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Exact bond angle calculations

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Original post by Big-Daddy
Oh - so what did you do to supplement it?

I'm just trying to get my hands on all the resources I can up to that level :biggrin:


Lectures, tutorials and a vast library.
Reply 21
Original post by JMaydom
Lectures, tutorials and a vast library.


Ah I see ... well Atkins will have to do, not to mention I do have a few other books on top. :smile:

Yeah, looking at the table of contents (and being able to "search" through the book online), my impression is that Physical Chemistry by Atkins plus Quantitative Chemical Analysis by Harris will be more than enough for the majority of physical topics (I'll probably need a bit of kinetics on the side, electrolysis, a little solutions chemistry and a lot of surface chemistry which I can't find covered anywhere at all :tongue: ).

Looks like all the standard Gibbs' equations are covered, including the dependence on Q (concentration of products/reactants); Clapeyron and Clausius-Clapeyron equations are covered (this is my first textbook which covers both!); only electrochemistry is missing but that should be ok, I think I can fill that in from elsewhere. Electrolysis is absent as usual but it's not that big a topic anyway. By the way is it right to say that electrochemistry (e.g. Nernst equation etc.) is found under the field of "electrode potentials", whereas electrolysis is found under "electrode dynamics"?

Is this the inorganic book you mean: http://www.amazon.co.uk/Shriver-Atkins-Inorganic-Chemistry-Peter/dp/0199236178/ref=sr_1_1?s=books&ie=UTF8&qid=1365883363&sr=1-1&keywords=Atkins%27+Inorganic+Chemistry+%5BPaperback%5D#_? I have to say, just looking down the list, it seems to cover my main worries (transition metals and coordination chemistry). There's nothing obvious I can find which I need to know which isn't in there.

Why did you think these books were bad? They look very good to me, I haven't actually done the entirety of any of your prelim papers yet but it doesn't seem like these two books would leave you short ...
(edited 11 years ago)
Original post by Big-Daddy
Ah I see ... well Atkins will have to do, not to mention I do have a few other books on top. :smile:

Yeah, looking at the table of contents (and being able to "search" through the book online), my impression is that Physical Chemistry by Atkins plus Quantitative Chemical Analysis by Harris will be more than enough for the majority of physical topics (I'll probably need a bit of kinetics on the side, electrolysis, a little solutions chemistry and a lot of surface chemistry which I can't find covered anywhere at all :tongue: ).

Looks like all the standard Gibbs' equations are covered, including the dependence on Q (concentration of products/reactants); Clapeyron and Clausius-Clapeyron equations are covered (this is my first textbook which covers both!); only electrochemistry is missing but that should be ok, I think I can fill that in from elsewhere. Electrolysis is absent as usual but it's not that big a topic anyway. By the way is it right to say that electrochemistry (e.g. Nernst equation etc.) is found under the field of "electrode potentials", whereas electrolysis is found under "electrode dynamics"?

Is this the inorganic book you mean: http://www.amazon.co.uk/Shriver-Atkins-Inorganic-Chemistry-Peter/dp/0199236178/ref=sr_1_1?s=books&ie=UTF8&qid=1365883363&sr=1-1&keywords=Atkins%27+Inorganic+Chemistry+%5BPaperback%5D#_? I have to say, just looking down the list, it seems to cover my main worries (transition metals and coordination chemistry). There's nothing obvious I can find which I need to know which isn't in there.

Why did you think these books were bad? They look very good to me, I haven't actually done the entirety of any of your prelim papers yet but it doesn't seem like these two books would leave you short ...


They are not comprehensive enough, especially for the inorganic. Assuming you do go on to study chem at uni you will know what I mean.
Last time I took out textbooks for my holiday work I could barely lift them all and I had to travel across london to get home.
Difference I imagine between the physical chem is that we have to derive the thermodynamic equations, not just state them. Atkins doesn't explain the derivations well.
Reply 23
Original post by JMaydom

Difference I imagine between the physical chem is that we have to derive the thermodynamic equations, not just state them. Atkins doesn't explain the derivations well.


Yes this is a particular difference I noticed from the papers. In the IChO it would be more difficult applied stuff but not as fundamental derivations.

I guess I'll look each derivation I'm having difficulty with up online. With most of them, the issue for me is to know under what conditions we can say what for thermodynamics (example: ΔG is 0 only at equilibrium; or, more on the level, under what conditions is Q=ΔU as opposed to Q=ΔH, etc.); once I've got that bit straight, including conceptualization, then I can usually do the derivation for thermodynamics.

But that's why it's good to have the papers - to check my knowledge of these things as well! :smile:

I have a couple of other books to supplement Atkins for the inorganic, but I'm banking on him covering mostly everything for the physical.
Reply 24
Original post by Big-Daddy
How do we calculate the exact bond angles and bond lengths in a molecule? i.e. are there any online guides, or introductions to whatever field this is?

I'm happy to look at computational methods.


As has been alluded to in this thread, calculation of bond angles is quite a tricky thing. The details will certainly be beyond you at this stage (I covered this stuff at 3rd year undergrad) but I will try and provide a brief overview.

As charco mentioned, bond angles and lengths for very simple molecules can be calculated very accurately from IR spectroscopy, and those for more complex ones may be obtainable (angles fairly accurately, lengths not so accurately) from X-ray diffraction.

However it is possible to calculate these outright using quantum mechanics. There are two approaches, one which is to tackle the schrodinger equation head on, to calculate the orbital energies, and then minimise these adjusting the bond lengths and angles via gradient methods to find the shape of the molecule.

There are various levels of this approach (in increasing accuracy), including Hartree-Fock (HF), Moller Plessat (MP2, MP3 etc), Coupled Cluster (CC) and Full Configuration Interaction (Full CI) which is completely accurate. As we increase accuracy the computational power required drastically increases, I can't remember the exact scalings but I think HF scales as N^3 (N is the number of electrons) whilst full CI as N^N. To put it into perperective I think a water molecule might be the largest molecule done with full CI.

The other method is one called density function theory, which instead of tackling the schrodinger equation head on we look at the electron density. Underpinning this method is a theory which shows that the density uniquely defines the wavefunction, and so we can get the wavefunction (and all other properties) from the density (in theory at least). This method is generally less computationally demanding, but perhaps less rigorous when appled to new systems.
Reply 25
Original post by Bradshaw
As has been alluded to in this thread, calculation of bond angles is quite a tricky thing. The details will certainly be beyond you at this stage (I covered this stuff at 3rd year undergrad) but I will try and provide a brief overview.

As charco mentioned, bond angles and lengths for very simple molecules can be calculated very accurately from IR spectroscopy, and those for more complex ones may be obtainable (angles fairly accurately, lengths not so accurately) from X-ray diffraction.

However it is possible to calculate these outright using quantum mechanics. There are two approaches, one which is to tackle the schrodinger equation head on, to calculate the orbital energies, and then minimise these adjusting the bond lengths and angles via gradient methods to find the shape of the molecule.

There are various levels of this approach (in increasing accuracy), including Hartree-Fock (HF), Moller Plessat (MP2, MP3 etc), Coupled Cluster (CC) and Full Configuration Interaction (Full CI) which is completely accurate. As we increase accuracy the computational power required drastically increases, I can't remember the exact scalings but I think HF scales as N^3 (N is the number of electrons) whilst full CI as N^N. To put it into perperective I think a water molecule might be the largest molecule done with full CI.

The other method is one called density function theory, which instead of tackling the schrodinger equation head on we look at the electron density. Underpinning this method is a theory which shows that the density uniquely defines the wavefunction, and so we can get the wavefunction (and all other properties) from the density (in theory at least). This method is generally less computationally demanding, but perhaps less rigorous when appled to new systems.


I see.

What do you mean by full CI is completely accurate? I was under the impression that the Schrodinger equation cannot be solved exactly.

Density functional theory looks like the one to take a look at. I'll have a look :smile: If you know of any Internet courses, please let me know.
Reply 26
Original post by Big-Daddy
I see.

What do you mean by full CI is completely accurate? I was under the impression that the Schrodinger equation cannot be solved exactly.

Density functional theory looks like the one to take a look at. I'll have a look :smile: If you know of any Internet courses, please let me know.


The Full CI method is as close as we can get to an exact solution of the electronic Schrödinger equation - unfortunately, it is also incredibly time-consuming. Full CI calculations can only really be performed for systems containing up to about 10 electrons (i.e. something like a single water molecule at a single geometry)

This stuff is pretty advanced but if you really want to look into it Hartree-Fock theory is a good place to start - many other electronic structure theories (like CI and MP2) actually build on from Hartree-Fock.

Its been a while since I've done this kind of stuff, but this lecture series helped me out quite a bit (its pretty advanced and you probably wouldn't be expected to know this kind of stuff till atleast your 3rd year):

http://www.youtube.com/watch?v=6XFOF8-QkAM&list=UUfJaYcVEEBCXhkSghMja_WA
Reply 27
Original post by Big-Daddy
I see.

What do you mean by full CI is completely accurate? I was under the impression that the Schrodinger equation cannot be solved exactly.

Density functional theory looks like the one to take a look at. I'll have a look :smile: If you know of any Internet courses, please let me know.


Basically the schrodinger equation is solvable for one electron systems (the hydrogen atom) but unsolvable for many electron systems as the interactions between electrons complicate things a lot.

Hartree Fock makes essentially no allowance for correlation between electrons. Moller Plessat is more accurate for example as it treats the dominant effects of correlation with something called perturbation theory.

Coupled Cluster and Full CI uses something called determinants, but to be completely accurate then all determinants must be included. Thus full CI could be considered in the same way as a series solution, which you might have come across in maths.

E.g. In A level you should be familiar with a Taylor series representation of a function, which is completely accurate as long as you include all (the infinite) terms.
Reply 28
Original post by Bradshaw
Basically the schrodinger equation is solvable for one electron systems (the hydrogen atom) but unsolvable for many electron systems as the interactions between electrons complicate things a lot.

Hartree Fock makes essentially no allowance for correlation between electrons. Moller Plessat is more accurate for example as it treats the dominant effects of correlation with something called perturbation theory.

Coupled Cluster and Full CI uses something called determinants, but to be completely accurate then all determinants must be included. Thus full CI could be considered in the same way as a series solution, which you might have come across in maths.

E.g. In A level you should be familiar with a Taylor series representation of a function, which is completely accurate as long as you include all (the infinite) terms.


Surely we cannot have a series being computed infinitely? So are we using Full CI, or "tending" towards Full CI?
Reply 29
I can't really remember, the series may converge in which case you will get to the exact answer, or they may use some sort of mathematical tricks to calculate the infinite terms.

It doesn't really matter anyway, as at these accuracy levels other effects come into play which I didn't mention before:

- Born-Oppenheimer approximation
- we have assumed no relativity ( ie we should be using the Dirac equation)

This means that you don't gain anything by a more accurate solving of the schrodinger equation past a certain point as these approximations will be larger.
(edited 11 years ago)
Reply 30
Original post by Bradshaw
I can't really remember, the series may converge in which case you will get to the exact answer, or they may use some sort of mathematical tricks to calculate the infinite terms.

It doesn't really matter anyway, as at these accuracy levels other effects come into play which I didn't mention before:

- Born-Oppenheimer approximation
- we have assumed no relativity ( ie we should be using the Dirac equation)

This means that you don't gain anything by a more accurate solving of the schrodinger equation past a certain point as these approximations will be larger.


Thanks :smile: These are enough things for me to look into now. I've heard of both the Born-Oppenheimer approximation and the Dirac equation (although I don't even begin to understand the latter).

Please entertain my sci-fi type question, but what would it mean qualitatively if the Schrodinger equation (/Dirac equation) could be exactly solved? Do you think then that the observed bond angles (or indeed any property of the particles) would be exactly equal to the one we would calculate?
Reply 31
If we can solve the schrodinger equation directly then in principle we know everything. However we can think of two instances:

1) we are able to determine the exact energies, without the wavefunctions. This lets us determine moleculer shapes and also lets us predict the outcome of reactions.

2) we are able to determine the wavefunction exactly. This means in theory we can learn everything about the system, which is more powerful.

We can then tale it one step furhter, in that if we can determine the wavefunction for a single molecule, can we determine the wavefunction for a reaction. If so, we know the exact outcomes of this reaction. Taken even further we might get to a 'universal wavefunction' which will tell us everything that will happen in the universe. So much for free choice!

Of course this is rather fanciful. In fact we try and use these energies to predict reaction outcomes. In these cases we are looking at accuracies of around 1 kj/mol, which is sometimes doable.
Original post by Bradshaw
If we can solve the schrodinger equation directly then in principle we know everything. However we can think of two instances:

1) we are able to determine the exact energies, without the wavefunctions. This lets us determine moleculer shapes and also lets us predict the outcome of reactions.

2) we are able to determine the wavefunction exactly. This means in theory we can learn everything about the system, which is more powerful.

We can then tale it one step furhter, in that if we can determine the wavefunction for a single molecule, can we determine the wavefunction for a reaction. If so, we know the exact outcomes of this reaction. Taken even further we might get to a 'universal wavefunction' which will tell us everything that will happen in the universe. So much for free choice!

Of course this is rather fanciful. In fact we try and use these energies to predict reaction outcomes. In these cases we are looking at accuracies of around 1 kj/mol, which is sometimes doable.


Well and there's also heisenberg! (Is this related to the fact we cannot solve it exactly? I don't know)
Reply 33
Heisenberg's uncertainty principle isn't derived from quantum mechanics (I don't think) so even if we could solve the Schrodinger equation completely, the best we can do is have exact probabilities not exact locations (for particle positions etc.).

In any case, is the Schrodinger equation necessarily complete? Perhaps even if we could solve it exactly it would not always predict perfectly what we observe. In fact I'd guess this is pretty likely?
Original post by Big-Daddy
Heisenberg's uncertainty principle isn't derived from quantum mechanics (I don't think) so even if we could solve the Schrodinger equation completely, the best we can do is have exact probabilities not exact locations (for particle positions etc.).

In any case, is the Schrodinger equation necessarily complete? Perhaps even if we could solve it exactly it would not always predict perfectly what we observe. In fact I'd guess this is pretty likely?


Heisenberg is definitely from QM, it was derived in one of my lectures. It doesn't just apply to momentum and position but also to energy and time (and many others I believe) which is very important to spectroscopy as it explains line broadening in fast spectroscopic processes.
Reply 35
Original post by JMaydom
Heisenberg is definitely from QM, it was derived in one of my lectures. It doesn't just apply to momentum and position but also to energy and time (and many others I believe) which is very important to spectroscopy as it explains line broadening in fast spectroscopic processes.


Well you would know better than me, but from what I looked up briefly (http://www.tjhsst.edu/~2011akessler/notes/hup.pdf) no QM seems to be involved? The wavefunction starting the page is classical mechanical.

If Heisenberg was to be derived from QM rather than pure maths that means it need not hold true throughout our humanity (i.e. when we finally supercede QM we may also not have to abide by predicting probabilities but might be able to track exact motion and position, Einstein after all distrusted anything which could not be calculated precisely), as QM has its limits. I'm still not sure though that we could predict the future, e.g. restrain free choice, with this :tongue:
Reply 36
Original post by Big-Daddy
Well you would know better than me, but from what I looked up briefly (http://www.tjhsst.edu/~2011akessler/notes/hup.pdf) no QM seems to be involved? The wavefunction starting the page is classical mechanical.

If Heisenberg was to be derived from QM rather than pure maths that means it need not hold true throughout our humanity (i.e. when we finally supercede QM we may also not have to abide by predicting probabilities but might be able to track exact motion and position, Einstein after all distrust anything which could not be calculated precisely), as QM has its limits. I'm still not sure though that we could predict the future, e.g. restrain free choice, with this :tongue:


The quantum mechanics in that derivation comes in the last step, where you link momentum and wave number with h bar. Generally speaking, if you see anything with h bar in it, in comes from QM!

Of course heisenberg means we can't know everything exactly. As Jmaydom said it doesn't just apply to position and momentum, indeed to any two properties who's operators don't commute.
Reply 37
Original post by Bradshaw
The quantum mechanics in that derivation comes in the last step, where you link momentum and wave number with h bar. Generally speaking, if you see anything with h bar in it, in comes from QM!

Of course heisenberg means we can't know everything exactly. As Jmaydom said it doesn't just apply to position and momentum, indeed to any two properties who's operators don't commute.


Ah I see. But is there are a clear link between the impossibility of solving the Schrodinger equation exactly and the Heisenberg uncertainty principle?
Original post by Big-Daddy
Well you would know better than me, but from what I looked up briefly (http://www.tjhsst.edu/~2011akessler/notes/hup.pdf) no QM seems to be involved? The wavefunction starting the page is classical mechanical.

If Heisenberg was to be derived from QM rather than pure maths that means it need not hold true throughout our humanity (i.e. when we finally supercede QM we may also not have to abide by predicting probabilities but might be able to track exact motion and position, Einstein after all distrusted anything which could not be calculated precisely), as QM has its limits. I'm still not sure though that we could predict the future, e.g. restrain free choice, with this :tongue:


The born interpretation of the wavefunction is a postulate of QM. That is fairly early on in the derivation.
Reply 39
Original post by Big-Daddy
Ah I see. But is there are a clear link between the impossibility of solving the Schrodinger equation exactly and the Heisenberg uncertainty principle?


Not really, they are very different things. For example, we can solve the schrodinger equation for the hydrogen atom, and of course Heisenberg still applies.

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