1
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Leitão MIPS, Gonzalez C, Francescato G, Filipiak Z, Petronilho A. On the reactivity of mRNA Cap0: C-H oxidative addition of 7-methylguanosine to Pt 0 and base pairing studies. Chem Commun (Camb) 2020; 56:13365-13368. [PMID: 33030477 DOI: 10.1039/d0cc06075e] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
7-Methylguanosine, whose lability to form an ylide/NHC has been known for decades, reacts with [Pt(PPh3)4] via C-H oxidative addition to yield a hydrido-PtII carbene complex. 1H NMR studies on Watson-Crick base-pairs showed no significant effect of metallation.
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Affiliation(s)
- Maria Inês P S Leitão
- ITQB NOVA - Instituto de Tecnologia Química e Biológica António Xavier, Avd. Da República s/n, 2780-157 Oeiras, Portugal.
| | - Carmen Gonzalez
- ITQB NOVA - Instituto de Tecnologia Química e Biológica António Xavier, Avd. Da República s/n, 2780-157 Oeiras, Portugal.
| | - Giulia Francescato
- ITQB NOVA - Instituto de Tecnologia Química e Biológica António Xavier, Avd. Da República s/n, 2780-157 Oeiras, Portugal.
| | - Zuzanna Filipiak
- ITQB NOVA - Instituto de Tecnologia Química e Biológica António Xavier, Avd. Da República s/n, 2780-157 Oeiras, Portugal.
| | - Ana Petronilho
- ITQB NOVA - Instituto de Tecnologia Química e Biológica António Xavier, Avd. Da República s/n, 2780-157 Oeiras, Portugal.
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2
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Osorio Yáñez RN, Hepp A, Tan TTY, Hahn FE. Synthesis of RhIII and IrIII Complexes Bearing Chelating Di-NHC Ligands Obtained from N9-Imidazolium-Substituted Adenine. Organometallics 2020. [DOI: 10.1021/acs.organomet.9b00759] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Rebeca Nayely Osorio Yáñez
- Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstraße 28-30, 48149 Münster, Germany
| | - Alexander Hepp
- Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstraße 28-30, 48149 Münster, Germany
| | - Tristan Tsai Yuan Tan
- Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstraße 28-30, 48149 Münster, Germany
| | - F. Ekkehardt Hahn
- Institut für Anorganische und Analytische Chemie, Westfälische Wilhelms-Universität Münster, Corrensstraße 28-30, 48149 Münster, Germany
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3
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Cabaj MK, Gajda R, Hoser A, Makal A, Dominiak PM. Differences and similarities among hypoxanthinium nitrate hydrate structures. ACTA CRYSTALLOGRAPHICA SECTION C-STRUCTURAL CHEMISTRY 2019; 75:1036-1044. [PMID: 31380785 DOI: 10.1107/s2053229619008702] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 06/18/2019] [Indexed: 11/10/2022]
Abstract
Crystals of hypoxanthinium (6-oxo-1H,7H-purin-9-ium) nitrate hydrates were investigated by means of X-ray diffraction at different temperatures. The data for hypoxanthinium nitrate monohydrate (C5H5N4O+·NO3-·H2O, Hx1) were collected at 20, 105 and 285 K. The room-temperature phase was reported previously [Schmalle et al. (1990). Acta Cryst. C46, 340-342] and the low-temperature phase has not been investigated yet. The structure underwent a phase transition, which resulted in a change of space group from Pmnb to P21/n at lower temperature and subsequently in nonmerohedral twinning. The structure of hypoxanthinium dinitrate trihydrate (H3O+·C5H5N4O+·2NO3-·2H2O, Hx2) was determined at 20 and 100 K, and also has not been reported previously. The Hx2 structure consists of two types of layers: the `hypoxanthinium nitrate monohydrate' layers (HX) observed in Hx1 and layers of Zundel complex H3O+·H2O interacting with nitrate anions (OX). The crystal can be considered as a solid solution of two salts, i.e. hypoxanthinium nitrate monohydrate, C5H5N4O+·NO3-·H2O, and oxonium nitrate monohydrate, H3O+(H2O)·NO3-.
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Affiliation(s)
- Małgorzata Katarzyna Cabaj
- Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, ul. Żwirki i Wigury 101, Warszawa 02-089, Poland
| | - Roman Gajda
- Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, ul. Żwirki i Wigury 101, Warszawa 02-089, Poland
| | - Anna Hoser
- Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, ul. Żwirki i Wigury 101, Warszawa 02-089, Poland
| | - Anna Makal
- Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, ul. Żwirki i Wigury 101, Warszawa 02-089, Poland
| | - Paulina Maria Dominiak
- Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, ul. Żwirki i Wigury 101, Warszawa 02-089, Poland
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4
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Hughes CE, Reddy GNM, Masiero S, Brown SP, Williams PA, Harris KDM. Determination of a complex crystal structure in the absence of single crystals: analysis of powder X-ray diffraction data, guided by solid-state NMR and periodic DFT calculations, reveals a new 2'-deoxyguanosine structural motif. Chem Sci 2017; 8:3971-3979. [PMID: 28553539 PMCID: PMC5433513 DOI: 10.1039/c7sc00587c] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Accepted: 03/15/2017] [Indexed: 12/20/2022] Open
Abstract
Derivatives of guanine exhibit diverse supramolecular chemistry, with a variety of distinct hydrogen-bonding motifs reported in the solid state, including ribbons and quartets, which resemble the G-quadruplex found in nucleic acids with sequences rich in guanine. Reflecting this diversity, the solid-state structural properties of 3',5'-bis-O-decanoyl-2'-deoxyguanosine, reported in this paper, reveal a hydrogen-bonded guanine ribbon motif that has not been observed previously for 2'-deoxyguanosine derivatives. In this case, structure determination was carried out directly from powder XRD data, representing one of the most challenging organic molecular structures (a 90-atom molecule) that has been solved to date by this technique. While specific challenges were encountered in the structure determination process, a successful outcome was achieved by augmenting the powder XRD analysis with information derived from solid-state NMR data and with dispersion-corrected periodic DFT calculations for structure optimization. The synergy of experimental and computational methodologies demonstrated in the present work is likely to be an essential feature of strategies to further expand the application of powder XRD as a technique for structure determination of organic molecular materials of even greater complexity in the future.
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Affiliation(s)
- Colan E Hughes
- School of Chemistry , Cardiff University , Park Place , Cardiff , CF10 3AT , UK .
| | | | - Stefano Masiero
- Dipartimento di Chimica "G. Ciamician" , Alma Mater Studiorum - Università di Bologna , via San Giacomo , 11-40126 Bologna , Italy
| | - Steven P Brown
- Department of Physics , University of Warwick , Coventry , CV4 7AL , UK
| | - P Andrew Williams
- School of Chemistry , Cardiff University , Park Place , Cardiff , CF10 3AT , UK .
| | - Kenneth D M Harris
- School of Chemistry , Cardiff University , Park Place , Cardiff , CF10 3AT , UK .
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5
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Villarreal W, Colina-Vegas L, Rodrigues de Oliveira C, Tenorio JC, Ellena J, Gozzo FC, Cominetti MR, Ferreira AG, Ferreira MAB, Navarro M, Batista AA. Chiral Platinum(II) Complexes Featuring Phosphine and Chloroquine Ligands as Cytotoxic and Monofunctional DNA-Binding Agents. Inorg Chem 2015; 54:11709-20. [DOI: 10.1021/acs.inorgchem.5b01647] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Wilmer Villarreal
- Departamento de Química, Universidade Federal de São Carlos−UFSCar, CEP 13565-905, São Carlos-SP, Brazil
| | - Legna Colina-Vegas
- Departamento de Química, Universidade Federal de São Carlos−UFSCar, CEP 13565-905, São Carlos-SP, Brazil
| | | | - Juan C. Tenorio
- Instituto de Física de São Carlos, Universidade de São Paulo, CEP 13560-970, São
Carlos-SP, Brazil
| | - Javier Ellena
- Instituto de Física de São Carlos, Universidade de São Paulo, CEP 13560-970, São
Carlos-SP, Brazil
| | - Fábio C. Gozzo
- Instituto de Química, Universidade Estadual de Campinas−UNICAMP, CEP 13083-970, Campinas-SP, Brazil
| | - Marcia Regina Cominetti
- Departamento de Gerontologia, Universidade Federal de São Carlos−UFSCar, CEP, 13565-905, São Carlos-SP, Brazil
| | - Antonio G. Ferreira
- Departamento de Química, Universidade Federal de São Carlos−UFSCar, CEP 13565-905, São Carlos-SP, Brazil
| | | | - Maribel Navarro
- Instituto Nacional de Metrologia, Qualidade e Tecnologia, INMETRO, CEP, 25250-020 Rio de Janeiro-RJ, Brazil
| | - Alzir A. Batista
- Departamento de Química, Universidade Federal de São Carlos−UFSCar, CEP 13565-905, São Carlos-SP, Brazil
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6
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Albertí FM, Rodríguez-Santiago L, Sodupe M, Mirats A, Kaitsiotou H, Sanz Miguel PJ, Lippert B. Mixed adenine/guanine quartets with three trans-a2 Pt(II) (a=NH(3) or MeNH(2)) cross-links: linkage and rotational isomerism, base pairing, and loss of NH(3). Chemistry 2014; 20:3394-407. [PMID: 24532472 DOI: 10.1002/chem.201304686] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2013] [Indexed: 11/12/2022]
Abstract
Of the numerous ways in which two adenine and two guanines (N9 positions blocked in each) can be cross-linked by three linear metal moieties such as trans-a2 Pt(II) (with a=NH3 or MeNH2 ) to produce open metalated purine quartets with exclusive metal coordination through N1 and N7 sites, one linkage isomer was studied in detail. The isomer trans,trans,trans-[{Pt(NH3 )2 (N7-9-EtA-N1)2 }{Pt(MeNH2 )2 (N7-9-MeGH)}2 ][(ClO4 )6 ]⋅3H2 O (1) (with 9-EtA=9-ethyladenine and 9-MeGH=9-methylguanine) was crystallized from water and found to adopt a flat Z-shape in the solid state as far as the trinuclear cation is concerned. In the presence of excess 9-MeGH, a meander-like construct, trans,trans,trans-[{Pt(NH3 )2 (N7-9-EtA-N1)2 }{Pt(MeNH2 )2 (N7-9-MeGH)2 }][(ClO4 )6 ]⋅[(9-MeGH)2 ]⋅7 H2 O (2) is formed, in which the two extra 9-MeGH nucleobases are hydrogen bonded to the two terminal platinated guanine ligands of 1. Compound 1, and likewise the analogous complex 1 a (with NH3 ligands only), undergo loss of an ammonia ligand and formation of NH4 (+) when dissolved in [D6 ]DMSO. From the analogy between the behavior of 1 and 1 a it is concluded that a NH3 ligand from the central Pt atom is lost. Addition of 1-methylcytosine (1-MeC) to such a DMSO solution reveals coordination of 1-MeC to the central Pt. In an analogous manner, 9-MeGH can coordinate to the central Pt in [D6 ]DMSO. It is proposed that the proton responsible for formation of NH4 (+) is from one of the exocyclic amino groups of the two adenine bases, and furthermore, that this process is accompanied by a conformational change of the cation from Z-form to U-form. DFT calculations confirm the proposed mechanism and shed light on possible pathways of this process. Calculations show that rotational isomerism is not kinetically hindered and that it would preferably occur previous to the displacement of NH3 by DMSO. This displacement is the most energetically costly step, but it is compensated by the proton transfer to NH3 and formation of U(-H(+) ) species, which exhibits an intramolecular hydrogen bond between the deprotonated N6H(-) of one adenine and the N6H2 group of the other adenine. Finally the question is examined, how metal cross-linking patterns in closed metallacyclic quartets containing two adenine and two guanine nucleobases influence the overall shape (square, rectangle, trapezoid) and the planarity of a metalated purine quartet.
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Affiliation(s)
- Francisca M Albertí
- Fakultät Chemie und Chemische Biologie, Technische Universität Dortmund, Otto-Hahn-Strasse 6, 44221 Dortmund (Germany), Fax: (+49) 231-755-3797
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7
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Paragi G, Kupihár Z, Guerra CF, Bickelhaupt FM, Kovács L. Supramolecular ring structures of 7-methylguanine: a computational study of its self-assembly and anion binding. Molecules 2012; 18:225-35. [PMID: 23271462 PMCID: PMC6269867 DOI: 10.3390/molecules18010225] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2012] [Revised: 12/14/2012] [Accepted: 12/21/2012] [Indexed: 11/29/2022] Open
Abstract
The density functional theory calculations of 7-methylguanine clusters revealed that stable ring assemblies can be formed with or without anions in the center position and hexameric clusters are the most stable and most planar ones. The coordination of anions (Cl−, Br−, NO3−) stabilizes and thus favors the formation of planar aggregates. We believe that the predicted planar structures stabilized by anions are good models for self-assembly structures formed at solid-liquid or solid-gas interfaces. Comparing the bonding and average H-bond energy to reference ribbon calculations we pointed out the presence of the previously introduced cooperativity effect in circular supramolecular structures of 7-methylguanine.
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Affiliation(s)
- Gábor Paragi
- Supramolecular and Nanostructured Materials Research Group of the Hungarian Academy of Sciences, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +36-62-544-593; Fax: +36-62-545-971
| | - Zoltán Kupihár
- Department of Medical Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; E-Mails: (Z.K.); (L.K.)
| | - Célia Fonseca Guerra
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM), VU University Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands; E-Mails: (C.F.G.); (F.M.B.)
| | - F. Matthias Bickelhaupt
- Department of Theoretical Chemistry and Amsterdam Center for Multiscale Modeling (ACMM), VU University Amsterdam, De Boelelaan 1083, 1081 HV Amsterdam, The Netherlands; E-Mails: (C.F.G.); (F.M.B.)
| | - Lajos Kovács
- Department of Medical Chemistry, University of Szeged, Dóm tér 8, H-6720 Szeged, Hungary; E-Mails: (Z.K.); (L.K.)
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