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Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid
The structure of zymonic acid (systematic name: 4-hydroxy-2-methyl-5-oxo-2,5-dihydrofuran-2-carboxylic acid), C(6)H(6)O(5), which had previously eluded crystallographic determination, is presented here for the first time. It forms by intramolecular condensation of parapyruvic acid, which is th...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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International Union of Crystallography
2019
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6658982/ https://www.ncbi.nlm.nih.gov/pubmed/31391982 http://dx.doi.org/10.1107/S2056989019007072 |
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author | Heger, Dominik Eugene, Alexis J. Parkin, Sean R. Guzman, Marcelo I. |
author_facet | Heger, Dominik Eugene, Alexis J. Parkin, Sean R. Guzman, Marcelo I. |
author_sort | Heger, Dominik |
collection | PubMed |
description | The structure of zymonic acid (systematic name: 4-hydroxy-2-methyl-5-oxo-2,5-dihydrofuran-2-carboxylic acid), C(6)H(6)O(5), which had previously eluded crystallographic determination, is presented here for the first time. It forms by intramolecular condensation of parapyruvic acid, which is the product of aldol condensation of pyruvic acid. A redetermination of the crystal structure of pyruvic acid (systematic name: 2-oxopropanoic acid), C(3)H(4)O(3), at low temperature (90 K) and with increased precision, is also presented [for the previous structure, see: Harata et al. (1977 ▸). Acta Cryst. B33, 210–212]. In zymonic acid, the hydroxylactone ring is close to planar (r.m.s. deviation = 0.0108 Å) and the dihedral angle between the ring and the plane formed by the bonds of the methyl and carboxylic acid carbon atoms to the ring is 88.68 (7)°. The torsion angle of the carboxylic acid group relative to the ring is 12.04 (16)°. The pyruvic acid molecule is almost planar, having a dihedral angle between the carboxylic acid and methyl-ketone groups of 3.95 (6)°. Intermolecular interactions in both crystal structures are dominated by hydrogen bonding. The common R (2) (2)(8) hydrogen-bonding motif links carboxylic acid groups on adjacent molecules in both structures. In zymonic acid, this results in dimers about a crystallographic twofold of space group C2/c, which forces the carboxylic acid group to be disordered exactly 50:50, which scrambles the carbonyl and hydroxyl groups and gives an apparent equalization of the C—O bond lengths [1.2568 (16) and 1.2602 (16) Å]. The other hydrogen bonds in zymonic acid (O—H⋯O and weak C—H⋯O), link molecules across a 2(1)-screw axis, and generate an R (2) (2)(9) motif. These hydrogen-bonding interactions propagate to form extended pleated sheets in the ab plane. Stacking of these zigzag sheets along c involves only van der Waals contacts. In pyruvic acid, inversion-related molecules are linked into R (2) (2)(8) dimers, with van der Waals interactions between dimers as the only other intermolecular contacts. |
format | Online Article Text |
id | pubmed-6658982 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | International Union of Crystallography |
record_format | MEDLINE/PubMed |
spelling | pubmed-66589822019-08-07 Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid Heger, Dominik Eugene, Alexis J. Parkin, Sean R. Guzman, Marcelo I. Acta Crystallogr E Crystallogr Commun Research Communications The structure of zymonic acid (systematic name: 4-hydroxy-2-methyl-5-oxo-2,5-dihydrofuran-2-carboxylic acid), C(6)H(6)O(5), which had previously eluded crystallographic determination, is presented here for the first time. It forms by intramolecular condensation of parapyruvic acid, which is the product of aldol condensation of pyruvic acid. A redetermination of the crystal structure of pyruvic acid (systematic name: 2-oxopropanoic acid), C(3)H(4)O(3), at low temperature (90 K) and with increased precision, is also presented [for the previous structure, see: Harata et al. (1977 ▸). Acta Cryst. B33, 210–212]. In zymonic acid, the hydroxylactone ring is close to planar (r.m.s. deviation = 0.0108 Å) and the dihedral angle between the ring and the plane formed by the bonds of the methyl and carboxylic acid carbon atoms to the ring is 88.68 (7)°. The torsion angle of the carboxylic acid group relative to the ring is 12.04 (16)°. The pyruvic acid molecule is almost planar, having a dihedral angle between the carboxylic acid and methyl-ketone groups of 3.95 (6)°. Intermolecular interactions in both crystal structures are dominated by hydrogen bonding. The common R (2) (2)(8) hydrogen-bonding motif links carboxylic acid groups on adjacent molecules in both structures. In zymonic acid, this results in dimers about a crystallographic twofold of space group C2/c, which forces the carboxylic acid group to be disordered exactly 50:50, which scrambles the carbonyl and hydroxyl groups and gives an apparent equalization of the C—O bond lengths [1.2568 (16) and 1.2602 (16) Å]. The other hydrogen bonds in zymonic acid (O—H⋯O and weak C—H⋯O), link molecules across a 2(1)-screw axis, and generate an R (2) (2)(9) motif. These hydrogen-bonding interactions propagate to form extended pleated sheets in the ab plane. Stacking of these zigzag sheets along c involves only van der Waals contacts. In pyruvic acid, inversion-related molecules are linked into R (2) (2)(8) dimers, with van der Waals interactions between dimers as the only other intermolecular contacts. International Union of Crystallography 2019-05-24 /pmc/articles/PMC6658982/ /pubmed/31391982 http://dx.doi.org/10.1107/S2056989019007072 Text en © Heger et al. 2019 http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.http://creativecommons.org/licenses/by/4.0/ |
spellingShingle | Research Communications Heger, Dominik Eugene, Alexis J. Parkin, Sean R. Guzman, Marcelo I. Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title | Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title_full | Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title_fullStr | Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title_full_unstemmed | Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title_short | Crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
title_sort | crystal structure of zymonic acid and a redetermination of its precursor, pyruvic acid |
topic | Research Communications |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6658982/ https://www.ncbi.nlm.nih.gov/pubmed/31391982 http://dx.doi.org/10.1107/S2056989019007072 |
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