1
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Li X, Zhang F, Zheng L, Guo J. Advancing ecotoxicity assessment: Leveraging pre-trained model for bee toxicity and compound degradability prediction. JOURNAL OF HAZARDOUS MATERIALS 2024; 475:134828. [PMID: 38876015 DOI: 10.1016/j.jhazmat.2024.134828] [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: 03/15/2024] [Revised: 05/09/2024] [Accepted: 06/03/2024] [Indexed: 06/16/2024]
Abstract
The prediction of ecological toxicity plays an increasingly important role in modern society. However, the existing models often suffer from poor performance and limited predictive capabilities. In this study, we propose a novel approach for ecological toxicity assessment based on pre-trained models. By leveraging pre-training techniques and graph neural network models, we establish a highperformance predictive model. Furthermore, we incorporate a variational autoencoder to optimize the model, enabling simultaneous discrimination of toxicity to bees and molecular degradability. Additionally, despite the low similarity between the endogenous hormones in bees and the compounds in our dataset, our model confidently predicts that these hormones are non-toxic to bees, which further strengthens the credibility and accuracy of our model. We also discovered the negative correlation between the degradation and bee toxicity of compounds. In summary, this study presents an ecological toxicity assessment model with outstanding performance. The proposed model accurately predicts the toxicity of chemicals to bees and their degradability capabilities, offering valuable technical support to relevant fields.
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Affiliation(s)
- Xinkang Li
- Centre in Artificial Intelligence Driven Drug Discovery, Faculty of Applied Sciences, Macao Polytechnic University, 999078, Macao
| | - Feng Zhang
- College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Liangzhen Zheng
- Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518000, China; Zelixir Biotech Company Ltd. Shanghai, China.
| | - Jingjing Guo
- Centre in Artificial Intelligence Driven Drug Discovery, Faculty of Applied Sciences, Macao Polytechnic University, 999078, Macao.
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2
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Rietveld IB, Barrio M, Ceolin R, Tamarit JL. An unexpected high-pressure stability domain for a lower density polymorph of benzophenone. Sci Rep 2023; 13:11914. [PMID: 37488270 PMCID: PMC10366203 DOI: 10.1038/s41598-023-38985-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2022] [Accepted: 07/18/2023] [Indexed: 07/26/2023] Open
Abstract
For over a century, it was thought that the crystalline polymorph II of benzophenone does not possess a stable domain in the pressure-temperature phase diagram. With a combination of new experimental results and literature data, this case of crystalline dimorphism has finally been solved and it is shown that form II possesses a stable domain at high pressure and high temperature, even though its density is lower than that of form I, the stable form under ordinary pressure and temperature conditions. The phase diagram of benzophenone is a clear demonstration of the fact that to understand the phase behaviour of a chemical substance both the exchange of heat (due to the change in intermolecular interactions) and work (due to the change of volume at a given pressure) need to be taken into account.
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Affiliation(s)
- I B Rietveld
- SMS Laboratory (UR 3233, Université Rouen-Normandie, Place Émile Blondel, 76821, Mont Saint Aignan, France.
- Faculté de Pharmacie, Université Paris Cité, 4 Avenue de l'observatoire, 75006, Paris, France.
| | - M Barrio
- Grup de Caracterització de Materials, Departament de Física and Barcelona Research Centre in Multiscale Science and Engineering Universitat Politècnica de Catalunya, EEBE, Campus Diagonal-Besòs, Av. Eduard Maristany 10-14, 08019, Barcelona, Catalonia, Spain
| | - R Ceolin
- Grup de Caracterització de Materials, Departament de Física and Barcelona Research Centre in Multiscale Science and Engineering Universitat Politècnica de Catalunya, EEBE, Campus Diagonal-Besòs, Av. Eduard Maristany 10-14, 08019, Barcelona, Catalonia, Spain
| | - J Ll Tamarit
- Grup de Caracterització de Materials, Departament de Física and Barcelona Research Centre in Multiscale Science and Engineering Universitat Politècnica de Catalunya, EEBE, Campus Diagonal-Besòs, Av. Eduard Maristany 10-14, 08019, Barcelona, Catalonia, Spain
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3
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Zhang J, Guo M, Luo M, Cai T. Advances in the development of amorphous solid dispersions: The role of polymeric carriers. Asian J Pharm Sci 2023; 18:100834. [PMID: 37635801 PMCID: PMC10450425 DOI: 10.1016/j.ajps.2023.100834] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2023] [Revised: 06/26/2023] [Accepted: 07/23/2023] [Indexed: 08/27/2023] Open
Abstract
Amorphous solid dispersion (ASD) is one of the most effective approaches for delivering poorly soluble drugs. In ASDs, polymeric materials serve as the carriers in which the drugs are dispersed at the molecular level. To prepare the solid dispersions, there are many polymers with various physicochemical and thermochemical characteristics available for use in ASD formulations. Polymer selection is of great importance because it influences the stability, solubility and dissolution rates, manufacturing process, and bioavailability of the ASD. This review article provides a comprehensive overview of ASDs from the perspectives of physicochemical characteristics of polymers, formulation designs and preparation methods. Furthermore, considerations of safety and regulatory requirements along with the studies recommended for characterizing and evaluating polymeric carriers are briefly discussed.
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Affiliation(s)
- Jie Zhang
- Department of Pharmaceutics, School of Pharmacy, China Pharmaceutical University, Nanjing 211198, China
- College of Biological and Chemical Engineering, Changsha University, Changsha 410022, China
| | - Minshan Guo
- Department of Pharmaceutics, School of Pharmacy, China Pharmaceutical University, Nanjing 211198, China
| | - Minqian Luo
- Department of Pharmaceutics, School of Pharmacy, China Pharmaceutical University, Nanjing 211198, China
| | - Ting Cai
- Department of Pharmaceutics, School of Pharmacy, China Pharmaceutical University, Nanjing 211198, China
- Department of Pharmaceutical Engineering, School of Engineering, China Pharmaceutical University, Nanjing 211198, China
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4
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Shenderovich IG. Weak, Broken, but Working-Intramolecular Hydrogen Bond in 2,2'-bipyridine. Int J Mol Sci 2023; 24:10390. [PMID: 37373539 DOI: 10.3390/ijms241210390] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 06/16/2023] [Accepted: 06/17/2023] [Indexed: 06/29/2023] Open
Abstract
From an academic and practical point of view, it is desirable to be able to assess the possibility of the proton exchange of a given molecular system just by knowing the positions of the proton acceptor and the proton donor. This study addresses the difference between intramolecular hydrogen bonds in 2,2'-bipyridinium and 1,10-phenanthrolinium. Solid-state 15N NMR and model calculations show that these hydrogen bonds are weak; their energies are 25 kJ/mol and 15 kJ/mol, respectively. Neither these hydrogen bonds nor N-H stretches can be responsible for the fast reversible proton transfer observed for 2,2'-bipyridinium in a polar solvent down to 115 K. This process must have been caused by an external force, which was a fluctuating electric field present in the solution. However, these hydrogen bonds are the grain that tips the scales precisely because they are an integral part of a large system of interactions, including both intramolecular interactions and environmental influence.
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Affiliation(s)
- Ilya G Shenderovich
- Institute of Organic Chemistry, University of Regensburg, 93053 Regensburg, Germany
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5
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Shahrir N, Anuar N, Abdul Muttalib NA, Yusop SN, Abu Bakar MR, Adam F, Ibrahim SF. The Role of Solvent Hydroxyl Functional Groups on the Interaction Energy and Growth of Form I Paracetamol Crystal Facets. Org Process Res Dev 2022. [DOI: 10.1021/acs.oprd.2c00151] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Nurshahzanani Shahrir
- School of Chemical Engineering, College of Engineering, Universiti Teknologi MARA, 40450Shah Alam, Malaysia
| | - Nornizar Anuar
- School of Chemical Engineering, College of Engineering, Universiti Teknologi MARA, 40450Shah Alam, Malaysia
| | - Nur Aisyah Abdul Muttalib
- School of Chemical Engineering, College of Engineering, Universiti Teknologi MARA, 40450Shah Alam, Malaysia
| | - Siti Nurul’ain Yusop
- School of Chemical Engineering, College of Engineering, Universiti Teknologi MARA, 40450Shah Alam, Malaysia
| | - Mohd. Rushdi Abu Bakar
- Department of Pharmaceutical Technology, Kulliyyah of Pharmacy, International Islamic University Malaysia, Bandar Indera Mahkota, 25200Kuantan, Pahang, Malaysia
| | - Fatmawati Adam
- Faculty of Chemical & Process Engineering Technology, Universiti Malaysia Pahang, Lebuhraya Tun Razak, 26300Kuantan, Pahang, Malaysia
| | - Siti Fatimah Ibrahim
- Malaysian Institute of Chemical and Bioengineering Technology, Universiti Kuala Lumpur, Lot 1988, Kawasan Perindustrian Bandar Vendor, Simpang Ampat, 78000Alor Gajah, Malaysia
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6
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Involvement of the -C(O)-CH=CH- linker chain in different π interactions in crystalline chalcones, (2E)-phenyl-C(C=O)-CH=CH-benzene derivatives. Importance of anti-parallel layered motifs in benzyloxy substituted compounds. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.134860] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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7
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Masciocchi N, Abbinante VM, Zambra M, Barreca G, Zampieri M. Thermal and Structural Characterization of Two Crystalline Polymorphs of Tafamidis Free Acid. Molecules 2022; 27:7411. [PMID: 36364244 PMCID: PMC9656987 DOI: 10.3390/molecules27217411] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 10/19/2022] [Accepted: 10/25/2022] [Indexed: 09/05/2023] Open
Abstract
Tafamidis, chemical formula C14H7Cl2NO3, is a drug used to delay disease progression in adults suffering from transthyretin amyloidosis, and is marketed worldwide under different tradenames as a free acid or in the form of its meglumine salt. The free acid (CAS no. 594839-88-0) is reported to crystallize as distinct (polymorphic) crystal forms, the thermal stability and structural features of which remained thus far undisclosed. In this paper, we present-by selectively isolating highly pure batches of Tafamidis Form 1 and Tafamidis Form 4-the full characterization of these solids, in terms of crystal structures (determined using state-of-the-art structural powder diffraction methods) and spectroscopic and thermal properties. Beyond conventional thermogravimetric and calorimetric analyses, variable-temperature X-ray diffraction was employed to measure the highly anisotropic response of these (poly)crystalline materials to thermal stimuli and enabled the determination of the linear and volumetric thermal expansion coefficients and of the related indicatrix. Both crystal phases are monoclinic and contain substantially flat and π-π stacked Tafamidis molecules, arranged as centrosymmetric dimers by strong O-H···O bonds; weaker C-H···N contacts give rise, in both polymorphs, to infinite ribbons, which guarantee the substantial stiffness of the crystals in the direction of their elongation. Complete knowledge of the structural models will foster the usage of full-pattern quantitative phase analyses of Tafamidis in drug and polymorphic mixtures, an important aspect in both the forensic and the industrial sectors.
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Affiliation(s)
- Norberto Masciocchi
- Dipartimento di Scienza e Alta Tecnologia e To.Sca.Lab., Università dell’Insubria, Via Valleggio 11, 22100 Como, Italy
| | | | - Marco Zambra
- Dipartimento di Scienza e Alta Tecnologia e To.Sca.Lab., Università dell’Insubria, Via Valleggio 11, 22100 Como, Italy
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8
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3-(4-R-3-Furazanyl)-5-nitropyrazolyl-1,2,4-oxadiazoles as a new class of energy rich ensembles. Russ Chem Bull 2022. [DOI: 10.1007/s11172-022-3586-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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9
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The Relevance of Experimental Charge Density Analysis in Unraveling Noncovalent Interactions in Molecular Crystals. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27123690. [PMID: 35744821 PMCID: PMC9229234 DOI: 10.3390/molecules27123690] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Revised: 05/22/2022] [Accepted: 05/29/2022] [Indexed: 11/17/2022]
Abstract
The work carried out by our research group over the last couple of decades in the context of quantitative crystal engineering involves the analysis of intermolecular interactions such as carbon (tetrel) bonding, pnicogen bonding, chalcogen bonding, and halogen bonding using experimental charge density methodology is reviewed. The focus is to extract electron density distribution in the intermolecular space and to obtain guidelines to evaluate the strength and directionality of such interactions towards the design of molecular crystals with desired properties. Following the early studies on halogen bonding interactions, several "sigma-hole" interaction types with similar electrostatic origins have been explored in recent times for their strength, origin, and structural consequences. These include interactions such as carbon (tetrel) bonding, pnicogen bonding, chalcogen bonding, and halogen bonding. Experimental X-ray charge density analysis has proved to be a powerful tool in unraveling the strength and electronic origin of such interactions, providing insights beyond the theoretical estimates from gas-phase molecular dimer calculations. In this mini-review, we outline some selected contributions from the X-ray charge density studies to the field of non-covalent interactions (NCIs) involving elements of the groups 14-17 of the periodic table. Quantitative insights into the nature of these interactions obtained from the experimental electron density distribution and subsequent topological analysis by the quantum theory of atoms in molecules (QTAIM) have been discussed. A few notable examples of weak interactions have been presented in terms of their experimental charge density features. These examples reveal not only the strength and beauty of X-ray charge density multipole modeling as an advanced structural chemistry tool but also its utility in providing experimental benchmarks for the theoretical studies of weak interactions in crystals.
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10
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Anzline C, Israel S, Sujatha K, Sheeba RAJR. Structure, charge density, and Hirshfeld surface analysis of proton transfer complex 2‐amino‐4‐methylpyridinium 2‐(3‐methylphenyl)‐acetate. J CHIN CHEM SOC-TAIP 2022. [DOI: 10.1002/jccs.202100433] [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)
| | - Samuel Israel
- Department of Physics The American college Madurai India
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11
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Guthrie SM, Smith N, Conley AM, Smilgies DM, Giri G. Precipitation dominated thin films of acetaminophen fabricated by meniscus guided coating. CrystEngComm 2022. [DOI: 10.1039/d1ce01437d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Crystallization above the solvent boiling point facilitates the identification of a new precipitation dominant morphology during meniscus guided coating.
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Affiliation(s)
- Stephanie M. Guthrie
- Department of Chemical Engineering, University of Virginia, Charlottesville, Virginia, 22904, USA
| | - Natalie Smith
- Department of Chemical Engineering, University of Virginia, Charlottesville, Virginia, 22904, USA
| | - Ashley M. Conley
- Department of Chemical Engineering, University of Virginia, Charlottesville, Virginia, 22904, USA
| | - Detlef-M. Smilgies
- Cornell High Energy Synchrotron Source (CHESS), Wilson Laboratory, Cornell University, Ithaca, New York 14853, USA
| | - Gaurav Giri
- Department of Chemical Engineering, University of Virginia, Charlottesville, Virginia, 22904, USA
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12
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Torubaev YV, Skabitsky IV, Anisimov AA, Ananyev IV. Long-range supramolecular synthon polymorphism: a case study of two new polymorphic cocrystals of Ph 2Te 2–1,4-C 6F 4I 2. CrystEngComm 2022. [DOI: 10.1039/d1ce01487k] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Two new polymorphic forms of Ph2Te2–1,4-C6F4I2 cocrystals feature an unusual packing of Ph2Te2 molecules, which is typical for native Ph2Se2 but not Ph2Te2. This suggests the existence the yet unknown, Ph2Se2-like polymorph of Ph2Te2.
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Affiliation(s)
- Yury V. Torubaev
- N.S. Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, GSP-1, Leninsky prospect, 31, 119991 Moscow, Russia
| | - Ivan V. Skabitsky
- N.S. Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, GSP-1, Leninsky prospect, 31, 119991 Moscow, Russia
| | - Aleksei A. Anisimov
- A.N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, 119991, Moscow, Russia
| | - Ivan V. Ananyev
- N.S. Kurnakov Institute of General and Inorganic Chemistry, Russian Academy of Sciences, GSP-1, Leninsky prospect, 31, 119991 Moscow, Russia
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13
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Saifutiarova AE, Karnoukhova VA, Gulakova EN, Fedorova OA, Fedyanin IV. MOLECULAR STRUCTURES AND CRYSTAL PACKINGS OF STYRYLDIAZINES. J STRUCT CHEM+ 2021. [DOI: 10.1134/s002247662104003x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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14
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Surov AO, Voronin AP, Drozd KV, Gruzdev MS, Perlovich GL, Prashanth J, Balasubramanian S. Polymorphic forms of antiandrogenic drug nilutamide: structural and thermodynamic aspects. Phys Chem Chem Phys 2021; 23:9695-9708. [PMID: 33908506 DOI: 10.1039/d1cp00793a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Attempts to obtain new cocrystals of nonsteroidal antiandrogenic drug nilutamide produced alternative polymorphic forms of the compound (Form II and Form III) and their crystal structures were elucidated by single-crystal X-ray diffraction. Apart from the cocrystallization technique, lyophilization was found to be an effective strategy for achieving polymorph control of nilutamide, which was difficult to obtain by other methods. The physicochemical properties and relative stability of the commercial Form I and newly obtained Form II were comprehensively investigated by a variety of analytical methods (thermal analysis, solution calorimetry, solubility, and sublimation), whereas for Form III, only a handful of experimental parameters were obtained due to the elusive nature of the polymorph. Form I and Form II were found to be monotropically related, with Form I being confirmed as the thermodynamically most stable solid phase. In addition, the performance of different DFT-D and semi-empirical schemes for lattice energy calculation and polymorph energy ranking was compared and analysed. Lattice energy calculations using periodic DFT at B3LYP-D3/6-31(F+)G(d,p) and PBEh-3c/def2-mSVP levels of theory were found to provide the most accurate lattice energy values for Form I against experimental data, while PIXEL and PBEh-3c/def2-mSVP were the only methods that predicted the correct order of stability of Forms I and II.
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Affiliation(s)
- Artem O Surov
- G. A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya St., 153045 Ivanovo, Russia.
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15
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Smol’yakov AF, Osintseva SV, Mamin EA, Petrova PR, Koval’skaya AV, Tsypysheva IP. Crystal structure features of nitro derivatives of methylcytizine and their relationship with second-order nonlinear optical susceptibility. Russ Chem Bull 2020. [DOI: 10.1007/s11172-020-2736-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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16
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Cruz PC, Rocha FA, Ferreira AM. Application of Selective Crystallization Methods To Isolate the Metastable Polymorphs of Paracetamol: A Review. Org Process Res Dev 2019. [DOI: 10.1021/acs.oprd.9b00322] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Patrı́cia C. Cruz
- LEPABE - Laboratory for Process Engineering, Environment, Biotechnology and Energy, Department of Chemical Engineering, Faculty of Engineering, University of Porto, Rua Dr. Roberto Frias s/n, 4200-465 Porto, Portugal
| | - Fernando A. Rocha
- LEPABE - Laboratory for Process Engineering, Environment, Biotechnology and Energy, Department of Chemical Engineering, Faculty of Engineering, University of Porto, Rua Dr. Roberto Frias s/n, 4200-465 Porto, Portugal
| | - António M. Ferreira
- LEPABE - Laboratory for Process Engineering, Environment, Biotechnology and Energy, Department of Chemical Engineering, Faculty of Engineering, University of Porto, Rua Dr. Roberto Frias s/n, 4200-465 Porto, Portugal
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17
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Korlyukov AA, Nelyubina YV. Quantum chemical methods in charge density studies from X-ray diffraction data. RUSSIAN CHEMICAL REVIEWS 2019. [DOI: 10.1070/rcr4866] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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18
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So HS, Matsumoto S. Three differently coloured polymorphs of 3,6-bis(4-chlorophenyl)-2,5-dipropyl-2,5-dihydropyrrolo[3,4-c]pyrrole-1,4-dione. ACTA CRYSTALLOGRAPHICA SECTION B, STRUCTURAL SCIENCE, CRYSTAL ENGINEERING AND MATERIALS 2019; 75:414-422. [PMID: 32830663 PMCID: PMC6549220 DOI: 10.1107/s2052520619004773] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/14/2019] [Accepted: 04/08/2019] [Indexed: 06/11/2023]
Abstract
In this paper, the conformational polymorphism of a chlorinated diketopyrrolopyrrole (DPP) dye having flexible substituents in a non-hydrogen-bonding system is reported. The propyl-substituted DPP derivative (PR3C) has three polymorphic forms, each showing a different colour (red, orange and yellow). All polymorphs could be obtained concomitantly under various crystallization conditions. The results of the crystal structure analysis indicate that PR3C adopts different conformations in each polymorph. The packing effect caused by the difference in the arrangement of neighbouring molecules was found to play an important role in the occurrence of the observed polymorphism. The thermodynamic stability relationship between the three polymorphs was identified by thermal analysis and indicates that the yellow polymorph is the thermally stable form. The results indicate that the yellow form and orange form are enantiotropically related, and the other polymorph is monotropically related to the others.
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Affiliation(s)
- Hee-Soo So
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7 Tokiwadai, Hodogaya-ku, Yokohama, 240-8501, Japan
| | - Shinya Matsumoto
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7 Tokiwadai, Hodogaya-ku, Yokohama, 240-8501, Japan
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19
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Covaci OI, Samohvalov D, Manta CM, Buhalteanu L, Barbatu A, Baibarac M, Daescu M, Matea A, Gherca D. Novel anhydrous solid-state form of Azathioprine: The assessing of crystal structure by powder X-Ray diffraction, Infrared Absorption Spectroscopy and Raman scattering. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2018.10.065] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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20
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Rivalta A, Salzillo T, Venuti E, Della Valle RG, Sokolovič B, Werzer O, Brillante A. Bulk and Surface-Stabilized Structures of Paracetamol Revisited by Raman Confocal Microscopy. ACS OMEGA 2018; 3:9564-9571. [PMID: 31459088 PMCID: PMC6645084 DOI: 10.1021/acsomega.8b01246] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/05/2018] [Accepted: 08/03/2018] [Indexed: 06/10/2023]
Abstract
We revisit the polymorphism of paracetamol by means of a micro-Raman technique, which has proved to be a powerful tool for structure recognition. Distinct lattice phonon spectra clearly identified the pure phases. Confocality enabled us to detect phase mixing between form II and either I or III on a micrometric scale in the same crystallite. Following the most recent findings on surface-mediated structures, we also investigated spin-coated films grown on glass, gold, and polystyrene substrates, confirming the selectivity of these surfaces for the metastable form III, which shows an unprecedented stability over a time span of several months. A mechanism of its transformation to phase II, via a partially ordered intermediate state, is suggested by polarized Raman measurements.
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Affiliation(s)
- Arianna Rivalta
- Department
of Industrial Chemistry “Toso Montanari” and INSTM-Udr
Bologna, University of Bologna, 40136 Bologna, Italy
| | - Tommaso Salzillo
- Department
of Industrial Chemistry “Toso Montanari” and INSTM-Udr
Bologna, University of Bologna, 40136 Bologna, Italy
| | - Elisabetta Venuti
- Department
of Industrial Chemistry “Toso Montanari” and INSTM-Udr
Bologna, University of Bologna, 40136 Bologna, Italy
| | - Raffaele G. Della Valle
- Department
of Industrial Chemistry “Toso Montanari” and INSTM-Udr
Bologna, University of Bologna, 40136 Bologna, Italy
| | - Barbara Sokolovič
- Institute
of Pharmaceutical Science, Department of Pharmaceutical Technology, Karl Franzens University of Graz, 8010 Graz, Austria
| | - Oliver Werzer
- Institute
of Pharmaceutical Science, Department of Pharmaceutical Technology, Karl Franzens University of Graz, 8010 Graz, Austria
| | - Aldo Brillante
- Department
of Industrial Chemistry “Toso Montanari” and INSTM-Udr
Bologna, University of Bologna, 40136 Bologna, Italy
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21
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Printing of small molecular medicines from the vapor phase. Nat Commun 2017; 8:711. [PMID: 28955031 PMCID: PMC5617892 DOI: 10.1038/s41467-017-00763-6] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2016] [Accepted: 07/22/2017] [Indexed: 11/24/2022] Open
Abstract
There is growing need to develop efficient methods for early-stage drug discovery, continuous manufacturing of drug delivery vehicles, and ultra-precise dosing of high potency drugs. Here we demonstrate the use of solvent-free organic vapor jet printing to deposit nanostructured films of small molecular pharmaceutical ingredients, including caffeine, paracetamol, ibuprofen, tamoxifen, BAY 11-7082 and fluorescein, with accuracy on the scale of micrograms per square centimeter, onto glass, Tegaderm, Listerine tabs, and stainless steel microneedles. The printed films exhibit similar crystallographic order and chemistry as the original powders; controlled, order-of-magnitude enhancements of dissolution rate are observed relative to powder-form particles. In vitro treatment of breast and ovarian cancer cell cultures in aqueous media by tamoxifen and BAY 11-7082 films shows similar behavior to drugs pre-dissolved in dimethyl sulfoxide. The demonstrated precise printing of medicines as films, without the use of solvents, can accelerate drug screening and enable continuous manufacturing, while enhancing dosage accuracy. Traditional approaches used in the pharmaceutical industry are not precise or versatile enough for customized medicine formulation and manufacture. Here the authors produce a method to form coatings, with accurate dosages, as well as a means of closely controlling dissolution kinetics.
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Amado AM, Azevedo C, Ribeiro-Claro PJA. Conformational and vibrational reassessment of solid paracetamol. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 183:431-438. [PMID: 28494395 DOI: 10.1016/j.saa.2017.04.076] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2016] [Revised: 04/11/2017] [Accepted: 04/26/2017] [Indexed: 05/21/2023]
Abstract
This work provides an answer to the urge for a more detailed and accurate knowledge of the vibrational spectrum of the widely used analgesic/antipyretic drug commonly known as paracetamol. A comprehensive spectroscopic analysis - including infrared, Raman, and inelastic neutron scattering (INS) - is combined with a computational approach which takes account for the effects of intermolecular interactions in the solid state. This allows a full reassessment of the vibrational assignments for Paracetamol, thus preventing the propagation of incorrect data analysis and misassignments already found in the literature. In particular, the vibrational modes involving the hydrogen-bonded NH and OH groups are correctly reallocated to bands shifted by up to 300cm-1 relatively to previous assignments.
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Affiliation(s)
- Ana M Amado
- Química-Física Molecular, Departamento de Química, FCTUC, Universidade de Coimbra, P-3004-535 Coimbra, Portugal.
| | - Celeste Azevedo
- CICECO, Departamento de Química, Universidade de Aveiro, P-3810-193 Aveiro, Portugal
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23
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Recent progress of structural study of polymorphic pharmaceutical drugs. Adv Drug Deliv Rev 2017; 117:71-85. [PMID: 27940141 DOI: 10.1016/j.addr.2016.12.001] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2016] [Revised: 12/02/2016] [Accepted: 12/06/2016] [Indexed: 12/20/2022]
Abstract
This review considers advances in the understanding of active pharmaceutical ingredient polymorphism since around 2010 mainly from a structural view point, with a focus on twelve model drugs. New polymorphs of most of these drugs have been identified despite that the polymorphism of these old drugs has been extensively studied so far. In addition to the conventional modifications of preparative solvents, temperatures, and pressure, more strategic structure-based methods have successfully yielded new polymorphs. The development of analytical techniques, including X-ray analyses, spectroscopy, and microscopy has facilitated the identification of unknown crystal structures and also the discovery of new polymorphs. Computational simulations have played an important role in explaining and predicting the stability order of polymorphs. Furthermore, these make significant contributions to the design of new polymorphs by considering structure and energy. The new technologies and insights discussed in this review will contribute to the control of polymorphic forms, both during manufacture and in the drug formulation.
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Crystal and Molecular Structures of Methylcytisine Nitro-Derivatives. Pharm Chem J 2017. [DOI: 10.1007/s11094-017-1541-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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25
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Dehestani M, Pourestarabadi S. A density functional theory and quantum theory of atoms in molecules study on hydrogen bonding interaction between paracetamol and water molecules. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY B 2017. [DOI: 10.1134/s1990793116060191] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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26
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Covaci OI, Mitran RA, Buhalteanu L, Dumitrescu DG, Shova S, Manta CM. Bringing new life into old drugs: a case study on nifuroxazide polymorphism. CrystEngComm 2017. [DOI: 10.1039/c7ce00303j] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
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27
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Smith SJ, Montgomery JM, Vohra YK. High-pressure high-temperature phase diagram of organic crystal paracetamol. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2016; 28:035101. [PMID: 26732344 DOI: 10.1088/0953-8984/28/3/035101] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
High-pressure high-temperature (HPHT) Raman spectroscopy studies have been performed on the organic crystal paracetamol in a diamond anvil cell utilizing boron-doped heating diamond anvil. Isobaric measurements were conducted at pressures up to 8.5 GPa and temperature up to 520 K in five different experiments. Solid state phase transitions from monoclinic Form I → orthorhombic Form II were observed at various pressures and temperatures as well as transitions from Form II → unknown Form IV. The melting temperature for paracetamol was observed to increase with increasing pressures to 8.5 GPa. This new data is combined with previous ambient temperature high-pressure Raman and x-ray diffraction data to create the first HPHT phase diagram of paracetamol.
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Affiliation(s)
- Spencer J Smith
- Department of Physics, University of Alabama at Birmingham (UAB), Birmingham, AL 35294, USA
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28
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Mohamed SK, Younes SHH, Abdel-Raheem EMM, Horton PN, Akkurt M, Glidewell C. Triclinic and monoclinic polymorphs of meso-(E,E)-1,1'-[1,2-bis(4-chlorophenyl)ethane-1,2-diyl]bis(phenyldiazene): the high-yield synthesis of an unexpected product, concomitant polymorphism and configurational disorder. ACTA CRYSTALLOGRAPHICA SECTION C-STRUCTURAL CHEMISTRY 2016; 72:57-62. [PMID: 26742828 DOI: 10.1107/s2053229615023578] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2015] [Accepted: 12/08/2015] [Indexed: 11/10/2022]
Abstract
Pyrazolidine-3,5-diones and their derivatives exhibit a wide range of biological activities. Seeking to explore the effect of combining a hydrocarbyl ring substituent, as present in sulfinpyrazone (used to treat gout), with a chlorinated aryl ring, as present in muzolimine (a diuretic), we explored the reaction between 1-phenylpyrazolidine-3,5-dione and 4-chlorobenzaldehyde under mildly basic conditions in the expectation of producing the simple condensation product 4-(4-chlorobenzylidene)-1-phenylpyrazolidine-3,5-dione. However, the reaction product proved to be meso-(E,E)-1,1'-[1,2-bis(4-chlorophenyl)ethane-1,2-diyl]bis(phenyldiazene), C26H20Cl2N4, and a tentative mechanism is proposed. Crystallization from ethanol produces two concomitant polymorphs, i.e. a triclinic form, (I), in the space group P-1, and a monoclinic form, (II), in the space group C2/c. In both polymorphs, the molecules lie across centres of inversion, but in (II), the molecules are subject to whole-molecule disorder equivalent to configurational disorder with occupancies of 0.6021 (19) and 0.3979 (19). There are no hydrogen bonds in the crystal structure of polymorph (I), but the molecules of polymorph (II) are linked by C-H...π(arene) hydrogen bonds into complex chains, which are further linked into sheets by C-H...N interactions.
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Affiliation(s)
- Shaaban K Mohamed
- Chemistry and Environmental Division, Manchester Metropolitan University, Manchester M1 5GD, England
| | - Sabry H H Younes
- Chemistry Department, Faculty of Science, Sohag University, 82524 Sohag, Egypt
| | | | - Peter N Horton
- School of Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, England
| | - Mehmet Akkurt
- Department of Physics, Faculty of Sciences, Erciyes University, 38039 Kayseri, Turkey
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Srivastava K, Shimpi MR, Srivastava A, Tandon P, Sinha K, Velaga SP. Vibrational analysis and chemical activity of paracetamol–oxalic acid cocrystal based on monomer and dimer calculations: DFT and AIM approach. RSC Adv 2016. [DOI: 10.1039/c5ra24402a] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Hydrogen bonding network present in monomer and dimer + 2OXA models of cocrystal.
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Affiliation(s)
| | | | | | - Poonam Tandon
- Physics Department
- University of Lucknow
- Lucknow 226 007
- India
| | - Kirti Sinha
- Physics Department
- University of Lucknow
- Lucknow 226 007
- India
| | - Sitaram P. Velaga
- Department of Health Sciences Luleå University of Technology
- Luleå
- Sweden
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Nelyubina YV, Ananyev IV, Novikov VV, Lyssenko KA. Invariom approach to electron density studies of open-shell compounds: the case of an organic nitroxide radical. RSC Adv 2016. [DOI: 10.1039/c6ra21365k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The study reports the successful modeling of electron density with invarioms for an open-shell compound, an organic nitroxide radical.
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Affiliation(s)
- Yu. V. Nelyubina
- A.N.Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
| | - I. V. Ananyev
- A.N.Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
| | - V. V. Novikov
- A.N.Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
| | - K. A. Lyssenko
- A.N.Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
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Telford R, Seaton CC, Clout A, Buanz A, Gaisford S, Williams GR, Prior TJ, Okoye CH, Munshi T, Scowen IJ. Stabilisation of metastable polymorphs: the case of paracetamol form III. Chem Commun (Camb) 2016; 52:12028-12031. [DOI: 10.1039/c6cc05006a] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A unique approach is applied in preparing the first ‘air-stable’ formulation of form III of paracetamol, long regarded as a highly unstable form.
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Affiliation(s)
- Richard Telford
- School of Chemistry and Forensic Sciences
- University of Bradford
- Bradford
- UK
| | - Colin C. Seaton
- School of Chemistry and Forensic Sciences
- University of Bradford
- Bradford
- UK
| | - Alexander Clout
- UCL School of Pharmacy
- University College London
- London WC1N 1AX
- UK
| | - Asma Buanz
- UCL School of Pharmacy
- University College London
- London WC1N 1AX
- UK
| | - Simon Gaisford
- UCL School of Pharmacy
- University College London
- London WC1N 1AX
- UK
| | | | | | | | - Tasnim Munshi
- School of Chemistry
- University of Lincoln
- Lincoln LN6 7DL
- UK
| | - Ian J. Scowen
- School of Chemistry
- University of Lincoln
- Lincoln LN6 7DL
- UK
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32
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Holaň J, Skořepová E, Heraud L, Baltes D, Rohlíček J, Dammer O, Ridvan L, Štěpánek F. Polymorphic Crystallization and Structural Aspects of Agomelatine Metastable Form X Prepared by Combined Antisolvent/Cooling Process. Org Process Res Dev 2015. [DOI: 10.1021/acs.oprd.5b00241] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Jan Holaň
- Zentiva k.s., U Kabelovny 130/22, 102 00 Prague 10, Czech Republic
| | - Eliška Skořepová
- Zentiva k.s., U Kabelovny 130/22, 102 00 Prague 10, Czech Republic
| | - Lea Heraud
- Sanofi SA, 45
Chemin de Météline, Sisteron, 04200, France
- Ecole Nationale
Supérieure des Ingénieurs
en Arts Chimiques et Technologiques, 4 Allée Émile Monso, 31030 Toulouse, France
| | - David Baltes
- Sanofi SA, 45
Chemin de Météline, Sisteron, 04200, France
| | | | - Ondřej Dammer
- Zentiva k.s., U Kabelovny 130/22, 102 00 Prague 10, Czech Republic
| | - Luděk Ridvan
- Zentiva k.s., U Kabelovny 130/22, 102 00 Prague 10, Czech Republic
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Nelyubina YV, Lyssenko KA. Probing Ionic Crystals by the Invariom Approach: An Electron Density Study of Guanidinium Chloride and Carbonate. Chemistry 2015; 21:9733-41. [PMID: 26015224 DOI: 10.1002/chem.201500296] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2015] [Revised: 04/21/2015] [Indexed: 11/09/2022]
Abstract
A comparative study of two guanidinium salts, chloride and carbonate, is carried out to test the performance of the invariom approach for ionic crystals. Although treating them as formed by isolated ions with no charge transfer between them, the invariom approach provides features of interionic contacts that are amazingly similar to those obtained from conventional charge density analysis of high-resolution X-ray diffraction data, thus emerging as an easy way towards reliable description of chemical bonding peculiarities in ionic crystals.
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Affiliation(s)
- Yulia V Nelyubina
- A. N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, 119991, Vavilova Str., 28, Moscow (Russia).
| | - Konstantin A Lyssenko
- A. N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, 119991, Vavilova Str., 28, Moscow (Russia)
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34
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Korlyukov AA. Coordination compounds of tetravalent silicon, germanium and tin: the structure, chemical bonding and intermolecular interactions in them. RUSSIAN CHEMICAL REVIEWS 2015. [DOI: 10.1070/rcr4466] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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35
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Nelyubina YV, Korlyukov AA, Lyssenko KA. Invariom approach as a new tool in electron density studies of ionic liquids: a model case of 1-butyl-2,3-dimethylimidazolium chloride BDMIM[Cl]. RSC Adv 2015. [DOI: 10.1039/c5ra13752g] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
In this comparative study of an ionic liquid (IL), BDMIM[Cl], the invariom approximation emerges as a useful tool in search for ‘structure–property’ relations in ILs, as entangling complex interplay of interionic interactions that operate in them.
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Affiliation(s)
- Yu. V. Nelyubina
- A.N. Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
| | - A. A. Korlyukov
- A.N. Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
- Pirogov Russian National Research Medical University
| | - K. A. Lyssenko
- A.N. Nesmeyanov Institute of Organoelement Compounds
- Russian Academy of Sciences
- Moscow
- Russia
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Nelyubina YV, Korlyukov AA, Lyssenko KA. Experimental Charge Density Evidence for Pnicogen Bonding in a Crystal of Ammonium Chloride. Chemphyschem 2014; 16:676-81. [DOI: 10.1002/cphc.201402673] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2014] [Indexed: 11/09/2022]
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Fresno N, Pérez-Fernández R, Goicoechea C, Alkorta I, Fernández-Carvajal A, de la Torre-Martínez R, Quirce S, Ferrer-Montiel A, Martín MI, Goya P, Elguero J. Adamantyl analogues of paracetamol as potent analgesic drugs via inhibition of TRPA1. PLoS One 2014; 9:e113841. [PMID: 25438056 PMCID: PMC4249970 DOI: 10.1371/journal.pone.0113841] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Accepted: 10/31/2014] [Indexed: 01/31/2023] Open
Abstract
Paracetamol also known as acetaminophen, is a widely used analgesic and antipyretic agent. We report the synthesis and biological evaluation of adamantyl analogues of paracetamol with important analgesic properties. The mechanism of nociception of compound 6a/b, an analog of paracetamol, is not exerted through direct interaction with cannabinoid receptors, nor by inhibiting COX. It behaves as an interesting selective TRPA1 channel antagonist, which may be responsible for its analgesic properties, whereas it has no effect on the TRPM8 nor TRPV1 channels. The possibility of replacing a phenyl ring by an adamantyl ring opens new avenues in other fields of medicinal chemistry.
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Affiliation(s)
- Nieves Fresno
- Instituto de Química Médica, IQM-CSIC, Madrid, Spain
| | | | - Carlos Goicoechea
- Departamento de Farmacología y Nutrición, Unidad Asociada de I+D+i al CSIC, Facultad de Ciencias de la Salud, Universidad Rey Juan Carlos, Alcorcón, Madrid, Spain
| | - Ibon Alkorta
- Instituto de Química Médica, IQM-CSIC, Madrid, Spain
- * E-mail:
| | | | | | - Susana Quirce
- Institute of Molecular and Cellular Biology, Universidad Miguel Hernández, Alicante, Spain
| | - Antonio Ferrer-Montiel
- Institute of Molecular and Cellular Biology, Universidad Miguel Hernández, Alicante, Spain
| | - M. Isabel Martín
- Departamento de Farmacología y Nutrición, Unidad Asociada de I+D+i al CSIC, Facultad de Ciencias de la Salud, Universidad Rey Juan Carlos, Alcorcón, Madrid, Spain
| | - Pilar Goya
- Instituto de Química Médica, IQM-CSIC, Madrid, Spain
| | - José Elguero
- Instituto de Química Médica, IQM-CSIC, Madrid, Spain
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Dittrich B, Matta CF. Contributions of charge-density research to medicinal chemistry. IUCRJ 2014; 1:457-69. [PMID: 25485126 PMCID: PMC4224464 DOI: 10.1107/s2052252514018867] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/01/2014] [Accepted: 08/20/2014] [Indexed: 06/04/2023]
Abstract
This article reviews efforts in accurate experimental charge-density studies with relevance to medicinal chemistry. Initially, classical charge-density studies that measure electron density distribution via least-squares refinement of aspherical-atom population parameters are summarized. Next, interaction density is discussed as an idealized situation resembling drug-receptor interactions. Scattering-factor databases play an increasing role in charge-density research, and they can be applied both to small-molecule and macromolecular structures in refinement and analysis; software development facilitates their use. Therefore combining both of these complementary branches of X-ray crystallography is recommended, and examples are given where such a combination already proved useful. On the side of the experiment, new pixel detectors are allowing rapid measurements, thereby enabling both high-throughput small-molecule studies and macromolecular structure determination to higher resolutions. Currently, the most ambitious studies compute intermolecular interaction energies of drug-receptor complexes, and it is recommended that future studies benefit from recent method developments. Selected new developments in theoretical charge-density studies are discussed with emphasis on its symbiotic relation to crystallography.
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Affiliation(s)
- Birger Dittrich
- Institut für Anorganische und Angewandte Chemie, Martin-Luther-King-Platz 6, 20146 Hamburg, Germany
| | - Chérif F. Matta
- Department of Chemistry and Physics, Mount Saint Vincent University, Halifax, Nova Scotia B3M 2J6, Canada
- Department of Chemistry, Dalhousie University, Halifax, Nova Scotia B3H 4J3M, Canada
- Department of Chemistry, Saint Mary’s University, Halifax, Nova Scotia B3H 3C3, Canada
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40
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Ng AT, Lai C, Dabros M, Gao Q. Insight to the thermodynamic stability of molecular crystals through crystallographic studies of a multipolymorph system. J Pharm Sci 2014; 103:3423-3431. [PMID: 25252084 DOI: 10.1002/jps.24135] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2014] [Revised: 07/25/2014] [Accepted: 07/30/2014] [Indexed: 11/10/2022]
Abstract
Five solvent-free polymorphs of a pharmaceutical compound were discovered during polymorph screening. Out of the five polymorphs, only one has strong intermolecular N-H···N hydrogen bonding, whereas the others exhibit only weak C-H···N and π-π stacking interactions in addition to all the other weak C-H···X and van der Waals interactions. The relative thermodynamic stability relationships among the polymorphs are not intuitive and quite complex due to enantiotropic phase behavior. For instance, the polymorph with the most efficient packing (i.e., highest density) is not always the most thermodynamically stable form, and the polymorph with strong intermolecular interactions is not thermodynamically more stable than the polymorph with weak intermolecular interactions at all temperatures. Nevertheless, systematic examination and comparison of the molecular packing and intermolecular interactions of these polymorphs provide insight into the importance of H-bonding and packing efficiency to the thermodynamic stability of a crystalline form, and how these effects are dependent on temperature. This study seeks to correlate single-crystal structure features with experimentally established thermodynamic stability, and provides an example where a polymorph with only van der Waals forces and weak intermolecular interactions can be more stable than a polymorph that displays strong H-bonding in its structural make-up.
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Affiliation(s)
- Alicia T Ng
- Bristol-Myers Squibb Company, Wallingford, Connecticut 06492.
| | - Chiajen Lai
- Bristol-Myers Squibb Company, New Brunswick, New Jersey 08903
| | - Marta Dabros
- Bristol-Myers Squibb Company, Wallingford, Connecticut 06492
| | - Qi Gao
- Bristol-Myers Squibb Company, New Brunswick, New Jersey 08903
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Smith SJ, Bishop MM, Montgomery JM, Hamilton TP, Vohra YK. Polymorphism in paracetamol: evidence of additional forms IV and V at high pressure. J Phys Chem A 2014; 118:6068-77. [PMID: 25017812 DOI: 10.1021/jp411810y] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The structural phase stability of N-(4-hydroxyphenyl) acetamide (paracetamol) has been studied at ambient temperature up to 23 GPa using Raman spectroscopy. Spectral changes have provided further evidence for a highly kinetically driven Form I → II transition that occurs as a mixed phase from 4.8 to 6.5 GPa, and might complete as early as 7 GPa. Upon further compression to 8.1 GPa, a drastic shift in spectral signature was observed providing the first evidence for a previously undiscovered Form IV of paracetamol. Additional shifts in mode intensities were observed near 11 GPa indicating a potential restructuring of the hydrogen bonding network and/or structural modification to a potentially new Form V. Phase boundaries at 7 and 8 GPa were confirmed under hydrostatic conditions using Raman spectroscopy. Spectral changes indicate that the transition Form IV → V occurs near 11 GPa. Multiple ab initio harmonic frequency calculations at different levels of theory were performed with a B3LYP/6-31G** being used to provide a more robust mode assignment to our experimentally obtained Raman modes. High pressure X-ray diffraction (XRD) was performed up to 21 GPa, which provided further evidence for a highly kinetically driven Form I → II transition in agreement with our Raman measurements. In addition, the XRD provided further evidence for the existence of Form IV near 8 GPa and Form V near 11 GPa with Form V persisting up to 21 GPa.
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Affiliation(s)
- Spencer J Smith
- Department of Physics and ‡Department of Chemistry, University of Alabama at Birmingham , Birmingham, Alabama 35294, United States
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42
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Investigation of topology of intermolecular interactions in the benzene–acetylene co-crystal by different theoretical methods. Struct Chem 2014. [DOI: 10.1007/s11224-014-0413-7] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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43
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Nelyubina YV, Korlyukov AA, Lyssenko KA. Probing Weak Intermolecular Interactions by Using the Invariom Approach: A Comparative Study ofs-Tetrazine. Chemistry 2014; 20:6978-84. [DOI: 10.1002/chem.201304551] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2013] [Revised: 03/12/2014] [Indexed: 11/10/2022]
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44
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Nelyubina YV, Puntus LN, Lyssenko KA. The Dark Side of Hydrogen Bonds in the Design of Optical Materials: A Charge-Density Perspective. Chemistry 2014; 20:2860-5. [DOI: 10.1002/chem.201300566] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2013] [Revised: 12/13/2013] [Indexed: 12/12/2022]
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Nelyubina YV, Korlyukov AA, Fedyanin IV, Lyssenko KA. Extremely long Cu···O contact as a possible pathway for magnetic interactions in Na2Cu(CO3)2. Inorg Chem 2013; 52:14355-63. [PMID: 24266627 DOI: 10.1021/ic4024025] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Chemical binding in a mixed copper sodium carbonate Na2Cu(CO3)2, a layered material showing ferromagnetic intralayer exchange and weak antiferromagnetic interlayer coupling, was examined within the topological analysis of experimental (from high-resolution X-ray diffraction) and theoretical (from periodic quantum chemical calculations) electron density functions in its crystal. Together with modeling of a superexchange pathway within the LSDA and DFT+U approach, the results obtained reveal a very weak Cu···O interaction (0.5 kcal/mol worth) between the copper-carbonate layers that is nevertheless stabilizing (bonding) and may serve as a possible pathway for antiferromagnetic interactions.
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Affiliation(s)
- Yulia V Nelyubina
- A.N. Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, Vavilova Str., 28, 119991 Moscow, Russia
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Evaluation of the role of “dilution” in ionic crystal formation by analysis of electron density distribution for two solvatomorphs of 4-amino-3,5-dinitropyrazole ammonium salt. Russ Chem Bull 2013. [DOI: 10.1007/s11172-013-0247-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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47
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Fukin GK, Samsonov MA, Baranov EV, Maleeva AV, Piskunov AV, Cherkasov VK. Experimental and theoretical studies of the topological and energy parameters in the crystal of 4,7-di-tert-butyl-2-phenyl-1,3,2-benzodioxaborole. Russ Chem Bull 2013. [DOI: 10.1007/s11172-013-0274-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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48
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Novikova AA, Nalbandyan VB. Existence of minimum molar volumes (maximum packing densities) in morphotropic series of mixed oxides and fluorides. CRYSTALLOGR REV 2013. [DOI: 10.1080/0889311x.2013.804817] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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49
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Borissova AO, Lyssenko KA, Gurinov AA, Shenderovich IG. Energy Analysis of Competing Non-Covalent Interaction in 1:1 and 1:2 Adducts of Collidine with Benzoic Acids by Means of X-Ray Diffraction. ACTA ACUST UNITED AC 2013. [DOI: 10.1524/zpch.2013.0400] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Abstract
The hydrogen bond pattern and the types of non-covalent interactions in the crystals of the 1:1 and 1:2 adducts of 2,4,6-trimethylpyridine and benzoic acids are studied using high-resolution X-ray diffraction. The geometries of the hydrogen bonds are estimated using a combined XRD/DFT approach that provides the geometrical parameters within the margin of error of neutron diffraction studies. The energies of the non-covalent interactions are estimated on the base of the experimental electron density distribution function. It is shown that the structures of the adducts are governed by the NOH and OHO hydrogen bonds. In turn, C-H...O contacts and stacking interactions define the packing of the adducts in the crystal. On the other hand, it is important to note that the latter interactions affect the competition of the former hydrogen bonds in some 1:2 adducts.
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Affiliation(s)
| | - Konstantin A. Lyssenko
- Russian Academy of Sciences, A.N. Nesmeyanov Institute of Organoelement Compoun, Moscow, Russische Föderation
| | - Andrey A. Gurinov
- St. Petersburg State University, Department of Physics, St. Petersburg, Russische Föderation
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Nelyubina YV, Lyssenko KA. Probing stereoelectronic interactions in an O-N-O unit by the atomic energies: experimental and theoretical electron density study. J Phys Chem A 2013; 117:3084-92. [PMID: 23473427 DOI: 10.1021/jp312835y] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Stereoelectronic interaction lp(O1) → σ*(N1-O2) in a O-N-O unit was analyzed by means of R. Bader's Atoms in Molecule theory on the basis of X-ray diffraction data for dimethyl-(2R,4aR,5S,7R)-2,5,7-triphenylhexahydro-4H-[1,2]oxazino[2,3-b][1,2]oxazine-4,4-dicarboxylate. Atomic energies obtained by applying this approach to both the experimental and theoretical electron densities were used to probe the energy of this strong stereoelectronic interaction, giving consistent results with the NBO analysis, although showing its destabilizing character.
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Affiliation(s)
- Yulia V Nelyubina
- A.N. Nesmeyanov Institute of Organoelement Compounds of Russian Academy of Sciences, 119991, Vavilova Str., 28, Moscow, Russia.
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