Archive for the ‘Interesting chemistry’ Category

The π-complex theory of metal-alkene compounds.

Monday, May 13th, 2013

The period 1951–1954 was a golden one for structural chemistry; proteins, DNA, Ferrocene (1952) and the one I discuss here, a bonding model for Zeise’s salt (3).

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Concerted 1,4-addition of thioacetic acid: a (requested) reality check.

Saturday, May 11th, 2013

Lukas, who occasionally comments on this blog, sent me the following challenge. In a recent article[cite]10.1021/jo3021709[/cite] he had proposed that the stereochemical outcome (Z) of reaction between a butenal and thioacetic acid as shown below arose by an unusual concerted cycloaddtion involving an S-H bond. He wrote in the article “…this scheme … recommends itself for evaluation by in silico methods“. I asked if the answer could be posted here, and he agreed. So here it is.

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Hidden intermediates in the (acid catalysed) ring opening of propene epoxide.

Monday, May 6th, 2013

In a previous post on the topic, I remarked how the regiospecific ethanolysis of propene epoxide[cite]10.1021/ja01208a047[/cite] could be quickly and simply rationalised by inspecting the localized NBO orbital calculated for either the neutral or the protonated epoxide. This is an application of Hammond’s postulate[[cite]10.1021/ja01607a027[/cite] in extrapolating the properties of a reactant to its reaction transition state. This approach implies that for acid-catalysed hydrolysis, the fully protonated epoxide is a good model for the subsequent transition state. But is this true? Can this postulate be tested? Here goes.

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Why diphenyl peroxide does not exist.

Monday, April 29th, 2013

A few posts back, I explored the “benzidine rearrangement” of diphenyl hydrazine. This reaction requires diprotonation to proceed readily, but we then discovered that replacing one NH by an O as in N,O-diphenyl hydroxylamine required only monoprotonation to undergo an equivalent facile rearrangement. So replacing both NHs by O to form diphenyl peroxide (Ph-O-O-Ph) completes this homologous series. I had speculated that PhNHOPh might exist if all traces of catalytic acid were removed, but could the same be done to PhOOPh? Not if it continues the trend and requires no prior protonation at all!

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How to predict the regioselectivity of epoxide ring opening.

Sunday, April 28th, 2013

I recently got an email from a student asking about the best way of rationalising epoxide ring opening using some form of molecule orbitals. This reminded me of the famous experiment involving propene epoxide.[cite]10.1021/ja01208a047[/cite]

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X-ray analysis and absolute configuration determination using porous complexes.

Wednesday, April 17th, 2013

This is another in the occasional series of “what a neat molecule”. In this case, more of a “what a neat idea”. The s-triazine below, when coordinated to eg ZnI2, forms what is called a metal-organic-framework, or MOF. A recent article[cite]10.1038/nature11990[/cite] shows how such frameworks can be used to help solve a long-standing problem in structure determination, how to get a crystal structure on a compound that does not crystallise on its own.

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Intermediates in oxime formation from hydroxylamine and propanone: now you see them, now you don’t.

Sunday, April 14th, 2013

A recent theme here has been to subject to scrutiny well-known mechanisms supposedly involving intermediates. These transients can often involve the creation/annihilation of charge separation resulting from  proton transfers, something that a cyclic mechanism can avoid. Here I revisit the formation of an oxime from hydroxylamine and propanone, but with one change. In the earlier post, I used two molecules of water to achieve the desired proton transfer. Now I look to see what effect replacing those two water molecules by a guanidine has.NH2OH+Guanidine

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Feist’s acid. Stereochemistry galore.

Thursday, April 4th, 2013

Back in the days (1893) when few compounds were known, new ones could end up being named after the discoverer. Thus Feist is known for the compound bearing his name; the 2,3 carboxylic acid of methylenecyclopropane (1, with Me replaced by CO2H). Compound 1 itself nowadays is used to calibrate chiroptical calculations[cite]10.1021/ct300359s[/cite], which is what brought it to my attention. But about four decades ago, and now largely forgotten, both 1 and the dicarboxylic acid were famous for the following rearrangement that gives a mixture of 2 and 3[cite]10.1021/ja00747a019[/cite]. I thought I might here unpick some of the wonderfully subtle stereochemical analysis that this little molecule became subjected to.
methylene-cyclopropane

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A (very) short history of shared-electron bonds.

Tuesday, March 26th, 2013

The concept of a shared electron bond and its property of an order is almost 100 years old in modern form, when G. N. Lewis suggested a model for single and double bonds that involved sharing either 2 or 4 electrons between a pair of atoms[cite]10.1021/ja02261a002[/cite]. We tend to think of such (even electron) bonds in terms of their formal bond order (an integer), recognising that the actual bond order (however defined) may not fulfil this value. I thought I would very (very) briefly review the history of such bonds.

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Concerted vs stepwise (Meisenheimer) mechanisms for aromatic nucleophilic substitution.

Monday, March 25th, 2013

My two previous explorations of aromatic substitutions have involved an electrophile (NO+ or Li+). Time now to look at a nucleophile, representing nucleophilic aromatic substitution. The mechanism of this is thought to pass through an intermediate analogous to the Wheland for an electrophile, this time known as the Meisenheimer complex[cite]10.1002/jlac.19023230205[/cite]. I ask the same question as before; are there any circumstances under which the mechanism could instead be concerted, by-passing this intermediate?

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