Posts Tagged ‘City: Munich’
Tuesday, August 29th, 2017
Another selection (based on my interests, I have to repeat) from WATOC 2017 in Munich.
- Odile Eisenstein gave a talk about predicted 13C chemical shifts in transition metal (and often transient) complexes, with the focus on metallacyclobutanes. These calculations include full spin-orbit/relativistic corrections, essential when the carbon is attached to an even slightly relativistic element. She noted that the 13C shifts of the carbons attached to the metal fall into two camps, those with δ ~+80 ppm and those with values around -8 ppm. These clusters are associated with quite different reactivities, and also seem to cluster according to the planarity or non-planarity of the 4-membered ring. There followed some very nice orbital explanations which I cannot reproduce here because my note taking was incomplete, including discussion of the anisotropy of the solid state spectra. A fascinating story, which I add to here in a minor aspect. Here is a plot of the geometries of the 52 metallacyclobutanes found in the Cambridge structure database. The 4-ring can be twisted by up to 60° around either of the C-C bonds in the ring, and rather less about the M-C bonds. There is a clear cluster (red spot) for entirely flat rings, and perhaps another at around 20° for bent ones, but of interest is that it does form something of a continuum. What is needed is to correlate these geometries with the observed 13C chemical shifts to see if the two sets of clusters match. I include this here because in part such a search can be done in “real-time” whilst the speaker is presenting, and can then be offered as part of the discussion afterwards. It did not happen here because I was chairing the meeting, and hence concentrating entirely on proceedings!

- Stefan Grimme introduced his tight binding DFT method, an ultra fast procedure for computing large molecules and in passing noted the arrival of his D4 procedure (almost everyone currently uses D3 methods for this, including many of the results reported on this blog) for correcting for dispersion energies in molecules based on computed charge dependencies using the TBDFT methods. Thus we see dispersion as a property which is based on the wavefunction of the molecule, but still fast enough to accurately correct dispersion energies. He followed this with his automated procedures based on the TBDFT methods for computing full spin-spin coupled 1H NMR spectra of organic molecules. The core of this method is to recognise conformational and rotational freedoms and to compute the NMR properties for all identified isomers. These parameters are then Boltzmann averaged prior to computation of the final spin-coupled simulated frequency domain spectrum (rather than inverting this procedure by computing spin-coupled spectra of all rotamers and conformations and then averaging the spectral envelopes). This should widely revolutionise the interpretation of 1H NMR spectra by synthetic chemists.
- Another automated tool for synthetic chemists was presented by Jan Jenson, and can be seen here. It used MOPAC PM3 semi-empirical theory to compute relative proton affinities for a series of regioisomers as a prelude to predicting the position of aromatic electrophilic substitutions in heteroaromatic molecules. Try it out by putting a SMILES string into the box provided (e.g. COC1=CC=CC=C1) waiting a bit and seeing what the prediction is (it should be p- for the preceding example). During Q&A, a question was asked about the canonical “purity” of the SMILES (the one used in this tool comes from the Chemdraw program, which might not be identical to a SMILES for the same molecule produced by a different program), and whether an InChI descriptor might be better (also produced by Chemdraw, but perhaps a bit more canonical). Also asked was whether the prediction for an electrophile rather larger than a proton might not give good predictions? This one perhaps could be tested by readers, who could report back here?
- Walter Thiel completes the semi-empirical theme when he reported the new ODM2 method, the D now including dispersion. This is a powerful program, which includes e.g. full CI (configuration interaction + gradients) capability and is especially good for excited states, for dynamic simulations, and for combining these into dynamic photochemical simulations. This was applied to the chromophore in the famous “nanocar” in studying the dynamics of the photochemical rotation of the motor of the car (the thermally induced rotation was not studied). At the time that the nanocar caught my attention, I wondered about how the four independent molecular motors synchronised their rotations to allow the car to drive in a straight line. No doubt the answer is known, and if anyone reading this knows, please tell! It is probably a dynamics problem on four rotors (Walter reported just on one!).

Tags:chemical shifts, Chemistry, City: Munich, Jan Jenson, metal fall, Munich, Odile Eisenstein, Quotation, speaker, Stefan Grimme, Transition metal, Walter Thiel, World Association of Theoretical and cOmputational Chemists
Posted in Interesting chemistry, WATOC reports | 6 Comments »
Tuesday, August 29th, 2017
The triennial conference is this year located in Munich. With 1500 participants and six parallel sessions, this report can give only a flavour of proceedings.
- Edward Valeev talked about the scaling problem in coupled cluster theories, the so-called gold standard for computing the energy and properties of small molecules. The problem is that the number of basis functions N describing the atomic basis set for the atoms scales from between N6 to N10 in terms of computer time, with similar behaviour for the memory required for the calculation. He described methods based on natural pair orbitals and localisation schemes which can achieve linear scaling, ie N1 for the energy, quite a break through! Using reasonable basis sets, CCSD(T)-like energies for molecules with 100s of atoms were reported. During the Q&A time afterwards (the tight schedules associated with so many speakers means questions are often limited to 1-2, with very short answers) a question was posed about the prospects for first and second derivatives for the method. This means that e.g. reaction mechanisms can then be probed with unprecedented energetic accuracy. The answer was non-committal, but if these derivatives do arrive, it will revolutionise our ability to understand mechanisms.
- Which brings me nicely to Jeremy Harvey, who talked about calculating accurate overall rate constants for complex mechanistic cycles. The rate equations are solved for the steady state condition and include concentrations of all species and the energies are obtained using CCSD(T)-F12 theory (a modification which allows better basis set scaling without increased computation time) as single point geometries. He described an example where the barrier associated with a postulated mechanism was about 6 kcal/mol higher than derived from the observed rate. This was sufficient to induce them to explore alternative mechanisms, which were indeed located with an appropriately lower barrier. I have used the value of ~10 kcal/mol as my mechanistic test on this blog, and it’s really nice to see this value being reduced further.
- Yet again this theme emerged with Yitzhak Apeloig, who asked about the mechanism for C=Si bond rotations in substituted systems recently made in his group. The energy of this rotation is low enough to be observed in NMR spectra. But when the energy of C=Si bond rotation is computed it comes out about 10 kcal/mol too high. Again alternative mechanisms were explored and it turns out that a 1,2 migration from R2C=SiR2 to form a carbylidene species, R-C-SiR3, rotation and then 1,2 again to reformulate the R2C=SiR2 system came up with the goods.
- Peter Scheiner talked about how attractions between molecules can be induced by dispersion. He described how Ph3C-CPh3 is an unknown molecule (dissociating into Ph3P• radicals) but when 4,6-di-tert-butyl groups are placed on all the phenyl rings, the dispersion attractions between them can account for ~60 kcal/mol (!), more than enough to stabilise the system. I have already described some of this work in a post here. The prospects are very exciting for more dispersion-stabilised molecules to emerge. During Q&A, a question was posed about what other atom pairs other than H…H might be brought into ultra-short contact by these attractive dispersion forces; we may expect further examples to emerge in the near future.
- Ken Houk gave a fascinating glimpse into the post-transition state world of reaction dynamics, as applied to Diels Alder cycloadditions and Cope rearrangements. The reactions are characterised by the residency times of the dynamic trajectories in the region of the transition state as short (~4 fs), medium (20-40fs) and long (80+fs), these times mapping on to what we used to call “synchronous”, “asynchronous” and “stepwise”. A good example is the so-called bis-pericyclic reaction of cyclopentadiene where the trajectories pass through a transition state but then bifurcate into two (in this case) equivalent pathways. He discussed other examples where the trajectories follow either a 2+4 cycloaddition pathway or a 4+6 alternative pathway and how the number of trajectories for each can be influenced by either solvent (water) or an enzyme. Ken described several 20-40fs trajectories as corresponding to “dynamic stepwise” reactions, which during Q&A was suggested are equivalent to the term “hidden intermediate” pathways coined by Dieter Cremer and as revealed in many posts here from the intrinsic reaction coordinates or IRCs. This is a clear growth area and expect many more examples of reaction dynamics to be applied to many exciting systems in the future.
- Leo Radom talked about very simple molecules, H3CX and the effects on the bond dissociation energy (BDE) of the C-H bonds if the group X is either strongly or weakly protonated (the latter via a hydrogen bond), or deprotonated (again strongly or weakly via a hydrogen bond from hydroxide anion). This is important in several enzymic pathways, where the CH bond might be activated in a similar manner by the enzyme. He also talked about similar effects on the ionisation potential. I noticed a connection between this theme and what might be called the electron affinity of H3CX. If you want to see what the connection is, go visit the Aachen bond Slam, about which I have previously blogged!
I will stop with an observation that all the notes above were taken in real-time during the talks, which all emerged as Powerpoint slides, having an average residency time on the screen of perhaps 1-2 minutes each. References were invariably given as full journal citations (authors, journal, year, volume, pages) rather than as DOIs, and given the time constraints I did not try to capture them. Hence the lack of citations above to the presenters’ work. The slide displays are traditionally not made available to audiences‡ and photography of the screen or recording is considered very bad form. Conferences are not really about FAIR data, which I have described often on this blog.
I hope these six examples give one flavour of what is happening at WATOC 2017. If another interesting collection emerges, I may describe it here.
‡But see e.g. doi: b9r9 for an Aachen talk.

Tags:bond dissociation energy, City: Aachen, City: Munich, Dieter Cremer, Edward Valeev, energy, Flavour, Jeremy Harvey, Ken Houk, Leo Radom, Peter Scheiner, Physics, Proceedings, Quark matter, Standard Model, Yitzhak Apeloig
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