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Song H, Jeong S, Nam K. Identification of strontium substitution mechanism in hematite via calcium solution. CHEMOSPHERE 2023; 340:139925. [PMID: 37619756 DOI: 10.1016/j.chemosphere.2023.139925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 08/17/2023] [Accepted: 08/21/2023] [Indexed: 08/26/2023]
Abstract
Nonradioactive strontium (Sr) are produced as a result of radioactive decay of heavier elements such as uranium and thorium. Nonradioactive Sr shares physicochemical similarities with Ca and can replace it during bone formation, which may cause bone cancer in humans. Hence, concerning the potential hazards associated with strontium, it is imperative to eliminate it. The present study aimed to investigate the removal mechanisms of hematite-adsorbed strontium by calcium solution. Strontium was adsorbed to hematite at pH 8 and 10 and washed with calcium solution. X-ray absorption near-edge structure (XANES), extended X-ray absorption fine structure (EXAFS), scanning electron microscopy, X-ray diffraction (XRD), and X-ray photoelectron spectroscopy (after Ca washing) were performed on the samples before and after washing. Analyses and fitting by XANES and EXAFS confirmed the formation of an inner-sphere complex of strontium at pH 10. The XRD spectra showed that SrCO3 and SrFe2O4 formed at pH 8 and 10, respectively. After washing with the calcium solution, strontium was directly substituted to form CaCO3 and CaFe2O4. The X-ray photoelectron spectroscopy results provided a systematic analysis of the proportions of hematite and strontium, confirming the substitution of strontium with calcium. This substitution could be attributed to the physicochemical similarities between calcium and strontium. This study confirms the substitution of Sr with Ca, highlighting the physicochemical similarity of the Sr and Ca that facilitates substitution reactions.
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Affiliation(s)
- Hojae Song
- Department of Civil and Environmental Engineering, Seoul National University, Gwanak-ro 1, Gwanak-gu, Seoul, 08826, South Korea
| | - Seulki Jeong
- Department of Environment and Energy, Sejong University, Neungdong-ro 209, Gwangjin-gu, Seoul, 05006, South Korea
| | - Kyoungphile Nam
- Department of Civil and Environmental Engineering, Seoul National University, Gwanak-ro 1, Gwanak-gu, Seoul, 08826, South Korea.
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2
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Kircheva N, Dobrev S, Petkova V, Bakalova S, Kaneti J, Angelova S. Theoretical Assessment of the Ligand/Metal/Quadruplex Recognition in the Non-Canonical Nucleic Acids Structures. Molecules 2023; 28:6109. [PMID: 37630360 PMCID: PMC10459790 DOI: 10.3390/molecules28166109] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2023] [Revised: 08/11/2023] [Accepted: 08/14/2023] [Indexed: 08/27/2023] Open
Abstract
Quadruplexes (GQs), peculiar DNA/RNA motifs concentrated in specific genomic regions, play a vital role in biological processes including telomere stability and, hence, represent promising targets for anticancer therapy. GQs are formed by folding guanine-rich sequences into square planar G-tetrads which stack onto one another. Metal cations, most often potassium, further stabilize the architecture by coordinating the lone electron pairs of the O atoms. The presence of additional nucleic acid bases, however, has been recently observed experimentally and contributes substantially to the structural heterogeneity of quadruplexes. Therefore, it is of paramount significance to understand the factors governing the underlying complex processes in these structures. The current study employs DFT calculations to model the interactions between metal cations (K+, Na+, Sr2+) and diverse tetrads composed of a guanine layer in combination with a guanine (G)-, adenine (A)-, cytosine (C)-, thymine (T)-, or uracil (U)-based tetrad layer. Moreover, the addition of 4-(3,4-dihydroisoquinolin-2-yl)-2-(quinolin-2-yl)quinazoline to the modeled quadruplexes as a possible mechanism of its well-exerted antitumor effect is assessed. The calculations imply that the metal cation competition and ligand complexation are influenced by the balance between electronic and implicit/explicit solvation effects, the composition of the tetrad layers, as well as by the solvent exposure to the surrounding environment expressed in terms of different dielectric constant values. The provided results significantly enhance our understanding of quadruplex diversity, ligand recognition, and the underlying mechanisms of stabilization at an atomic level.
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Affiliation(s)
- Nikoleta Kircheva
- Institute of Optical Materials and Technologies “Acad. J. Malinowski”, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (N.K.); (S.D.); (V.P.)
| | - Stefan Dobrev
- Institute of Optical Materials and Technologies “Acad. J. Malinowski”, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (N.K.); (S.D.); (V.P.)
| | - Vladislava Petkova
- Institute of Optical Materials and Technologies “Acad. J. Malinowski”, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (N.K.); (S.D.); (V.P.)
| | - Snezhana Bakalova
- Institute of Organic Chemistry with Centre of Phytochemistry, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (S.B.); (J.K.)
| | - Jose Kaneti
- Institute of Organic Chemistry with Centre of Phytochemistry, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (S.B.); (J.K.)
| | - Silvia Angelova
- Institute of Optical Materials and Technologies “Acad. J. Malinowski”, Bulgarian Academy of Sciences, 1113 Sofia, Bulgaria; (N.K.); (S.D.); (V.P.)
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Pappalardo RR, Caralampio DZ, Martínez JM, Sánchez Marcos E. Hydration of Heavy Alkaline-Earth Cations Studied by Molecular Dynamics Simulations and X-ray Absorption Spectroscopy. Inorg Chem 2021; 60:13578-13587. [PMID: 34387993 PMCID: PMC8512670 DOI: 10.1021/acs.inorgchem.1c01888] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The physicochemical properties of the three heaviest alkaline-earth cations, Sr2+, Ba2+, and Ra2+ in water have been studied by means of classical molecular dynamics (MD) simulations. A specific set of cation-water intermolecular potentials based on ab initio potential energy surfaces has been built on the basis of the hydrated ion concept. The polarizable and flexible model of water MCDHO2 was adopted. The theoretical-experimental comparison of structural, dynamical, energetic, and spectroscopical properties of Sr2+ and Ba2+ aqueous solutions is satisfactory, which supports the methodology developed. This good behavior allows a reasonable reliability for the predicted Ra2+ physicochemical data not experimentally determined yet. Simulated extended X-ray absorption fine-structure (EXAFS) and X-ray absorption near-edge spectroscopy spectra have been computed from the snapshots of the MD simulations and compared with the experimental information available for Sr2+ and Ba2+. For the Ra2+ case, the Ra L3-edge EXAFS spectrum is proposed. Structural and dynamical properties of the aqua ions for the three cations have been obtained and analyzed. Along the [M(H2O)n]m+ series, the M-O distance for the first-hydration shell is 2.57, 2.81, and 2.93 Å for Sr2+, Ba2+, and Ra2+, respectively. The hydration number also increases when one is going down along the group: 8.1, 9.4, and 9.8 for Sr2+, Ba2+, and Ra2+, respectively. Whereas [Sr(H2O)8]2+ is a typical aqua ion with a well-defined structure, the Ba2+ and Ra2+ hydration provides a picture exhibiting an average between the ennea- and the deca-hydration. These results show a similar chemical behavior of Ba2+ and Ra2+ aqueous solutions and support experimental studies on the removal of Ra-226 of aquifers by different techniques, where Ra2+ is replaced by Ba2+. A comparison of the heavy alkaline ions, Rb+ and Cs+, with the heavy alkaline-earth ions is made.
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Affiliation(s)
- Rafael R Pappalardo
- Department of Physical Chemistry, University of Seville, 41012 Seville, Seville, Spain
| | - Daniel Z Caralampio
- Department of Physical Chemistry, University of Seville, 41012 Seville, Seville, Spain
| | - José M Martínez
- Department of Physical Chemistry, University of Seville, 41012 Seville, Seville, Spain
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Shi R, Zhao Z, Huang X, Wang P, Su Y, Sai L, Liang X, Han H, Zhao J. Ground-State Structures of Hydrated Calcium Ion Clusters From Comprehensive Genetic Algorithm Search. Front Chem 2021; 9:637750. [PMID: 34277560 PMCID: PMC8277924 DOI: 10.3389/fchem.2021.637750] [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: 12/04/2020] [Accepted: 06/02/2021] [Indexed: 12/03/2022] Open
Abstract
We searched the lowest-energy structures of hydrated calcium ion clusters Ca2+(H2O)n (n = 10-18) in the whole potential energy surface by the comprehensive genetic algorithm (CGA). The lowest-energy structures of Ca2+(H2O)10-12 clusters show that Ca2+ is always surrounded by six H2O molecules in the first shell. The number of first-shell water molecules changes from six to eight at n = 12. In the range of n = 12-18, the number of first-shell water molecules fluctuates between seven and eight, meaning that the cluster could pack the water molecules in the outer shell even though the inner shell is not full. Meanwhile, the number of water molecules in the second shell and the total hydrogen bonds increase with an increase in the cluster size. The distance between Ca2+ and the adjacent water molecules increases, while the average adjacent O-O distance decreases as the cluster size increases, indicating that the interaction between Ca2+ and the adjacent water molecules becomes weaker and the interaction between water molecules becomes stronger. The interaction energy and natural bond orbital results show that the interaction between Ca2+ and the water molecules is mainly derived from the interaction between Ca2+ and the adjacent water molecules. The charge transfer from the lone pair electron orbital of adjacent oxygen atoms to the empty orbital of Ca2+ plays a leading role in the interaction between Ca2+ and water molecules.
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Affiliation(s)
- Ruili Shi
- School of Mathematics and Physics, Hebei University of Engineering, Handan, China
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams, Ministry of Education, Dalian University of Technology, Dalian, China
| | - Zhi Zhao
- School of Mathematics and Physics, Hebei University of Engineering, Handan, China
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams, Ministry of Education, Dalian University of Technology, Dalian, China
| | - Xiaoming Huang
- School of Ocean Science and Technology, Dalian University of Technology, Panjin Campus, Panjin, China
| | - Pengju Wang
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams, Ministry of Education, Dalian University of Technology, Dalian, China
| | - Yan Su
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams, Ministry of Education, Dalian University of Technology, Dalian, China
| | - Linwei Sai
- Department of Mathematics and Physics, Hohai University, Changzhou, China
| | - Xiaoqing Liang
- School of Electronics and Information Engineering, Taizhou University, Taizhou, China
| | - Haiyan Han
- School of Mathematics and Physics, Hebei University of Engineering, Handan, China
| | - Jijun Zhao
- Key Laboratory of Materials Modification by Laser, Ion and Electron Beams, Ministry of Education, Dalian University of Technology, Dalian, China
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5
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Smirnov PR. Structural Parameters of the Nearest Surrounding of Group II
Metal Ions in Oxygen-Containing Solvents. RUSS J GEN CHEM+ 2021. [DOI: 10.1134/s1070363221030129] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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6
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Lynes O, Austin J, Kerridge A. Ab initio molecular dynamics studies of hydroxide coordination of alkaline earth metals and uranyl. Phys Chem Chem Phys 2019; 21:13809-13820. [PMID: 31210212 DOI: 10.1039/c9cp00142e] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Ab initio molecular dynamics (AIMD) simulations of the Mg2+, Ca2+, Sr2+ and UO22+ ions in either a pure aqueous environment or an environment containing two hydroxide ions have been carried out at the density functional level of theory, employing the generalised gradient approximation via the PBE exchange-correlation functional. Calculated mean M-O bond lengths in the first solvation shell of the aquo systems compared very well to existing experimental and computational literature, with bond lengths well within values measured previously and coordination numbers in line with previously calculated values. When applied to systems containing additional hydroxide ions, the methodology revealed increased bond lengths in all systems. Proton transfer events (PTEs) were recorded and were found to be most prevalent in the strontium hydroxide systems, likely due to the low charge density of the ion and the consequent lack of hydroxide coordination. For all alkaline earths, intrashell PTEs which occurred outside of the first solvation shell were most prevalent. Only three PTEs were identified in the entire simulation data of the uranium dihydroxide system, indicating the clear impact of the increased charge density of the hexavalent uranium ion on the strength of metal-oxygen bonds in aqueous solution. Broadly, systems containing more charge dense ions were found to exhibit fewer PTEs than those containing ions of lower charge density.
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Affiliation(s)
- Olivia Lynes
- Department of Chemistry, Faraday Building, Lancaster University, Lancaster, LA1 4YB, UK.
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7
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Sappidi P, Mir SH, Singh JK. Effect of polystyrene length for the extraction of Gd3+ and UO22+ ions using dicyclohexano crown ether (DCH18C6) with octanol and nitrobenzene: A molecular dynamics study. J Mol Liq 2018. [DOI: 10.1016/j.molliq.2018.08.133] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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8
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Khajehzadeh M, Sadeghi N. Molecular structure, the effect of solvent on UV–vis and NMR, FT–IR and FT–Raman spectra, NBO, frontier molecular orbital analysis of Mitomycin anticancer drug. J Mol Liq 2018. [DOI: 10.1016/j.molliq.2018.01.099] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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9
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Piechowicz M, Chiarizia R, Soderholm L. Insight into selectivity: uptake studies of radionuclides 90Sr2+, 137Cs+, and 233UO22+ with bis-amidoxime polymers. Dalton Trans 2018; 47:5348-5358. [DOI: 10.1039/c7dt04935h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Density functional theory and separation experiments combine to demonstrate the selectivity of bis-amidoxime polymer for uranyl extraction from aqueous solution.
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Affiliation(s)
- Marek Piechowicz
- Chemical Sciences and Engineering Division
- Argonne National Laboratory
- Argonne
- USA
- Department of Chemistry
| | - R. Chiarizia
- Chemical Sciences and Engineering Division
- Argonne National Laboratory
- Argonne
- USA
| | - L. Soderholm
- Chemical Sciences and Engineering Division
- Argonne National Laboratory
- Argonne
- USA
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10
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Zhu F, Zhou H, Fang C, Fang Y, Zhou Y, Liu H. Ab Initio Investigation of the Microspecies and Energy in Hydrated Strontium Ion Clusters. Mol Phys 2017. [DOI: 10.1080/00268976.2017.1382739] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- Fayan Zhu
- Laboratory of Salt Resources and Chemistry, Institute of Salt Lakes, Chinese Academy of Sciences, Xining, P. R. China
| | - Hongxia Zhou
- The Mechanical Engineering College, Qinghai University, Xining, P. R. China
| | - Chunhui Fang
- Laboratory of Salt Resources and Chemistry, Institute of Salt Lakes, Chinese Academy of Sciences, Xining, P. R. China
| | - Yan Fang
- Laboratory of Salt Resources and Chemistry, Institute of Salt Lakes, Chinese Academy of Sciences, Xining, P. R. China
| | - Yongquan Zhou
- Laboratory of Salt Resources and Chemistry, Institute of Salt Lakes, Chinese Academy of Sciences, Xining, P. R. China
| | - Hongyan Liu
- Laboratory of Salt Resources and Chemistry, Institute of Salt Lakes, Chinese Academy of Sciences, Xining, P. R. China
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11
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D’Angelo P, Migliorati V, Sessa F, Mancini G, Persson I. XANES Reveals the Flexible Nature of Hydrated Strontium in Aqueous Solution. J Phys Chem B 2016; 120:4114-24. [DOI: 10.1021/acs.jpcb.6b01054] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Paola D’Angelo
- Dipartimento
di Chimica, “La Sapienza” Università di Roma, P. le Aldo Moro 5, 00185 Rome, Italy
| | - Valentina Migliorati
- Dipartimento
di Chimica, “La Sapienza” Università di Roma, P. le Aldo Moro 5, 00185 Rome, Italy
| | - Francesco Sessa
- Dipartimento
di Chimica, “La Sapienza” Università di Roma, P. le Aldo Moro 5, 00185 Rome, Italy
| | - Giordano Mancini
- Scuola Normale Superiore, Piazza
dei Cavalieri 7, 56126 Pisa, Italy
| | - Ingmar Persson
- Department
of Chemistry and Biotechnology, Swedish University of Agricultural Sciences (SLU), SE-750 07 Uppsala, Sweden
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12
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Sadhu B, Sundararajan M, Bandyopadhyay T. Water-Mediated Differential Binding of Strontium and Cesium Cations in Fulvic Acid. J Phys Chem B 2015; 119:10989-97. [DOI: 10.1021/acs.jpcb.5b01659] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Biswajit Sadhu
- Radiation
Safety Systems Division, Bhabha Atomic Research Centre, Mumbai 400 085, India
| | - Mahesh Sundararajan
- Theoretical
Chemistry Section, Bhabha Atomic Research Centre, Mumbai 400 085, India
| | - Tusar Bandyopadhyay
- Theoretical
Chemistry Section, Bhabha Atomic Research Centre, Mumbai 400 085, India
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13
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Sahu P, Ali SM, Singh JK. Structural and dynamical properties of Li+-dibenzo-18-crown-6(DB18C6) complex in pure solvents and at the aqueous-organic interface. J Mol Model 2014; 20:2413. [PMID: 25129659 DOI: 10.1007/s00894-014-2413-3] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2014] [Accepted: 08/04/2014] [Indexed: 10/24/2022]
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14
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Density functional theoretical study on the preferential selectivity of macrocyclic dicyclohexano-18-crown-6 for Sr+2 ion over Th+4 ion during extraction from an aqueous phase to organic phases with different dielectric constants. J Mol Model 2013; 19:5277-91. [DOI: 10.1007/s00894-013-2015-5] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Accepted: 09/15/2013] [Indexed: 11/25/2022]
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15
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Boda A, Ali SM. From microhydration to bulk hydration of Rb+ metal ion: DFT, MP2 and AIMD simulation study. J Mol Liq 2013. [DOI: 10.1016/j.molliq.2012.12.007] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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