The previous post demonstrated the simple iso-electronic progression from six-coordinate carbon to five coordinate nitrogen. Here, a further progression to oxygen is investigated computationally. The systems are formally constructed from a cyclobutadienyl di-anion and firstly the HO ⁵⁺ cation, giving a tri-cationic complex. There are no examples of the resulting motif in the Cambridge structure database.

It is not only the non-classical norbornyl cation that has proved controversial in the past. A colleague mentioned at lunch (thanks Paul!) that tri-coordinate group 14 cations such as R ₃ Si ⁺ have also had an interesting history.[cite]10.1021/ja990389u[/cite] Here I take a brief look at some of these systems. Their initial characterisations, as with the carbon analogues, was by ²⁹ Si NMR.

The example a few posts back of how methane might invert its configuration by transposing two hydrogen atoms illustrated the reaction mechanism by locating a transition state and following it down in energy using an intrinsic reaction coordinate (IRC). Here I explore an alternative method based instead on computing a molecular dynamics trajectory (MD). I have used ethane instead of methane, since it is now possible to

In the previous post, I found intriguing the mechanism by which methane (CH ₄ ) inverts by transposing two of its hydrogens. Here I take a look at silane, SiH ₄ . It appears it is a three-stage process! Firstly, silane eliminates molecular hydrogen to form a molecular complex between H _{2 and SiH 2} (DOI: 10.14469/hpc/2290). The barrier (~60 kcal/mol) is very much lower than with methane.

This is a spin-off from the table I constructed here for further chemical examples of the classical/non-classical norbornyl cation conundrum. One possible entry would include the transition state for inversion of methane via a square planar geometry as compared with e.g. NiH ₄ for which the square planar motif is its minimum.

Cyclobutadiene is one of those small iconic molecules, the transience and instability of which was explained theoretically long before it was actually detected in 1965.[cite]10.1021/ja01092a049[/cite] Given that instability, I was intrigued as to how many crystal structures might have been reported for this ring system, along with the rather more stable congener cyclo-octatetraene. Here is what I found.

The thread thus far. The post about Na ₂ He introduced the electride anionic counter-ion to Na ⁺ as corresponding topologically to a rare feature known as a non-nuclear attractor. This prompted speculation about other systems with such a feature, and the focus shifted to a tetrahedral arrangement of four hydrogen atoms as a dication, sharing a total of two valence electrons. The story now continues here.

This post arose from a comment attached to the post on Na ₂ He and relating to peculiar and rare topological features of the electron density in molecules called non-nuclear attractors. This set me thinking about other molecules that might exhibit this and one of these is shown below.

I analysed the bonding in chlorine trifluoride a few years back in terms of VSEPR theory. I noticed that several searches on this topic which led people to this post also included a query about the differences between it and the bromine analogue. For those who posed this question, here is an equivalent analysis.

This is one of those posts of a molecule whose very structure is interesting enough to merit a picture and a 3D model. The study[cite]10.1126/science.aal1619[/cite] reports a molecular knot with the remarkable number of eight crossings.