1
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Ligand accommodation causes altered reactivity of silver clusters with iodomethane: superatomic stability of Ag9I2+ in mimicking XeF2. Sci China Chem 2022. [DOI: 10.1007/s11426-022-1297-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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2
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Noetzel J, Schienbein P, Forbert H, Marx D. Solvation of Small Gold Clusters in Supercritical Water. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.119715] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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3
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Tho NH, Bui TQ, Si NT, Nhat PV, Nhung NTA. Structural characteristics and chemical reactivity of gold-based clusters Aun (n = 16, 17) toward lone pairs. J Mol Model 2022; 28:54. [DOI: 10.1007/s00894-022-05044-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Accepted: 01/25/2022] [Indexed: 11/22/2022]
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4
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Hang NTN, Si NT, Nguyen MT, Nhat PV. Adsorption/Desorption Behaviors and SERS Chemical Enhancement of 6-Mercaptopurine on a Nanostructured Gold Surface: The Au 20 Cluster Model. Molecules 2021; 26:5422. [PMID: 34500855 PMCID: PMC8434346 DOI: 10.3390/molecules26175422] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Revised: 08/30/2021] [Accepted: 08/31/2021] [Indexed: 01/24/2023] Open
Abstract
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.
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Affiliation(s)
- Nguyen Thi Nhat Hang
- Faculty of Food Science and Technology, Thu Dau Mot University, Thu Dau Mot 590000, Vietnam
| | - Nguyen Thanh Si
- Department of Chemistry, Can Tho University, Can Tho 900000, Vietnam
| | - Minh Tho Nguyen
- Institute for Computational Science and Technology (ICST), Ho Chi Minh City 700000, Vietnam
| | - Pham Vu Nhat
- Department of Chemistry, Can Tho University, Can Tho 900000, Vietnam
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5
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Blaško M, Pašteka LF, Urban M. DFT Functionals for Modeling of Polyethylene Chains Cross-Linked by Metal Atoms. DLPNO-CCSD(T) Benchmark Calculations. J Phys Chem A 2021; 125:7382-7395. [PMID: 34428051 DOI: 10.1021/acs.jpca.1c04793] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Density functional theory (DFT) functionals for calculations of binding energies (BEs) of the polyethylene (PE) chains cross-linked by selected metal atoms (M) are benchmarked against DLPNO-CCSD(T) and DLPNO-CCSD(T1) data. PEX-M-PEX complexes as compared with plain parallel PEX···PEX chains with X = 3-9 carbon atoms are model species characterized by a cooperative effect of covalent C-M-C bonds and interchain dispersion interactions. The accuracy of DLPNO-CC methods was assessed by a comparison of BEs with the canonical CCSD(T) results for small PE3-M-PE3 complexes. Functionals for PEX···PEX and closed-shell PEX-M-PEX complexes (M = Be, Mg, Zn) were benchmarked against DLPNO-CCSD(T) BEs; open-shell complexes (M = Li, Ag, Au) were benchmarked against the DLPNO-CCSD(T1) method with iterative triples. Three dispersion corrections were combined with 25 DFT functionals for calculations of BEs with respect to PEX-M and PEX fragments employing def2-TZVPP and def2-QZVPP basis sets. Accuracy to within 5% for the closed-shell PEX-M-PEX complexes was achieved with five functionals. Less accurate are functionals for the open-shell PEX-M-PEX complexes; only two functionals deviate by less than 15% from DLPNO-CCSD(T1). Particularly problematic were PEX-Li-PEX complexes. A reasonable overall performance across all complexes in terms of the mean absolute percentage error is found for the range-separated hybrid functionals ωB97X-D3 and CAM-B3LYP/D3(BJ)-ABC.
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Affiliation(s)
- Martin Blaško
- FunGlass, A. Dubček University of Trenčín, Študentská 2, 911 50 Trenčín, Slovakia
| | - Lukáš F Pašteka
- Department of Physical and Theoretical Chemistry, Faculty of Natural Sciences, Comenius University in Bratislava, Ilkovičova 6, 84215 Bratislava, Slovakia
| | - Miroslav Urban
- Department of Physical and Theoretical Chemistry, Faculty of Natural Sciences, Comenius University in Bratislava, Ilkovičova 6, 84215 Bratislava, Slovakia
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6
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Si NT, Nhung NTA, Bui TQ, Nguyen MT, Nhat PV. Gold nanoclusters as prospective carriers and detectors of pramipexole. RSC Adv 2021; 11:16619-16632. [PMID: 35479146 PMCID: PMC9031969 DOI: 10.1039/d1ra02172a] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2021] [Accepted: 04/27/2021] [Indexed: 02/06/2023] Open
Abstract
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.
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Affiliation(s)
- Nguyen Thanh Si
- Computational Chemistry Research Group, Ton Duc Thang University Ho Chi Minh City Vietnam
- Faculty of Applied Sciences, Ton Duc Thang University Ho Chi Minh City Vietnam
| | | | - Thanh Q Bui
- Department of Chemistry, University of Sciences, Hue University Hue Vietnam
| | - Minh Tho Nguyen
- Institute for Computational Science and Technology (ICST) Ho Chi Minh City Vietnam
| | - Pham Vu Nhat
- Department of Chemistry, Can Tho University Can Tho Vietnam
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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.
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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
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8
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Sharipov AS, Loukhovitski BI. Small atomic clusters: quantum chemical research of isomeric composition and physical properties. Struct Chem 2019. [DOI: 10.1007/s11224-019-01417-7] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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9
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Baetzold RC. Density Functional Calculations for Aqueous Silver Clusters Containing Water and Nitrate Ligands. J Phys Chem B 2019; 123:8300-8312. [PMID: 31478667 DOI: 10.1021/acs.jpcb.9b06634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The incorporation of a nitrate ion into silver-water aqueous clusters has been examined using PBE0 density functional theory with the solvent model density (SMD) solvation model. The Gibbs free energy of solvation and other thermodynamic variables are calculated using the harmonic/rigid rotor/ideal gas model at 298.15 K for aqueous solutes including the effects of solute relaxation in water and with London dispersive forces at the D3 level. Free energies of solvation for Ag+ and NO3- were found to agree well with experimental values of -118.2 and -60.1 kcal/mol, respectively, calculated using cluster-continuum models with six to eight water molecules and including solute relaxation and London D3 dispersive interactions. An analysis of data of varying cluster size upon calculated free energy is presented. A direct procedure is applied to aqueous clusters such as Agnz(NO3-)(H2O)5, Agnz(H2O)5, and (NO3-)(H2O)6 n = 1-4; z = 0, +1 in the SMD solvent representation to calculate equilibrium constants for nitrate association with silver clusters in solution that includes fully relaxed solutes. The equilibrium structures of the nitrate-containing clusters involve one or more bonds from nitrate oxygen to positive silver clusters. Water molecules interact with nitrate through H atoms, and overall, the structure represents a silver nitrate cluster with water ligands having similarity to a close ion pair in many aspects. The neutral silver atom is attached to nitrate through H-bonded water molecules. The ratio of nitrate-containing silver clusters to nitrate-free clusters using a calculated equilibrium constant of 0.51 L/mol for Ag+ is small in the range of many experiments. Similar values are found for positive silver clusters up to four atoms in size. The resulting procedures were applied to aqueous clusters of Agn(NO3)m+(n-m) that have been previously experimentally studied for silver reduction in aqueous solution. A chain-like structure with collinear and bidentate oxygen bonds to silver was found, and the equilibrium constants for clustering were determined. A simplified model calculation for the reduction of Ag(H2O)6+ clusters in the presence of silver clusters in aqueous media was studied to understand catalytic effects observed in these systems. The reduction potentials vary with silver cluster size indicating a more favorable reduction caused by the presence of larger silver clusters.
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Choi S, Lim M, Zhao Y, Yu J. Hygroscopy-induced nanoparticle reshuffling in ionic-gold-residue-stabilized gold suprananoparticles. NANOSCALE ADVANCES 2019; 1:1331-1336. [PMID: 36132621 PMCID: PMC9419271 DOI: 10.1039/c8na00302e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/23/2018] [Accepted: 02/19/2019] [Indexed: 06/15/2023]
Abstract
Polyethyleneimine (PEI)-stabilized gold nanoparticles were used as a model to understand the roles of ionic precursors in the formation of nanoparticles and the impact of their presence on the nanoparticle properties. The low availability of elemental gold and the stabilization of the just-generated gold nanoparticles by the excess gold ions contributed to the production of ultra-small nearly neutral gold nanoparticles, resulting in properties significantly different from those prepared by conventional methods. The cross-linking between gold ions/PEI/nanoparticles further led to the assembly of these small gold nanoparticles into suprananoparticles that were stable in water. The hygroscopic Au(iii) residues in the suprananoparticles absorbed moisture to form a micro-water pool and the nanoparticles in the new aqueous solution reshuffled to generate larger nanoparticles, leading to significant changes in their optical properties. Such a phenomenon was formulated into a fast, sensitive and straightforward method for the detection of water content in organic solvents.
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Affiliation(s)
- Sungmoon Choi
- Department of Chemistry Education, Seoul National University 1 Gwanak-Ro, Gwanak-Gu Seoul 08826 South Korea
| | - Minyoung Lim
- Department of Chemistry Education, Seoul National University 1 Gwanak-Ro, Gwanak-Gu Seoul 08826 South Korea
| | - Yanlu Zhao
- Department of Chemistry Education, Seoul National University 1 Gwanak-Ro, Gwanak-Gu Seoul 08826 South Korea
| | - Junhua Yu
- Department of Chemistry Education, Seoul National University 1 Gwanak-Ro, Gwanak-Gu Seoul 08826 South Korea
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11
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Eskandari K, Ebadinejad F. Metal–ligand bond directionality in the M2–NH3 complexes (M = Cu, Ag and Au). Mol Phys 2018. [DOI: 10.1080/00268976.2018.1431408] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- K. Eskandari
- Department of Chemistry, Isfahan University of Technology, Isfahan, 84156-83111, Iran
| | - F. Ebadinejad
- Department of Chemistry, Isfahan University of Technology, Isfahan, 84156-83111, Iran
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12
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Liang D, Hong J, Fang D, Bennett JW, Mason SE, Hamers RJ, Cui Q. Analysis of the conformational properties of amine ligands at the gold/water interface with QM, MM and QM/MM simulations. Phys Chem Chem Phys 2018; 20:3349-3362. [DOI: 10.1039/c7cp06709g] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We describe a strategy of integrating quantum mechanical (QM), hybrid quantum mechanical/molecular mechanical (QM/MM) and MM simulations to analyze the physical properties of a solid/water interface.
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Affiliation(s)
- Dongyue Liang
- Department of Chemistry and Theoretical Chemistry Institute
- University of Wisconsin-Madison
- Madison
- USA
| | - Jiewei Hong
- Department of Chemistry and Theoretical Chemistry Institute
- University of Wisconsin-Madison
- Madison
- USA
| | - Dong Fang
- Department of Chemistry and Theoretical Chemistry Institute
- University of Wisconsin-Madison
- Madison
- USA
| | | | - Sara E. Mason
- Department of Chemistry
- University of Iowa
- Iowa City
- USA
| | - Robert J. Hamers
- Department of Chemistry
- University of Wisconsin-Madison
- Madison
- USA
| | - Qiang Cui
- Department of Chemistry and Theoretical Chemistry Institute
- University of Wisconsin-Madison
- Madison
- USA
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13
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Liu G, Ciborowski SM, Bowen KH. Photoelectron Spectroscopic and Computational Study of Pyridine-Ligated Gold Cluster Anions. J Phys Chem A 2017; 121:5817-5822. [DOI: 10.1021/acs.jpca.7b05712] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Affiliation(s)
- Gaoxiang Liu
- Department of Chemistry, Johns Hopkins University, 3400 N. Charles Street, Baltimore, Maryland 21218, United States
| | - Sandra M. Ciborowski
- Department of Chemistry, Johns Hopkins University, 3400 N. Charles Street, Baltimore, Maryland 21218, United States
| | - Kit H. Bowen
- Department of Chemistry, Johns Hopkins University, 3400 N. Charles Street, Baltimore, Maryland 21218, United States
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14
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A comparative DFT study of interactions of Au and small gold clusters Aun (n = 2–4) with CH3S and CH2 radicals. Chem Phys Lett 2017. [DOI: 10.1016/j.cplett.2017.01.019] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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15
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Antušek A, Blaško M, Urban M, Noga P, Kisić D, Nenadović M, Lončarević D, Rakočević Z. Density functional theory modeling of C–Au chemical bond formation in gold implanted polyethylene. Phys Chem Chem Phys 2017; 19:28897-28906. [DOI: 10.1039/c7cp05637k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have studied processes of gold ion implantation in polyethylene (PE) by theoretical chemistry methods.
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Affiliation(s)
- Andrej Antušek
- Slovak University of Technology in Bratislava
- ATRI
- Faculty of Materials Science and Technology in Trnava
- 917 24 Trnava
- Slovak Republic
| | - Martin Blaško
- Department of Physical and Theoretical Chemistry
- Faculty of Natural Sciences
- Comenius University
- Mlynská dolina
- Bratislava
| | - Miroslav Urban
- Department of Physical and Theoretical Chemistry
- Faculty of Natural Sciences
- Comenius University
- Mlynská dolina
- Bratislava
| | - Pavol Noga
- Slovak University of Technology in Bratislava
- ATRI
- Faculty of Materials Science and Technology in Trnava
- 917 24 Trnava
- Slovak Republic
| | - Danilo Kisić
- University of Belgrade
- INS Vinča
- Laboratory of Atomic Physics
- Belgrade
- Serbia
| | - Miloš Nenadović
- University of Belgrade
- INS Vinča
- Laboratory of Atomic Physics
- Belgrade
- Serbia
| | - Davor Lončarević
- University of Belgrade
- Institute of Chemistry
- Technology and Metallurgy
- Serbia
| | - Zlatko Rakočević
- University of Belgrade
- INS Vinča
- Laboratory of Atomic Physics
- Belgrade
- Serbia
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