The stability of pyridine upon chemical attack under the conditions of primitive Earth

2020 ◽  
Author(s):  
Nadia Balucani ◽  
Pedro Recio ◽  
Demian Marchione ◽  
Adriana Caracciolo ◽  
Piergiorgio Casavecchia

<p>Pyridine is a heterocyclic aromatic molecule of gross formula C<sub>5</sub>H<sub>5</sub>N where the N atom is included in the aromatic ring. The molecule as such is not abundant in nature, but its derivatives are often part of important biomolecules. For instance, it is one of the basic units in the nicotinamide adenine dinucleotide, NADH, which is an essential reducing agent in various biological processes. Interestingly, pyridine derivatives (e.g. 2,4,6-trimethylpyridine and pyridine carboxylic acids) were identified in carbonaceous chondrites [1-4] along with many other molecules of biological significance. In addition to that, nicotinonitrile (3-cyanopyridine) as well as 2- and 4-cyanopyridine have been synthesized in a version of the Miller experiment by the action of electric discharges on ethylene and ammonia, with an intermediate step being the synthesis of pyridine [5]. The possibility that nicotinonitrile hydrolyzed in the primitive ocean to nicotinamide and nicotinic acid reinforces the prebiotic potential of pyridine.</p> <p>In conclusion, either formed locally on Earth from simple precursors or brought by extraterrestrial carriers, the presence of pyridine or of one of its derivatives could have played an important role in the organic chemistry that triggered the origin of life on Earth. Pyridine formation can also be seen as an intermediate step towards the formation of pyrimidine (C<sub>4</sub>H<sub>4</sub>N<sub>2</sub>), a species constituting the molecular skeleton of important nucleobases (cytosine, uracil and thymine). Pyridine and pyrimidine are also expected to share similarities in their chemical behavior because of the presence of N in the aromatic ring in the place of one (pyridine) or two (pyrimidine) methine groups (=CH−).</p> <p>For the above reasons, in our laboratory we have undertaken a systematic experimental investigation to address pyridine stability in the conditions of primitive Earth. In a first series of experiments, we have exposed isolated pyridine molecules to the attack of very reactive species, namely atomic oxygen and nitrogen. The aim is to verify whether the N-containing aromatic ring of pyridine is preserved after the chemical attack of reactive transient species like O and N atoms that might have been relatively abundant under the conditions of primitive Earth when the O<sub>2</sub>/O<sub>3</sub> UV shield was not present yet. The employed experimental technique is the one described in Ref. [6]. The implications for the stability of pyridine and its derivatives, or of other molecules for which pyridine can be considered as a proxy, will be noted.</p> <p>The Authors wish to thank the Italian Space Agency for co-funding the <span class="markrnqlbh7dn" data-markjs="true" data-ogac="" data-ogab="" data-ogsc="" data-ogsb="">Life</span> in Space project (<span class="markn33axkulf" data-markjs="true" data-ogac="" data-ogab="" data-ogsc="" data-ogsb="">ASI</span> N. 2019-3-U.0).</p> <p> </p> <p>[1] P. G.Stoks, A. W. Schwartz. Basic nitrogen-heterocyclic compounds in the Murchison meteorite. Geochimica et Cosmochimica Acta 46, 309-315 (1982).</p> <p>[2] Y. Yamashita, H. Naraoka. Two homologous series of alkylpyridines in the Murchison meteorite. Geochemical Journal 48, 519-525, (2014).</p> <p>[3] S. Pizzarello, Y. Huang, L. Becker, R. J. Poreda, R. A. Nieman, G. Cooper, M. Williams. The Organic Content of the Tagish Lake Meteorite. Science 293, 2236- 2239 (2001).</p> <p>[4] K. E. Smith, M. P. Callahan, P. A. Gerakines, J. P. Dworkin, C. H. House. Investigation of pyridine carboxylic acids in CM2 carbonaceous chondrites: Potential precursor molecules for ancient coenzymes. Geochimica et Cosmochimica Acta 136, 1–12 (2014).</p> <p>[5] N. Friedmann, S. L. Miller, R. A. Sanchez. Primitive Earth Synthesis of Nicotinic Acid Derivatives. Science Vol. 171, 1026-1027 (1971).</p> <p>[6] N. Balucani. Elementary reactions of N atoms with hydrocarbons: first steps towards the formation of prebiotic N-containing molecules in planetary atmospheres. Chem. Soc. Rev. 41, 5473–5483 (2012).</p>

2014 ◽  
Vol 136 ◽  
pp. 1-12 ◽  
Author(s):  
Karen E. Smith ◽  
Michael P. Callahan ◽  
Perry A. Gerakines ◽  
Jason P. Dworkin ◽  
Christopher H. House

2018 ◽  
Vol 21 (8) ◽  
pp. 609-614
Author(s):  
Zahra Zaghari ◽  
Javad Azizian

Aim and Objective: A wide variety of synthesized amidine derivatives are bioactive compounds. They show a vast range of medical properties. Therefore, a simple route for synthesis of novel class of amidine derivatives called amidino carboxylic acids and their use as catalysts in Strecker reaction has been reported in the current work. The stability, local charge density and hydrogen bond parameters were calculated for eight derivatives with different substituents. Materials and Methods: In order to synthesize these amidino carboxylic acids, we initially prepared Knovenogel condensation products via the reaction of isatin derivatives with malonitrile. When the reaction was performed in water, the resulting nitrile groups of malonitrile derivatives was hydrolyzed with HOAC/ H2SO4 to generate the desired amide groups. The amide groups in resulting compound converted to amine groups with two Hoffman rearrangements in the presence of NaOH/Br2. Further neutralization led to the final zwitterionic α-amidino carboxylic acids. In the next step, the catalytic activity of these compounds as H-bond donor catalyst was investigated in Strecker reaction. Results: The overall yields of the derivatives with substituent on the aromatic ring of starting isatins are higher than that for the overall yields of nitrogen-substituted isatins. The reaction of 5-nitro isatin with the next reagent gives lower yield in aryl-substituted products. An increase of catalytic activity is observed by rising the electron-withdrawing power of the aromatic ring substituents., The presence of nitro group in the structure of catalyst caused a large increase of catalytic activity in Strecker reaction. DFT calculations at B3LYP/6-31++g(d,p) and Lanl2dz level of theory showed that these compounds act as single H-bond catalysts and higher yields were obtained for complexes with stronger hydrogen bond. Conclusion: A simple and efficient method for synthesis of ɑ-amidino carboxylic acids was developed in this research. These compounds have been used as a single H-bond donor catalyst in the Strecker reaction. DFT calculations were carried out to confirm the experimental results. The obtained data from computations are in good agreement with experimental results.


Catalysts ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 255
Author(s):  
Dien-Thien To ◽  
Yu-Chuan Lin

Copper phyllosilicates-derived catalysts (CuPS-cats) have been intensively explored in the past two decades due to their promising activity in carbonyls hydrogenation. However, CuPS-cats have not been completely reviewed. This paper focuses on the aspects concerning CuPS-cats from synthesis methods, effects of preparation conditions, and dopant to catalytic applications of CuPS-cats. The applications of CuPS-cats include the hydrogenation of carboxylates, carboxylic acids, carbonates, formyls, and CO2 to their respective alcohols. Besides, important factors such as the Cu dispersion, Cu+ and Cu0 surface areas, particles size, interaction between Cu and supports and dopants, morphologies, and spatial effect on catalytic performance of CuPS-cats are discussed. The deactivation and remedial actions to improve the stability of CuPS-cats are summarized. It ends up with the challenges and prospective by using this type of catalyst.


2006 ◽  
Vol 691 (8) ◽  
pp. 1622-1630 ◽  
Author(s):  
Attila Szorcsik ◽  
László Nagy ◽  
Michelangelo Scopelliti ◽  
Andrea Deák ◽  
Lorenzo Pellerito ◽  
...  

1981 ◽  
Vol 36 (10) ◽  
pp. 1270-1272 ◽  
Author(s):  
Saktiprosad Ghosh ◽  
Pranab K. Ray ◽  
Tapas K. Bandyopadhyay ◽  
Amal K. Deb

Abstract The syntheses of three new and unusually stable Mn(III) complexes of pyridine-2-carboxylic acid, pyridine-2,6-dicarboxylic acid and pyridine-2,4,6-tricarboxylic acid and their characterisation by various standard physicochemical methods is reported


2019 ◽  
Vol 116 (4) ◽  
pp. 1110-1115 ◽  
Author(s):  
Bingqing Cheng ◽  
Edgar A. Engel ◽  
Jörg Behler ◽  
Christoph Dellago ◽  
Michele Ceriotti

Thermodynamic properties of liquid water as well as hexagonal (Ih) and cubic (Ic) ice are predicted based on density functional theory at the hybrid-functional level, rigorously taking into account quantum nuclear motion, anharmonic fluctuations, and proton disorder. This is made possible by combining advanced free-energy methods and state-of-the-art machine-learning techniques. The ab initio description leads to structural properties in excellent agreement with experiments and reliable estimates of the melting points of light and heavy water. We observe that nuclear-quantum effects contribute a crucial 0.2 meV/H2O to the stability of ice Ih, making it more stable than ice Ic. Our computational approach is general and transferable, providing a comprehensive framework for quantitative predictions of ab initio thermodynamic properties using machine-learning potentials as an intermediate step.


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