Molecular Geometry & Bonding
what the shape decides
Concept

Conjugation — where it appears

The delocalisation of π electrons along a chain of adjacent p orbitals. It lowers the energy of an open chain relative to isolated double bonds, which is the part of a ring's stabilisation that has nothing to do with the ring.

Named by 15 essays across 5 fields — each of them below, with the objects they name alongside it.

Hückel levels of hexatriene. The orbital energies of the pi system, computed as the eigenvalues of the molecule's adjacency matrix. Degenerate levels share a line. The electrons are placed by aufbau with Hund's rule, so a half-filled degenerate shell shows as two unpaired spins.

Conjugation, and its limits

Every extra double bond in a chain lowers the gap between the highest occupied and lowest empty orbital, which is why long conjugated molecules are coloured. The trend has a limit, and the limit is not where the arithmetic says it should be.

beyond · Delocalisation Hückel levels of benzene. The orbital energies of the pi system, computed as the eigenvalues of the molecule's adjacency matrix. Degenerate levels share a line. The electrons are placed by aufbau with Hund's rule, so a half-filled degenerate shell shows as two unpaired spins.

Hückel theory and what it gets right

A conjugated system's orbital energies are the eigenvalues of a matrix of ones and zeroes. Nothing about carbon enters, no geometry enters, and the results that survive are exactly the ones that depend on neither.

bonding · Delocalisation Rings of 6, 10, 20, 60 and the band at 2000. The Hückel levels of rings of 6, 10, 20, 60 atoms, all of them inside the same interval from −2 to +2, beside the density of states of a ring of 2000. The histogram is the computed levels; the line through it is the closed-form density, which diverges at both band edges.

The band limit

Every level of a ring of n atoms lies between −2β and +2β, however large n gets. The levels do not spread out as the molecule grows; they crowd into a fixed interval — and that crowding, computed, is a band with its density of states diverging at both edges.

beyond · Multicentre Overlap against separation, Z = 3.25. How the overlap integral falls as two atoms are pulled apart, for several pairs of orbitals. Where a closed form exists it is drawn over the computed curve, so the integrator is checked rather than trusted.

A double bond is not two single bonds

Carbon's single bond is 348 kilojoules a mole and its double is 614, which is not twice anything. The two halves are different integrals over different orbitals with different distance dependence, and computing them shows why no arithmetic could have made them add.

wrong · Overlap A chain of 100 is more stable alternating. The electronic energy gained by alternating the bonds of a half-filled chain, the elastic cost of doing it, and their sum, all per site and all against the alternation. The sum has its best value away from zero, so the evenly spaced chain is not the stable structure.

A chain cannot stay even

Diagonalise a half-filled chain, alternate its bonds slightly, and diagonalise again. The electrons gain more than the springs lose, and they do so for every spring constant whatever — because the gain is steeper than a parabola near the origin and a logarithm beats any constant.

solids · Peierls distortion cyclobutadiene: what alternation costs and gains. The π energy of cyclobutadiene as its bonds are alternated by β(1 ± δ), the elastic cost of alternating them at a stated stiffness, and the sum. The π curve falls linearly in δ, which is measured here and is the whole difference between a molecule that distorts and one that does not. The stiffness is a stated parameter, so where the minimum falls is not a claim; which power of δ each curve goes as is.

The vibration that lowers the symmetry

A molecule in a degenerate electronic state distorts until the degeneracy is gone. Which distortion it needs is a direct product; whether it wins is a race between a π energy falling linearly and a σ frame resisting quadratically, and both powers are measured here.

beyond · Aromaticity pyrrole against cyclopentadienyl anion. The Hückel levels of pyrrole beside those of cyclopentadienyl anion, which is the same graph with one diagonal entry and the bonds touching it changed. The parent's levels are symmetric about α because its matrix has nothing on the diagonal; the substituted system's are not, and the asymmetry is the size of the fitted parameter rather than a result.

Six electrons in a ring that is not all carbon

Pyrrole and the cyclopentadienyl anion hold the same six π electrons in the same five-membered ring. The anion spreads them perfectly evenly; pyrrole's nitrogen keeps 1.720 of them and furan's oxygen keeps 1.791 — the more electronegative atom donates less, and the bond orders to it fall with it.

beyond · Delocalisation pyridine against benzene. The Hückel levels of pyridine beside those of benzene, which is the same graph with one diagonal entry and the bonds touching it changed. The parent's levels are symmetric about α because its matrix has nothing on the diagonal; the substituted system's are not, and the asymmetry is the size of the fitted parameter rather than a result.

Hückel with a heteroatom

A hydrocarbon's Hückel matrix contains no fitted number at all. Put one nitrogen in the ring and two arrive at once, the levels stop being symmetric about α, and the delocalisation energy stops being quotable — all from changing three entries in a matrix.

bonding · Delocalisation Levels of a ring closed with a half turn in it. The orbital energies of a ring with one resonance integral reversed in sign, which is what half a turn in the ribbon of p orbitals does to it. The levels come in degenerate pairs from the bottom up rather than singly, so the count that closes a shell is 4n rather than 4n + 2. Degenerate levels share a line. The electrons are placed by aufbau with Hund's rule, so a half-filled degenerate shell shows as two unpaired spins.

The ring with a twist in it

Reverse the sign of one resonance integral in a ring and its levels stop being one nodeless orbital above degenerate pairs and become degenerate pairs all the way up. The count that closes a shell changes from 4n+2 to 4n, and every aromatic ring size and antiaromatic ring size exchange places.

beyond · Aromaticity The two figures, per electron. For each ring, the delocalisation energy against isolated double bonds and against the same ring with one bond deleted, divided by the number of pi electrons. The upper bar of each pair is the usual reference; the lower one is the cycle's own contribution, and the two are nowhere proportional.

A stabilisation is measured from somewhere

Benzene's delocalisation energy is 2β against three isolated double bonds and 1.0121β against the same six carbons with one bond deleted. Cyclobutadiene's is exactly zero against the first reference and −0.4721β against the second, so one of the two references records the most famously destabilised ring in the subject as neutral.

beyond · Delocalisation Two kinds of answer to a flux, and only one of them is a curve. The π binding of three rings against the magnetic flux through them, in units of beta and of the flux quantum, measured from each ring's own value at zero flux. Beta is negative, so a binding that FALLS is an energy that rises: benzene's does, which is what a diamagnetic ring current is. Cyclobutadiene's rises in both directions from a corner — its energy has no second derivative at zero field at all, and the two one-sided slopes differ by 12.57.

Two rules that share no arithmetic

Hückel's rule is a statement about a gap. Put a magnetic flux through the same rings instead and ask which of them push the field out, and the answer is the same set — eighty cases, no exceptions — although the second calculation counts nothing and has no shells in it. And the rings the rule excludes turn out to have no magnetic susceptibility at all: their energy has a corner at zero field.

symmetry · Aromaticity One pi energy, two delocalisation energies. For each of six rings: the computed pi energy, the energy of the same atoms with one bond deleted, and the delocalisation energy that follows from each of the two reference states. Every entry is an eigenvalue sum; the two right-hand columns differ only in what was subtracted from the second column.

The frame that was allowed to relax

Four changes of frame were tested on nine quantities and none of them could move a bond order, because a bond order is a property of the eigenvectors and every change left the eigenvectors alone. Letting the geometry answer back does move them — butadiene's central bond falls from 0.4472 to 0.3676 — and it moves naphthalene's the other way, because its weakest bond is the one two rings share and relaxation strengthens it.

bonding · Delocalisation Two molecules, one eigenvalue, and 1.27 eV between them. Six alternant hydrocarbons placed by the Hückel eigenvalue of their highest occupied level — computed by diagonalising each molecule's own adjacency matrix — against the measured first π ionisation energy. Ethene and benzene share an eigenvalue of exactly 1 and their measurements differ by 1.27 eV; butadiene and naphthalene share 0.618 and differ by 0.94. A model that reads only the eigenvalue is a function of it, so it must give each pair one answer, and the two vertical pairs are the whole of its error.

A parameter that never finds a value

Show a two-parameter model six measurements instead of two and it stops being underdetermined and starts being wrong. Adding the third parameter improves the fit by one part in eighty, moves the resonance integral by a factor of four, and never finds a best value at all — because nine tenths of the error is a term the model does not have.

bonding · Models The current does not divide equally between equal rings. The current each ring of an acene carries under a uniform field, ring by ring, for four acenes. Naphthalene's two rings are equal by symmetry; anthracene's middle ring carries 1.180 times what its outer ones do, and tetracene's inner rings 1.222 times. Every ring has the same area and the same six carbons, and the response is a matrix rather than a set of parallel loops.

The current does not divide

A fused ring system's response was computed from the areas of its rings, and the obvious next question was whether the current divides between them the way it divides between two resistors. Giving each ring its own flux and taking the second derivatives says no: the response is a matrix, its off-diagonal entries are nearly half its diagonal ones, and anthracene's middle ring carries 1.18 times what its outer rings do.

symmetry · Aromaticity 6 rings fused two ways. Two catacondensed chains of 6 hexagons: the linear one, where every fusion continues the line, and the angular one, where the fusions alternate. They have the same formula and the same number of bonds and they are not the same graph. Ring centres are numbered; in the linear molecule two rings k steps apart have centres 1.7321k units apart and in the angular one they do not, which is the whole reason this pair can be asked the question.

Neither of the two separations

A linear acene cannot pose the question, because the number of fusions between two rings and the distance between their centres are the same variable there. Bending the molecule pulls them apart — and the response follows neither. Two pairs of rings the same distance apart differ by two thirds, and the larger one is at the greater distance.

symmetry · Aromaticity

Named alongside it

The objects these essays reach for when they reach for this one.

Hückel theoryEigenvalueDelocalisationDegeneracyAromaticityHOMO–LUMO gapReference stateAntiaromaticityBenzeneBond orderHückel's 4n+2 ruleModel limit

All concepts