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Glasser L. The effective volumes of waters of crystallization: general organic solids. ACTA CRYSTALLOGRAPHICA SECTION B, STRUCTURAL SCIENCE, CRYSTAL ENGINEERING AND MATERIALS 2020; 76:650-653. [PMID: 32831283 DOI: 10.1107/s2052520620008719] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2019] [Accepted: 06/27/2020] [Indexed: 06/11/2023]
Abstract
Using a list of compatible hydrate/anhydrate pairs prepared by van de Streek and Motherwell [CrystEngComm (2007), 9, 55-64], we have examined the effective volume per water of crystallization for 179 pairs of organic solids using current data from the Cambridge Crystallographic Structural Database (CSD). The effective volume is the difference per water molecule between the asymmetric unit volumes of the hydrate and parent anhydrate, and has the mean value 24 Å3. The conformational changes in the reference molecule between the hydrate and its anhydrate are shown in two figures: one for a relatively rigid standard organic molecule and (in the supplementary file) one for a more flexible linear molecule. Using data from Nyman and Day [Phys. Chem. Chem. Phys. (2016), 18, 31132-31143], we have also established a generic volumetric coefficient of thermal expansion of organic solids with a value of 147 ± 56 × 10-6 K-1. There is a significant number of outliers to the data, negative, near zero, and large and positive. Some explanation for the existence of these outliers is attempted.
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Affiliation(s)
- Leslie Glasser
- Curtin Institute for Computation, Curtin University, GPO Box U1987, Perth, WA 6845, Australia
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Radha G, Pandiyan BV, Deepa P, Govindarajan S, Kolandaivel P, Nataraj D. Synthesis and Experimental Studies on Supramolecular Synthons of Aminoguanidinium Carboxylates: A Case Study of π-HoleBonded Carbon Bonding via Theoretical Approaches. ChemistrySelect 2018. [DOI: 10.1002/slct.201801492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Govindarajan Radha
- Lowdimensional materials Laboratory; Department of Physics; Bharathiar University; Coimbatore - 641 046, Tamil Nadu India
| | - Baskaran Vijaya Pandiyan
- Department of Biotechnology; Indian Institute of Technology; Chennai - 600 036, Tamil Nadu India
| | - Palanisamy Deepa
- Young Scientist (DST -SERB); Department of Physics; Manonmaniam Sundaranar University; Tirunelveli - 672012, Tamil Nadu India
| | - Subbiah Govindarajan
- Department of Chemistry; Bharathiar University; Coimbatore - 641 046, Tamil Nadu India
| | | | - Devaraj Nataraj
- Lowdimensional materials Laboratory; Department of Physics; Bharathiar University; Coimbatore - 641 046, Tamil Nadu India
- UGC-CPEPA Centre for Advanced studies in Physics for the development of Solar Energy Materials and Devices; Department of Physics; Bharathiar University; Coimbatore - 641 046, Tamil Nadu India
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Yamada S, Tokugawa Y, Nojiri Y, Takamori E. Cascade reactions in crystals through cation–π-controlled reorientation on exposure to HCl gas. Chem Commun (Camb) 2012; 48:1763-5. [DOI: 10.1039/c2cc17019a] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Laus G, Hummel M, Többens DM, Gelbrich T, Kahlenberg V, Wurst K, Griesser UJ, Schottenberger H. The 1 : 1 and 1 : 2 salts of 1,4-diazabicyclo[2.2.2]octane and bis(trifluoromethylsulfonyl)amine: thermal behaviour and polymorphism. CrystEngComm 2011. [DOI: 10.1039/c1ce05310h] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Chamayou AC, Janiak C. A >22 Å long metal-complex anion and a 1D cationic coordination polymer, both based on 4,4′-bipyridine-N,N′-dioxide, yielding a 3D and 2-fold interpenetrated fsc net of the hydrogen-bonded metal-organic 1D polymer. Inorganica Chim Acta 2010. [DOI: 10.1016/j.ica.2010.03.025] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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Marivel S, Braga D, Grepioni F, Lampronti GI. Mechanochemical preparation of adducts (co-crystals and molecular salts) of 1,4-diazabicyclo-[2.2.2]-octane with aromatic polycarboxylic acids. CrystEngComm 2010. [DOI: 10.1039/b922915a] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Baisch U, Braga D. [Yb(C2O4)4]5−– a versatile metal–organic building block for layered coordination polymers. CrystEngComm 2009. [DOI: 10.1039/b816022h] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Alkorta I, Elguero J. How Aromaticity Affects the Chemical and Physicochemical Properties of Heterocycles: A Computational Approach. TOPICS IN HETEROCYCLIC CHEMISTRY 2008. [DOI: 10.1007/978-3-540-68343-8_4] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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Rozas I, Alkorta I, Elguero J. Hydrogen bonds and ionic interactions in Guanidine/Guanidinium complexes: a computational case study. Struct Chem 2008. [DOI: 10.1007/s11224-008-9377-9] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Zhang W, Tang X, Ma H, Sun WH, Janiak C. {2-[1-(2,6-Diisopropylphenylimino)ethyl]pyridyl}palladium Dibromide Polymorphs Originating from Different Br···π and C–H···Br Contacts. Eur J Inorg Chem 2008. [DOI: 10.1002/ejic.200800260] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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Ruiz J, Rodríguez V, Cutillas N, Hoffmann A, Chamayou AC, Kazmierczak K, Janiak C. Structure–solid-state CPMAS 13C NMR correlation in palladacycle solvates (pseudo-polymorphs) with a transformation from Z′ = 1 to Z′ = 2. CrystEngComm 2008. [DOI: 10.1039/b812012a] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Gobetto R, Nervi C, Chierotti MR, Braga D, Maini L, Grepioni F, Harris RK, Hodgkinson P. Hydrogen bonding and dynamic behaviour in crystals and polymorphs of dicarboxylic-diamine adducts: a comparison between NMR parameters and X-ray diffraction studies. Chemistry 2006; 11:7461-71. [PMID: 16267867 DOI: 10.1002/chem.200500616] [Citation(s) in RCA: 50] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Fumaric, malonic, maleic, and hydromuconic (HOOCCH2(CH)2CH2COOH) acids were used to prepare a series of hydrogen-bonded adducts or salts, depending on whether acid-base proton transfer takes place, with the dibase [N(muCH2CH2)3N] in various stoichiometric ratios. The resulting compounds have been investigated by using the 1H MAS, 15N, and 13C cross polarisation magic-angle spinning (CPMAS) methods and discussed in relation to X-ray diffraction studies to ascertain the nature of the O-HO, NH-O, and N+-HO- hydrogen bonds between the various species. In addition, two polymorphic forms of the malonic compound and a hydrate in the maleic case were examined. We also present the correlations between the chemical shifts of the hydrogen-bonded protons and those from the proton transfer reaction (acid-to-base) with the heavy atom distances. The dynamic behaviour in the solid-state of the [N(muCH2CH2)3N] adducts with fumaric 2:1, maleic 1:1 hydrate, and hydromuconic acids, and a malonate 2:1 polymorph adduct have been investigated by using variable-temperature 1H spin-lattice relaxation times. A substantial agreement between the activation energies obtained from fitting the T1 data and the results of potential energy barrier calculations demonstrates that the facile reorientation of the [N(muCH2CH2)3N] molecule occurs in several of the adducts.
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Affiliation(s)
- Roberto Gobetto
- Dipartimento di Chimica I.F.M. Università di Torino, Via P. Giuria 7, 10125 Torino, Italy.
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Braga D, Giaffreda SL, Grepioni F, Pettersen A, Maini L, Curzi M, Polito M. Mechanochemical preparation of molecular and supramolecular organometallic materials and coordination networks. Dalton Trans 2006:1249-63. [PMID: 16505902 DOI: 10.1039/b516165g] [Citation(s) in RCA: 246] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
This Dalton Perspective deals with solvent-free reactions taking place within solids or between solids or involving a solid and a vapour. The focus is on reactions involving organometallic and coordination compounds and occurring via reassembling of non-covalent bonding, e.g. hydrogen bonds, and/or formation of ligand-metal coordination bonds. It is argued that reactions activated by mechanical mixing of solid reactants as well as those obtained by exposing a crystalline solid to a vapour can be exploited to "make crystals", which is the quintessence of crystal engineering. It is demonstrated through a number of examples that solvent-free methods, such as co-grinding, kneading, milling of molecular solids, or reactions of solid with vapours represent viable alternative, when not unique, routes for the preparation of novel molecular and supramolecular solids as well as for the preparation of polymorphic or solvate modifications of a same species. The structural characterization of the products requires the preparation of single crystals suitable for X-ray diffraction, a goal often achieved by seeding.
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Affiliation(s)
- Dario Braga
- Dipartimento di Chimica G. Ciamician, Università degli Studi di Bologna, Via F. Selmi 2, 40126, Bologna, Italy.
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Braga D, Grepioni F. Making crystals from crystals: a green route to crystal engineering and polymorphism. Chem Commun (Camb) 2005:3635-45. [PMID: 16027897 DOI: 10.1039/b504668h] [Citation(s) in RCA: 181] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Supramolecular reactions between crystalline materials as well as reactions between a crystalline material and a vapour can be used to generate new crystalline substances. These solvent-free processes can be exploited to prepare both hydrogen-bonded co-crystals and coordination networks. Solid-vapour reactions do not differ from solid-vapour uptake/release processes, and can also be used to prepare polymorphs and solvates. It is argued that solvent-less reactions involving molecular crystals represent a green route to supramolecular solid-state chemistry and crystal engineering.
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Affiliation(s)
- Dario Braga
- Dipartimento di Chimica G. Ciamician, University of Bologna, Via Selmi 2, 40126 Bologna, Italy.
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Rozas I, Alkorta I, Elguero J. Modelling protein–RNA interactions: an electron density study of the guanidinium and formate complexes with RNA bases. Org Biomol Chem 2005; 3:366-71. [PMID: 15632980 DOI: 10.1039/b415768k] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The complexes formed by the double interaction established between RNA bases and guanidinium and formate ions, as a model for the interacting groups of arginine and glutamic or aspartic amino acid side chains, have been theoretically studied. A density functional theory method (B3LYP/6-31 + G**) has been used for this study. The range of interaction energies obtained allowed for a distinction between bidentate and bifurcate hydrogen bond interactions. The analysis of the electron density and the natural bond orbital analysis shows that these complexes are bound by double hydrogen bonds established between the donor and acceptor groups of guanidinium and formate respectively and those of the RNA bases. Comparisons are made with the results obtained in some previous theoretical and experimental studies.
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Affiliation(s)
- Isabel Rozas
- Department of Chemistry, Trinity College Dublin, Dublin 2, Ireland.
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