
Standard laboratory cultures have long been known to hinder activation of specific gene clusters which in turn hamper production of secondary metabolites with unique properties due to lack of innovation or the inability to trigger cryptic gene clusters’ expression. Due to challenges related to the avoidance of the isolation of replicated metabolites, resistance-developing pathogens are to be addressed by the scientific community worldwide in order to progress with novel and potent compounds which could further be developed in the future for pharmaceutical usage. This study reports the isolation of novel cryptic antibiotics from a marine fungus Penicillium sp. BB1122 collected from Zhoushan coast by applying the “metal-stress” strategy, here referring to the heavy metal cobalt (6 mM). High-performance liquid chromatography-guided isolation of four novel and four known compounds belonging to the polyketide class has been carried out where their relative as well as absolute configurations have been determined using spectroscopic analysis techniques as well as by the comparison of theoretically calculated ECD spectrum and the experimental ECD spectrum, respectively. The structures of novel compounds 7 and 8 represent the first example of 2,5-dioxabicyclo[2.2.1]heptane pyrone backbone bearing a migrated polyene chain. The novel compounds 7, 8, and 5 exhibited impressive antibiotic properties against methicillin resistant Staphylococcus aureus (MRSA) with MIC value of around 0.5 and 1 μg/mL, respectively. Moreover, the new compounds 1, 7, and 8 displayed potent antibiotic activities with MIC values of around 4 μg/mL against the pathogenic Pseudomonas aeruginosa. Moreover, the MBC of the different potent compounds ranged from 1 to 128 μg/mL against MRSA, P. aeruginosa, and Klebsiella pneumoniae. In addition, the cytotoxic activities were also evaluated where new antibiotics 7 and 8 were not obviously harmful toward normal liver cell lines LO2, showing IC50 values above 100 μg/mL. As a consequence, the results from this study unveiled that cobalt stress is an effective strategy to discover novel antibiotics from microorganisms.
Collapse
Affiliation(s)
| | | | | | - Bin Wu
- Ocean College, Zhejiang UniversityHangzhou, China
| | - Xiaodan Wu
- Center of Analysis and Measurement, Zhejiang UniversityHangzhou, China
| | - Shan He
- Laboratory of Marine Natural Products, School of Marine Sciences, Ningbo UniversityNingbo, China
| |
Collapse
|
19
|
Charchar P, Christofferson AJ, Todorova N, Yarovsky I. Understanding and Designing the Gold-Bio Interface: Insights from Simulations. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 12:2395-418. [PMID: 27007031 DOI: 10.1002/smll.201503585] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2015] [Revised: 02/01/2016] [Indexed: 05/20/2023]
Abstract
Gold nanoparticles (AuNPs) are an integral part of many exciting and novel biomedical applications, sparking the urgent need for a thorough understanding of the physicochemical interactions occurring between these inorganic materials, their functional layers, and the biological species they interact with. Computational approaches are instrumental in providing the necessary molecular insight into the structural and dynamic behavior of the Au-bio interface with spatial and temporal resolutions not yet achievable in the laboratory, and are able to facilitate a rational approach to AuNP design for specific applications. A perspective of the current successes and challenges associated with the multiscale computational treatment of Au-bio interfacial systems, from electronic structure calculations to force field methods, is provided to illustrate the links between different approaches and their relationship to experiment and applications.
Collapse
Affiliation(s)
- Patrick Charchar
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | | | - Nevena Todorova
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | - Irene Yarovsky
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| |
Collapse
|
20
|
Computer Simulation Study of the Interactions Between Gold Clusters and Glutamate in Aqueous Solution. J SOLUTION CHEM 2015. [DOI: 10.1007/s10953-015-0387-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
|
21
|
Zhang X, Sun CQ, Hirao H. Guanine binding to gold nanoparticles through nonbonding interactions. Phys Chem Chem Phys 2013; 15:19284-92. [DOI: 10.1039/c3cp52149d] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
22
|
Schmidbaur H, Raubenheimer HG, Dobrzańska L. The gold-hydrogen bond, Au-H, and the hydrogen bond to gold, Au∙∙∙H-X. Chem Soc Rev 2013; 43:345-80. [PMID: 23999756 DOI: 10.1039/c3cs60251f] [Citation(s) in RCA: 165] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
In the first part of this review, the characteristics of Au-H bonds in gold hydrides are reviewed including the data of recently prepared stable organometallic complexes with gold(I) and gold(III) centers. In the second part, the reports are summarized where authors have tried to provide evidence for hydrogen bonds to gold of the type Au∙∙∙H-X. Such interactions have been proposed for gold atoms in the Au(-I), Au(0), Au(I), and Au(III) oxidation states as hydrogen bonding acceptors and H-X units with X = O, N, C as donors, based on both experimental and quantum chemistry studies. To complement these findings, the literature was screened for examples with similar molecular geometries, for which such bonding has not yet been considered. In the discussion of the results, the recently issued IUPAC definitions of hydrogen bonding and the currently accepted description of agostic interactions have been used as guidelines to rank the Au∙∙∙H-X interactions in this broad range of weak chemical bonding. From the available data it appears that all the intra- and intermolecular Au∙∙∙H-X contacts are associated with very low binding energies and non-specific directionality. To date, the energetics have not been estimated, because there are no thermochemical and very limited IR/Raman and temperature-dependent NMR data that can be used as reliable references. Where conspicuous structural or spectroscopic effects have been observed, explanations other than hydrogen bonding Au∙∙∙H-X can also be advanced in most cases. Although numerous examples of short Au∙∙∙H-X contacts exist in the literature, it seems, at this stage, that these probably make only very minor contributions to the energy of a given system and have only a marginal influence on molecular conformations which so far have most often attracted researchers to this topic. Further, more dedicated investigations will be necessary before well founded conclusions can be drawn.
Collapse
Affiliation(s)
- Hubert Schmidbaur
- Department Chemie, Technische Universität München, Garching, Germany.
| | | | | |
Collapse
|
23
|
Zhao Y, Zhou F, Zhou H, Su H. The structural and bonding evolution in cysteine–gold cluster complexes. Phys Chem Chem Phys 2013; 15:1690-8. [DOI: 10.1039/c2cp42830j] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
|
24
|
Rai S, Singh H. Electronic structure theory based study of proline interacting with gold nano clusters. J Mol Model 2012; 19:4099-109. [DOI: 10.1007/s00894-012-1711-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2012] [Accepted: 11/26/2012] [Indexed: 11/28/2022]
|
25
|
Javan MJ, Jamshidi Z, Tehrani ZA, Fattahi A. Interactions of coinage metal clusters with histidine and their effects on histidine acidity; theoretical investigation. Org Biomol Chem 2012; 10:9373-82. [PMID: 23108513 DOI: 10.1039/c2ob25711d] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Understanding the nature of interaction between metal nanoparticles and biomolecules such as amino acids is important in the development and design of biosensors. In this paper, binding of M(3) clusters (M = Au, Ag and Cu) with neutral and anionic forms of histidine amino acid was studied using density functional theory (DFT-B3LYP). It was found that the interaction of histidine with M(3) clusters is governed by two major bonding factors: (a) the anchoring N-M and O-M bonds and (b) the nonconventional N-H···M and O-H···M hydrogen bonds. The nature of these chemical bonds has been investigated based on quantum theory of atoms in molecules (QTAIM) and natural bond orbital (NBO) analyses. In the next step, the effects of Au, Ag and Cu metal clusters on the gas-phase acidity of weak organic acid (histidine) have been explored. The acidity of isolated histidine was compared with the acidity of its Au(3)-, Ag(3)- and Cu(3)-complexed species. Results indicate that upon complexation with M(3) clusters (at 298 K), the gas-phase acidity (GPA) of histidine varies from 339.5 to 312.3, 315.0, and 313.7 kcal mol(-1) for Au(3)-, Ag(3)- and Cu(3)-His complexes, respectively (i.e., its dissociation becomes much less endothermic). These values indicate that a weak organic acid can be converted to a super acid when it is complexed with metal clusters. Also, in order to investigate the acidity value of the imidazole moiety in histidine, histidine methyl ester (His-OMe) was selected. Similarly, the acidity of this compound was compared with the acidity of their Au(3), Ag(3) and Cu(3)-complexed species. After complexation with M(3) clusters at 298 K, the gas-phase acidity (GPA) of His-OMe varies from 333.0 to 280.0, 304.2 and 291.5 kcal mol(-1), respectively. Moreover, pK(a) values were determined in water for isolated and complexed species of His and His-OMe. The resulting pK(a) values were found to decrease upon complexation with M(3) clusters.
Collapse
Affiliation(s)
- Marjan Jebeli Javan
- Department of Chemistry, Sharif University of Technology, P.O. Box: 11365-9516, Tehran, Iran
| | | | | | | |
Collapse
|