A New Route to the Prebiotic Synthesis of Glycine via Ab Initio-Based Machine Learning Calculations

被引:1
作者
Huet, Leon [1 ]
Devergne, Timothee [1 ,2 ,3 ]
Magrino, Theo [1 ]
Saitta, A. Marco [1 ]
机构
[1] Sorbonne Univ, Museum Natl Hist Nat, CNRS, Inst Mineral Phys Mat & Cosmochim,UMR7590, F-75005 Paris, France
[2] Italian Inst Technol, Atomist Simulat, I-16142 Genoa, Italy
[3] Italian Inst Technol, Computat Stat & Machine Learning, I-16142 Genoa, Italy
关键词
AMINO-ACIDS; HYDROGEN-CYANIDE; MOLECULAR-DYNAMICS; ORGANIC-COMPOUNDS; GAS-PHASE; EQUILIBRIUM; DECOMPOSITION; CYANOHYDRINS; FORMALDEHYDE; TEMPERATURE;
D O I
10.1021/acs.jpclett.4c01954
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
In this work, we study the synthesis of glycine, the simplest amino acid, using ab initio molecular dynamics and enhanced sampling techniques to explore and quantify novel potential pathways. Our protocol integrates state-of-the-art machine learning approaches, allowing us to sample relevant chemical spaces more efficiently. We discover a novel "oxyglycolate path", distinct from the "standard" Strecker mechanism, identify new intermediates, and provide a full thermodynamic characterization of all reaction steps. This alternative pathway aligns better with meteoritic and experimental observations, paving the way for further investigations. Integrating quantum accuracy and machine learning in prebiotic chemistry represents a methodological milestone advancing the exploration of life's prebiotic origins.
引用
收藏
页码:8697 / 8705
页数:9
相关论文
共 61 条
[21]   Step by Step Strecker Amino Acid Synthesis from Ab Initio Prebiotic Chemistry (vol 12, pg 2630, 2021) [J].
Huet, Leon ;
Magrino, Theo ;
Pietrucci, Fabio ;
Saitta, A. Marco .
JOURNAL OF PHYSICAL CHEMISTRY LETTERS, 2024, 15 (33) :8477-8480
[22]   Car-Parrinello molecular dynamics on massively parallel computers [J].
Hutter, J ;
Curioni, A .
CHEMPHYSCHEM, 2005, 6 (09) :1788-1793
[23]   THE INFLUENCE OF BORATE BUFFERS ON THE HYDRATION RATE OF CYANOHYDRINS - EVIDENCE FOR AN INTRAMOLECULAR MECHANISM [J].
JAMMOT, J ;
PASCAL, R ;
COMMEYRAS, A .
JOURNAL OF THE CHEMICAL SOCIETY-PERKIN TRANSACTIONS 2, 1990, (01) :157-162
[24]   HYDRATION OF CYANOHYDRINS IN WEAKLY ALKALINE-SOLUTIONS OF BORIC-ACID SALTS [J].
JAMMOT, J ;
PASCAL, R ;
COMMEYRAS, A .
TETRAHEDRON LETTERS, 1989, 30 (05) :563-564
[25]   Transition path sampling of rare events by shooting from the top [J].
Jung, Hendrik ;
Okazaki, Kei-ichi ;
Hummer, Gerhard .
JOURNAL OF CHEMICAL PHYSICS, 2017, 147 (15)
[26]   Transition path sampling of protein conformational changes [J].
Juraszek, Jarek ;
Vreede, Jocelyne ;
Bolhuis, Peter G. .
CHEMICAL PHYSICS, 2012, 396 :30-44
[27]   Umbrella sampling [J].
Kaestner, Johannes .
WILEY INTERDISCIPLINARY REVIEWS-COMPUTATIONAL MOLECULAR SCIENCE, 2011, 1 (06) :932-942
[28]   Hydrothermal reactions of alanine and glycine in sub- and supercritical water [J].
Klingler, D. ;
Berg, J. ;
Vogel, H. .
JOURNAL OF SUPERCRITICAL FLUIDS, 2007, 43 (01) :112-119
[29]   A new family of extraterrestrial amino acids in the Murchison meteorite [J].
Koga, Toshiki ;
Naraoka, Hiroshi .
SCIENTIFIC REPORTS, 2017, 7
[30]  
Kortum G., 1961, DISSOCIATIONCONSTANT, P636847782