Observation of covalent and electrostatic bonds in nitrogen-containing polycyclic ions formed by gas phase reactions of the benzene radical cation with pyrimidine

• Published in: Physical chemistry chemical physics : PCCP 2017-03, Vol.19 (9), p.6422-6432
• Main Authors: Attah, Isaac Kwame, Soliman, Abdel-Rahman, Platt, Sean P, Meot-Ner Mautner, Michael, Aziz, Saaudallah G, Samy El-Shall, M
• Format: Article
• Language: English
• Subjects: Benzene; Bonding; Cations; Covalence; Cross sections; Dimers; Isomers; Pyrimidines
• ISSN: 1463-9076; 1463-9084
• DOI: 10.1039/c6cp08731k

Polycyclic aromatic hydrocarbons (PAHs) and polycyclic aromatic nitrogen heterocyclics (PANHs) are present in ionizing environments, including interstellar clouds and solar nebulae, where their ions can interact with neutral PAH and PANH molecules leading to the formation of a variety of complex organics including large N-containing ions. Herein, we report on the formation of a covalently-bonded (benzene·pyrimidine) radical cation dimer by the gas phase reaction of pyrimidine with the benzene radical cation at room temperature using the mass-selected ion mobility technique. No ligand exchange reactions with benzene and pyrimidine are observed indicating that the binding energy of the (benzene·pyrimidine)˙ adduct is significantly higher than both the benzene dimer cation and the proton-bound pyrimidine dimer. The (benzene·pyrimidine)˙ adduct shows thermal stability up to 541 K. Thermal dissociation of the (C D ·C H N )˙ adduct at temperatures higher than 500 K produces C H N D (m/z 82) suggesting the transfer of a D atom from the C D moiety to the C H N moiety before the dissociation of the adduct. Mass-selected ion mobility of the (benzene·pyrimidine)˙ dimer reveals the presence of two families of isomers formed by electron impact ionization of the neutral (benzene·pyrimidine) dimer. The slower mobility peak corresponds to a non-covalent family of isomers with larger collision cross sections (76.0 ± 1.8 Å ) and the faster peak is consistent with a family of covalent isomers with more compact structures and smaller collision cross sections (67.7 ± 2.2 Å ). The mobility measurements at 509 K show only one peak corresponding to the family of stable covalently bonded isomers characterized by smaller collision cross sections (66.9 ± 1.9 Å at 509 K). DFT calculations at the M06-2X/6-311++G** level show that the most stable (benzene·pyrimidine)˙ isomer forms a covalent C-N bond with a binding energy of 49.7 kcal mol and a calculated collision cross section of 69.2 Å , in excellent agreement with the value obtained from the faster mobility peak of the (benzene·pyrimidine)˙ dimer. Formation of a C-N covalent bond displaces a hydrogen atom from a C-H bond of the benzene cation which is transferred to the second pyrimidine nitrogen atom, thus preserving the pyrimidine π system and yielding the most stable (benzene·pyrimidine)˙ isomer. The calculations also show less stable non-covalent electrostatically bonded perpendicular isomers of the (benzene·pyrimidine)˙ dimer