Incipient nucleophilic attack as a probe for the electronic structure of diazonium ions. An analysis of neighboring-group interactions in .beta.-(carboxyvinyl)diazonium ions

1992 ◽  
Vol 57 (1) ◽  
pp. 215-228 ◽  
Author(s):  
Rainer Glaser ◽  
Christopher J. Horan ◽  
Eric D. Nelson ◽  
M. Kirk Hall
1996 ◽  
Vol 74 (6) ◽  
pp. 1200-1214 ◽  
Author(s):  
Rainer Glaser ◽  
Christopher J. Horan

The concept of the Bürgi–Dunitz angle of attack on carbonyls is compatible with the electronic structure of carbonyls. However, it is argued here that the generalization asserted to describe the interaction of nucleophiles with diazonium ions is inappropriate. Distortions in crystal structures of diazonium ions with proximate nucleophiles were interpreted by an incipient nucleophilic attack (INA) on the formally positive-charged Nα. This "Nα attraction model" relies on the assumption that the formal charge in the most commonly used Lewis structure of diazonium ions represents actual charge. We proposed that the close approach of the proximate nucleophile to the diazonium group occurs to enhance attractive 1,3-(C,Nβ)-bridging interactions and despite repulsion between Nα and the proximate oxygen (Opr). The present study combines theoretical analysis of rotamers of 2-diazonium benzoic acid and its conjugate base with experimental results on the same system to provide compelling evidence that the more general conclusions drawn from analyses of neighboring group interactions in propenoic acid models are fully warranted. The crystallographic record is more fully consistent with the "1,3-bridging attraction model." Combined analysis of solid state and gas phase structures reveals the intrinsic features due to INA. Both electrostatic models can account for these features but with different postulates about the electron density distribution. While the structural analysis alone cannot distinguish between the alternative interpretations, the study of the electronic structure allows one to clearly differentiate between these competing interpretations. A method (ESI) for the quantitative evaluation of electrostatic neighboring group interactions has been devised and this ESI concept employs atomic electrical moments (charges, dipoles, and quadrupoles) determined via topological electron density analysis. The results of the ESI analysis support the 1,3-bridging attraction model and eliminate the Nα attraction model. Key words: electrostatic interactions, electron density analysis, atoms in molecules. X-ray crystallography, ab initio molecular orbital theory, incipient nucleophilic attack, bonding models, ESI analysis.


2018 ◽  
Vol 140 (4) ◽  
pp. 1305-1312 ◽  
Author(s):  
Laura Falivene ◽  
Thomas Wiedemann ◽  
Inigo Göttker-Schnetmann ◽  
Lucia Caporaso ◽  
Luigi Cavallo ◽  
...  

2008 ◽  
Vol 47 (13) ◽  
pp. 2475-2479 ◽  
Author(s):  
Giulio Gasparini ◽  
Leonard J. Prins ◽  
Paolo Scrimin

Molecules ◽  
2021 ◽  
Vol 26 (20) ◽  
pp. 6280
Author(s):  
Alexandra V. Krivitskaya ◽  
Maria G. Khrenova ◽  
Alexander V. Nemukhin

We report the results of a computational study of the hydrolysis reaction mechanism of N-acetyl-l-aspartyl-l-glutamate (NAAG) catalyzed by glutamate carboxypeptidase II. Analysis of both mechanistic and electronic structure aspects of this multistep reaction is in the focus of this work. In these simulations, model systems are constructed using the relevant crystal structure of the mutated inactive enzyme. After selection of reaction coordinates, the Gibbs energy profiles of elementary steps of the reaction are computed using molecular dynamics simulations with ab initio type QM/MM potentials (QM/MM MD). Energies and forces in the large QM subsystem are estimated in the DFT(PBE0-D3/6-31G**) approximation. The established mechanism includes four elementary steps with the activation energy barriers not exceeding 7 kcal/mol. The models explain the role of point mutations in the enzyme observed in the experimental kinetic studies; namely, the Tyr552Ile substitution disturbs the “oxyanion hole”, and the Glu424Gln replacement increases the distance of the nucleophilic attack. Both issues diminish the substrate activation in the enzyme active site. To quantify the substrate activation, we apply the QTAIM-based approaches and the NBO analysis of dynamic features of the corresponding enzyme-substrate complexes. Analysis of the 2D Laplacian of electron density maps allows one to define structures with the electron density deconcentration on the substrate carbon atom, i.e., at the electrophilic site of reactants. The similar electronic structure element in the NBO approach is a lone vacancy on the carbonyl carbon atom in the reactive species. The electronic structure patterns revealed in the NBO and QTAIM-based analyses consistently clarify the reactivity issues in this system.


ACS Catalysis ◽  
2019 ◽  
Vol 9 (5) ◽  
pp. 3888-3894 ◽  
Author(s):  
Eva Schiebel ◽  
Stefano Santacroce ◽  
Laura Falivene ◽  
Inigo Göttker-Schnetmann ◽  
Lucia Caporaso ◽  
...  

2008 ◽  
Vol 120 (13) ◽  
pp. 2509-2513 ◽  
Author(s):  
Giulio Gasparini ◽  
Leonard J. Prins ◽  
Paolo Scrimin

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