A comparative study of 2,4-quinazolinediones by X-ray crystallography. The role of the OMe group on the hydrogen bonding motifs formation

2012 ◽  
Vol 11 (4) ◽  
pp. 259-265
Author(s):  
Leticia Guerrero ◽  
Ruben Montalvo ◽  
Ignacio A. Rivero ◽  
Victor Barba
Keyword(s):  
Hydrogen Bonding ◽  
Comparative Study ◽  
X Ray ◽  
X Ray Crystallography

scholarly journals Mechanochemical Synthesis and Structure of the Tetrahydrate and Mesoporous Anhydrous Metforminium(2+)-N,N’-1,4-Phenylenedioxalamic Acid Cocrystal Salt: The Role of Hydrogen Bonding and N→π* Charge Assisted Interactions

2020 ◽  
Author(s):  
Sayuri Chong-Canto ◽  
Efrén V. García-Báez ◽  
Francisco J. Martínez-Martínez ◽  
Ángel Ramos-Organillo ◽  
Itzia I. Padilla-Martínez
Keyword(s):  
Hydrogen Bonding ◽  
Mechanochemical Synthesis ◽  
Water Molecules ◽  
X Ray ◽  
X Ray Crystallography ◽  
Adsorption Desorption ◽  
First Time ◽  
Selective Formation ◽  
Crystallization From Solution

A new cocrystal salt of metformin, an antidiabetic drug, and N,N’-(1,4-phenylene)dioxalamic acid, was synthesized by mechanochemical synthesis, purified by crystallization from solution and characterized by single X-ray crystallography. The structure revealed a salt-type cocrystal composed of one dicationic metformin unit, two monoanionic units of the acid and four water molecules namely H2Mf(HpOXA)2∙4H2O. X-ray powder, IR, 13C-CPMAS, thermal and BET adsorption-desorption analyses were performed to elucidate the structure of the molecular and supramolecurar structure of the anhydrous microcrystalline mesoporous solid H2Mf(HpOXA)2. The results suggest that their structures, conformation and hydrogen bonding schemes are very similar between them. To the best of our knowledge, the selective formation of the monoanion HpOXA⁻, as well as its structure in the solid, is herein reported for the first time. Regular O(-)∙∙∙C(), O(-)∙∙∙N+ and bifacial O(-)∙∙∙C()∙∙∙O(-) of n→* charge-assisted interactions are herein described in H2MfA cocrystal salts which could be responsible of the interactions of metformin in biologic systems. The results, support the participation of n→* charge-assisted interactions independently, and not just as a short contact imposed by the geometric constraint due to the hydrogen bonding patterns.

scholarly journals Mechanochemical Synthesis and Structure of the Tetrahydrate and Mesoporous Anhydrous Metforminium(2+)-N,N′-1,4-Phenylenedioxalamic Acid (1:2) Salt: The Role of Hydrogen Bonding and n→π * Charge Assisted Interactions

Pharmaceutics ◽  
2020 ◽  
Vol 12 (10) ◽  
pp. 998 ◽  
Author(s):  
Sayuri Chong-Canto ◽  
Efrén V. García-Báez ◽  
Francisco J. Martínez-Martínez ◽  
Angel A. Ramos-Organillo ◽  
Itzia I. Padilla-Martínez
Keyword(s):  
Hydrogen Bonding ◽  
Organic Salt ◽  
Organic Salts ◽  
X Ray ◽  
X Ray Crystallography ◽  
Adsorption Desorption ◽  
First Time ◽  
Selective Formation ◽  
Crystallization From Solution

A new organic salt of metformin, an antidiabetic drug, and N,N′-(1,4-phenylene)dioxalamic acid, was mechanochemically synthesized, purified by crystallization from solution and characterized by single X-ray crystallography. The structure revealed a salt-type crystal hydrate composed of one dicationic metformin unit, two monoanionic units of the acid and four water molecules, namely H2Mf(HpOXA)2∙4H2O. X-ray powder, IR, 13C-CPMAS, thermal and BET adsorption–desorption analyses were performed to elucidate the structure of the molecular and supramolecular structure of the anhydrous microcrystalline mesoporous solid H2Mf(HpOXA)2. The results suggest that their structures, conformation and hydrogen bonding schemes are very similar. To the best of our knowledge, the selective formation of the monoanion HpOXA−, as well as its structure in the solid, is herein reported for the first time. Regular O(δ−)∙∙∙C(δ), O(δ−)∙∙∙N+ and bifacial O(δ−)∙∙∙C(δ)∙∙∙O(δ−) of n→π * charge-assisted interactions are herein described in H2MfA organic salts which could be responsible of the interactions of metformin in biologic systems. The results support the participation of n→π * charge-assisted interactions independently, and not just as a short contact imposed by the geometric constraint due to the hydrogen bonding patterns.

Encapsulation of ferrocenes by hydrogen-bonded pyrogallol[4]arene dimers

2018 ◽  
Vol 73 (8) ◽  
pp. 597-600
Author(s):  
Bei Wang ◽  
Ai-Quan Jia ◽  
Hong-Mei Yang ◽  
Jing-Long Liu ◽  
Qian-Feng Zhang
Keyword(s):  
Hydrogen Bonding ◽  
Single Crystal ◽  
Molar Ratio ◽  
Reaction Conditions ◽  
X Ray ◽  
X Ray Crystallography ◽  
Capsule Type ◽  
Hydrogen Bonding Networks ◽  
Hydrogen Bonded

AbstractThe treatment of C-iso-butylpyrogallarene (PgC4) or C-ethylpyrogallarene (PgC2) with ferrocene (FcH) in a 2:1 molar ratio under different reaction conditions afforded the host–guest compounds FcH@(PgC4)2·CH3OH·3H2O (1) and FcH@(PgC2)2·3EtOH·2H2O (2), respectively. Complexes 1 and 2 are both pyrogallarene dimers providing capsule-type voids. Single crystal X-ray crystallography was used to investigate the role of hydrogen bonding networks in the assembly of the two host–guest systems.

The role of hydrogen bonding in tuning CEST contrast efficiency: A comparative study of intra and inter molecular hydrogen bonding

2022 ◽  
Author(s):  
Shalini Pandey ◽  
Subhayan Chakraborty ◽  
Rimilmandrita Ghosh ◽  
Divya Radhakrishnan ◽  
Saravanan Peruncheralathan ◽  
...  
Keyword(s):  
Hydrogen Bonding ◽  
Comparative Study ◽  
Contrast Agents ◽  
Diagnostic Tool ◽  
Molecular Hydrogen

The effectiveness of MRI as a diagnostic tool have increased tremendously after the discovery of contrast agents (CA). Most of the clinically approved CAs at present are relaxation based and...

scholarly journals Probing the Role of Divalent Metal Ions in a Bacterial Psychrophilic Metalloprotease: Binding Studies of an Enzyme in the Crystalline State by X-Ray Crystallography

2003 ◽  
Vol 185 (14) ◽  
pp. 4195-4203 ◽  
Author(s):  
Stephanie Ravaud ◽  
Patrice Gouet ◽  
Richard Haser ◽  
Nushin Aghajari
Keyword(s):  
Metal Ions ◽  
Calcium Ions ◽  
Calcium Ion ◽  
Crystalline State ◽  
Zinc Ion ◽  
Binding Studies ◽  
X Ray ◽  
X Ray Crystallography ◽  
Catalytic Zinc

ABSTRACT The psychrophilic alkaline metalloprotease (PAP) produced by a Pseudomonas bacterium isolated in Antarctica belongs to the clan of metzincins, for which a zinc ion is essential for catalytic activity. Binding studies in the crystalline state have been performed by X-ray crystallography in order to improve the understanding of the role of the zinc and calcium ions bound to this protease. Cocrystallization and soaking experiments with EDTA in a concentration range from 1 to 85 mM have resulted in five three-dimensional structures with a distinct number of metal ions occupying the ion-binding sites. Evolution of the structural changes observed in the vicinity of each cation-binding site has been studied as a function of the concentration of EDTA, as well as of time, in the presence of the chelator. Among others, we have found that the catalytic zinc ion was the first ion to be chelated, ahead of a weakly bound calcium ion (Ca 700) exclusive to the psychrophilic enzyme. Upon removal of the catalytic zinc ion, the side chains of the active-site residues His-173, His-179 and Tyr-209 shifted ∼4, 1.0, and 1.6 Å, respectively. Our studies confirm and also explain the sensitivity of PAP toward moderate EDTA concentrations and propose distinct roles for the calcium ions. A new crystal form of native PAP validates our previous predictions regarding the adaptation of this enzyme to cold environments as well as the proteolytic domain calcium ion being exclusive for PAP independent of crystallization conditions.

scholarly journals Role of Computational Methods in Going beyond X-ray Crystallography to Explore Protein Structure and Dynamics

2018 ◽  
Vol 19 (11) ◽  
pp. 3401 ◽  
Author(s):  
Ashutosh Srivastava ◽  
Tetsuro Nagai ◽  
Arpita Srivastava ◽  
Osamu Miyashita ◽  
Florence Tama
Keyword(s):  
Protein Dynamics ◽  
Computational Methods ◽  
Protein Structures ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
X Ray ◽  
X Ray Crystallography ◽  
Insight Into

Protein structural biology came a long way since the determination of the first three-dimensional structure of myoglobin about six decades ago. Across this period, X-ray crystallography was the most important experimental method for gaining atomic-resolution insight into protein structures. However, as the role of dynamics gained importance in the function of proteins, the limitations of X-ray crystallography in not being able to capture dynamics came to the forefront. Computational methods proved to be immensely successful in understanding protein dynamics in solution, and they continue to improve in terms of both the scale and the types of systems that can be studied. In this review, we briefly discuss the limitations of X-ray crystallography in studying protein dynamics, and then provide an overview of different computational methods that are instrumental in understanding the dynamics of proteins and biomacromolecular complexes.

Structural Variations in Tetrasilver(I) Complexes of Pyrazolate-bridged Compartmental N-Heterocyclic Carbene Ligands

2009 ◽  
Vol 64 (11-12) ◽  
pp. 1542-s1554 ◽  
Author(s):  
Maria Georgiou ◽  
Simone Wöckel ◽  
Vera Konstanzer ◽  
Sebastian Dechert ◽  
Michael John ◽  
...  
Keyword(s):  
Hydrogen Bonding ◽  
Nmr Spectroscopy ◽  
Carbene Ligands ◽  
Structural Variations ◽  
X Ray ◽  
Face To Face ◽  
Tert Butyl ◽  
X Ray Crystallography

A set of pyrazole-bridged bis(imidazolium) compounds [H3L1]X2 - [H3 L4]X2 (L1 = 3,5-bis[1-(tert-butyl)imidazolium-1-ylmethyl]-1H-pyrazole; L2 = 3,5-bis[1-(tert-butyl)imidazolium- 1-ylmethyl]-4-phenyl-1H-pyrazole; L3 = 3,5-bis[1-(1-adamantyl)imidazolium-1-ylmethyl]-1Hpyrazole; L4 = 3,5-bis[1-(1-adamantyl)imidazolium-1-ylmethyl]-4-phenyl-1H-pyrazole; X = Cl−, BF4 − or PF6 −) has been prepared, and three compounds have been characterized by X-ray crystallography. The unique [H3L4][H2L4](PF6)3 features a dimeric face-to-face arrangement of two molecules due to the involvement of both the pyrazole-NH and the imidazolium C2H in hydrogen bonding. [H3L1]X2 - [H3L4]X2 serve as precursors for silver(I) complexes with compartmental pyrazolate-bridged bis(NHC) ligands. The complexes have been readily prepared by the Ag2O route and feature either the known [(L1−4)2Ag4]2+ or the new [(H2L1)4Ag4]8+ motif, depending on the solvent for the reaction (MeCN or acetone). [(H2L1)4Ag4](PF6)8 contains a central (pzAg)4 ring with pendant imidazolium side arms. Upon further reaction with Ag2O in MeCN it was found to undergo transformation to the corresponding [(L1)2Ag4](PF6)2. All complexes have been thoroughly studied by NMR spectroscopy in solution, and preliminary luminescence data of [(H2L1)4Ag4](PF6)8 have been recorded

Compressibility to 7 GPa at 298 K of the protonated octahedral framework mineral burtite, CaSn(OH)6

2002 ◽  
Vol 66 (3) ◽  
pp. 431-440 ◽  
Author(s):  
M. D. Welch ◽  
W. A. Crichton
Keyword(s):  
Hydrogen Bonding ◽  
Equation Of State ◽  
Major Effect ◽  
Third Order ◽  
Space Group ◽  
X Ray ◽  
The Difference ◽  
Murnaghan Equation ◽  
Hydrogen Bonded

AbstractThe equation of state of synthetic deuterated burtite, CaSn(OD)6, has been determined to 7.25 GPa at 298 K by synchrotron X-ray powder diffraction. Fitting to a third-order Birch-Murnaghan equation of state gives K0 = 44.7(9) GPa and K0′ = 5.3(4). A second-order fit gives K0 = 47.4(4) GPa. Within experimental error the two fits are indistinguishable over the pressure range studied. The decrease in the a parameter with pressure is smooth and no phase transitions were observed. Burtite is much more compressible (by a factor of three or four) than CaSnO3 and CdSnO3 perovskites, indicating that the absence of a cavity cation has a major effect upon the compressibility of the octahedral framework. Burtite is also markedly more compressible than the closely-related mineral stottite FeGe(OH)6 (K0 = 78 GPa). Their different compressibilities correlate with the relative compressibilities of stannate and germanate perovskites. Although different octahedral compressions are likely to be the primary reason for the different compressibilities of burtite and stottite, we also consider the possible secondary role of hydrogen-bonding topology in affecting the compressibilities of protonated octahedral frameworks. Burtite and stottite have different hydrogen-bonding topologies due to their different octahedral-tilt system. Burtite, space group Pn3̄ and tilt system a+a+a+, has a hydrogen-bonded network of linked four-membered rings of O-H…O linkages, whereas stottite, space group P42/n and tilt system a+a+c−, has <100> O-H…O crankshafts and isolated four-membered rings. These different hydrogen-bonded configurations lead to different bracing of the empty cavity sites by the O-H…O linkages and very different hydrogen-bonding connectivities in these two minerals that may also enhance the difference between their compressibilities.

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