The Pnictogen Bond: The Covalently Bound Arsenic Atom in Molecular Entities in Crystals as a Pnictogen Bond Donor

被引:16
|
作者
Varadwaj, Arpita [1 ]
Varadwaj, Pradeep R. [1 ,2 ]
Marques, Helder M. [2 ]
Yamashita, Koichi [1 ]
机构
[1] Univ Tokyo, Sch Engn, Dept Chem Syst Engn, Tokyo 1138656, Japan
[2] Univ Witwatersrand, Sch Chem, Mol Sci Inst, ZA-2050 Johannesburg, South Africa
来源
MOLECULES | 2022年 / 27卷 / 11期
基金
新加坡国家研究基金会;
关键词
pnictogen bonding; arsenic as pnictogen bond donor; inter- and intra-molecular geometry; directionality; crystal structure analysis; ICSD and CSD database analyses; MESP model description; sum of the van der Waals radii concept; pro-molecular charge-density based IGM-delta g analysis; DOT-CENTER-DOT; DER-WAALS RADII; PI-HOLE INTERACTIONS; X-RAY; INTERMOLECULAR INTERACTIONS; HYDROGEN-BONDS; HALOGEN BONDS; SIGMA-HOLE; STRUCTURAL-CHARACTERIZATION; SOLVOTHERMAL SYNTHESES;
D O I
10.3390/molecules27113421
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
In chemical systems, the arsenic-centered pnictogen bond, or simply the arsenic bond, occurs when there is evidence of a net attractive interaction between the electrophilic region associated with a covalently or coordinately bound arsenic atom in a molecular entity and a nucleophile in another or the same molecular entity. It is the third member of the family of pnictogen bonds formed by the third atom of the pnictogen family, Group 15 of the periodic table, and is an inter- or intramolecular noncovalent interaction. In this overview, we present several illustrative crystal structures deposited into the Cambridge Structure Database (CSD) and the Inorganic Chemistry Structural Database (ICSD) during the last and current centuries to demonstrate that the arsenic atom in molecular entities has a significant ability to act as an electrophilic agent to make an attractive engagement with nucleophiles when in close vicinity, thereby forming sigma-hole or pi-hole interactions, and hence driving (in part, at least) the overall stability of the system's crystalline phase. This overview does not include results from theoretical simulations reported by others as none of them address the signatory details of As-centered pnictogen bonds. Rather, we aimed at highlighting the interaction modes of arsenic-centered sigma- and pi-holes in the rationale design of crystal lattices to demonstrate that such interactions are abundant in crystalline materials, but care has to be taken to identify them as is usually done with the much more widely known noncovalent interactions in chemical systems, halogen bonding and hydrogen bonding. We also demonstrate that As-centered pnictogen bonds are usually accompanied by other primary and secondary interactions, which reinforce their occurrence and strength in most of the crystal structures illustrated. A statistical analysis of structures deposited into the CSD was performed for each interaction type As center dot center dot center dot D (D = N, O, S, Se, Te, F, Cl, Br, I, arene's pi system), thus providing insight into the typical nature of As center dot center dot center dot D interaction distances and angle R-As center dot center dot center dot D bond angles of these interactions in crystals, where R is the remainder of the molecular entity.
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页数:53
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