Molecular Geometry & Bonding
what the shape decides
Concept

Three-centre bonding — where it appears

A bond in which one pair or two pairs of electrons are shared over three atoms. It puts more electrons round a central atom than four orbitals could hold in two-centre bonds, at the price of charge on the ends.

Named by 17 essays across 4 fields — each of them below, with the objects they name alongside it.

sulfur hexafluoride — Oh. The molecule with the point group found from its coordinates rather than looked up: every candidate operation was applied and kept when it permuted the atoms among themselves.

Hypervalency without d orbitals

Sulfur hexafluoride is not d²sp³ hybridised. The d orbitals are far too high in energy to contribute meaningfully, the bonding is three-centre four-electron, and the textbook account has been known to be wrong for fifty years.

beyond · Hypervalency Which rings close a shell. Each ring is filled with its own number of pi electrons and asked whether the highest occupied shell came out full. Of the rings drawn here, C6 and C10 close — at 6 and 10 electrons — which is Hückel's 4n+2, produced here rather than recalled.

Where two-centre bonding stops

A bond between two atoms is a special case, not the general one. Rings, clusters and metals are held together by orbitals spread over many centres, and the arithmetic that describes them is the arithmetic already used for benzene.

beyond · Multicentre One metal orbital, two ligands competing for it. Metal–ligand bond orders in a three-orbital model as the left-hand ligand's interaction is turned up. Its own bond order rises and the bond order to the ligand opposite falls, from 0.62 at equal strengths to 0.42 at the strongest. Nothing else in the model can carry the effect: switch the second bond off and it vanishes exactly.

The trans influence is an overlap argument

Two ligands on opposite sides of a metal both bond through the same metal orbital, and there is only one of it. Strengthen one and the bond order to the other falls — computed exactly on three levels, and measured as a bond length that grows by a tenth of an ångström.

applied · Overlap Hückel levels of three-centre four-electron. 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.

Three-centre bonding, computed

Three orbitals in a line and four electrons: a bonding level, a level with exactly zero amplitude on the central atom, and an empty antibonding one. The middle atom never exceeds an octet, and the ligands carry the charge — which is why every molecule that needs this arrangement has electronegative ligands.

beyond · Hypervalency π bond orders in benzene. Each bond drawn with a thickness set by its computed pi bond order, and the number printed beside it. The orders come from the eigenvectors and cost nothing extra once the matrix is diagonalised.

What one pair can hold together

Put a single electron pair into a ring of any size and it supplies a total bond order of exactly two and a π energy of exactly 4β — three atoms, eight atoms or six hundred. Spreading a pair over more centres divides the bonding among them; it neither creates nor destroys any.

beyond · Multicentre F s on sulfur hexafluoride: a₁g ⊕ eg ⊕ t₁u. The character of the basis under each class of operations, which is a count of what did not move, and the multiplicities that come out of the reduction formula. The multiplicities must be whole numbers, and that is the check.

Six bonds and four orbitals

The six fluorine σ functions of sulfur hexafluoride span a₁g ⊕ eg ⊕ t₁u. Sulfur's 3s and 3p supply a₁g and t₁u and nothing else, so four bonding orbitals hold twelve electrons across six bonds — a bond order of two thirds, computed from characters with no energy anywhere in it.

symmetry · Hypervalency Three orbitals in a line, four electrons in them. The three levels of a linear three-centre system, with the two lowest filled. The lower one is bonding across all three centres; the second has exactly zero amplitude on the middle atom, by symmetry rather than by arithmetic, so the two electrons in it sit entirely on the ends. That is where the charges come from: -0.5 on each end and +1 in the middle. Each of the two bonds has an order of 0.7071, which is 1/√2 and not the half the electron count suggests.

Hypervalency is about the ligands

The three-centre four-electron bond is offered as the reason sulfur hexafluoride needs no d orbitals. Read it forwards instead of backwards and it is a requirement rather than a permission — the arrangement puts half an electron onto each ligand before any electronegativity difference is applied, which is why the hypervalent compounds are fluorides and SH₆ is not a compound.

beyond · Hypervalency Strong outside, weak inside. The bond orders along each chain. A three-centre system has two equal bonds of 0.707 — not the one half the electron count suggests — and every longer chain alternates, strong at the ends and weak in the middle. The spread grows with the chain: 3:0.000, 5:0.211, 7:0.271, 9:0.296. Nothing here is about iodine.

Hypervalency does not stop at three centres

The three-centre four-electron bond is written up everywhere as an arrangement peculiar to hypervalent molecules. It is the first member of a family — five centres and six electrons, seven and eight — and the family predicts alternating bond strengths that the polyiodide crystal structures have.

beyond · Hypervalency Four, however many ligands there are. For each molecule, the number of ligand σ combinations that find a partner among the central atom's four s and p orbitals, against the number of ligands and lone pairs it has. The matched count rises along the diagonal and then stops at four, because there are four orbitals; everything above the ceiling is a pair with nowhere on the central atom to go, and that is what the word hypervalent names.

Four is all that s and p can match

Reduce the ligand σ set of ten molecules in each one's own point group and ask how many of its components transform as one of the central atom's four valence orbitals. The answer is never more than four — not by arrangement, in every geometry from linear to octahedral — and what is left over is n + L − 4, with exactly twice that many electrons in excess of an octet.

beyond · Hypervalency How many centres, by two measures that do not agree. For each of eight systems, the number of atoms one localised pair has real amplitude on, and its participation number — which weights those atoms by how much of the pair each holds. Where the sharing is even the two coincide; where it is not they differ by more than a whole centre, and that gap is what electron deficiency looks like from the inside. one of the systems has more than one localisation, so for it neither number is an answer.

One scale, from two centres to a cage

How many centres a pair of electrons holds together is two different numbers, and they separate exactly where the bonding is most deficient: the methyllithium tetramer's pairs sit on four atoms each and have a participation number of 2.54. Run the same measurement up the scale and the twelve-vertex borane refuses it — its localisation has at least ten maxima differing by six parts in a thousand, so the number of centres is not an output for it at all.

beyond · Multicentre Where the orphan pair actually sits. A σ-only Hückel model of each molecule, built from its own coordinates: the central atom's four valence orbitals, one σ orbital on each ligand, and the coupling between them the direction cosine of that ligand. Lone pairs need no special handling — they come out of the diagonalisation as the central orbitals no ligand combination transforms like. The charge is measured rather than assigned, and PF₅ comes out with two kinds of fluorine at 3 at -0.13 and 2 at -0.3, the more charged pair being the axial one that carries the orphan.

The count is the population

The census counted how many ligand combinations have no partner on the central atom and called the count n + L − 4. A σ-only model built from each molecule's own coordinates says what that count is worth: with no electronegativity difference anywhere, the mean charge on a ligand is minus the orphan count divided by the ligand count, exactly, in all ten cases. And the prediction the census made — that the charge grows with the orphan count — is refused by the divisor.

beyond · Hypervalency The even sharer is the one the repulsion likes least. trigonal bipyramid: 2 kinds of ligand, spread 0.1137, repulsion 6.4747; square pyramid: 2 kinds of ligand, spread 0.1658, repulsion 6.4844; pentagonal planar: 1 kind of ligand, spread 0.0000, repulsion 6.8819. The planar arrangement gives all five ligands exactly the same charge and costs 6.3 per cent more in repulsion than the bipyramid, which is the arrangement chemistry actually adopts — so the two models disagree about which arrangement is preferred, and about how much charge is moved.

Two models that disagree about the shape

The identity says how much charge a hypervalent molecule's ligands must share and nothing about how. Working out which arrangement shares it most evenly puts the σ model and the repulsion model on one axis for the first time: the even sharer is the pentagonal plane, which is the arrangement the repulsion likes least — and along the interchange chemistry actually uses, one model sees 0.15 per cent of a change and the other sees 54.

beyond · Hypervalency Ten molecules, twenty-six arrangements, three disagreements. Every arrangement of every one of the ten molecules, with the point group recovered from the arrangement's own coordinates and the ligand σ set reduced in it. 27 of them can be worked in a tabulated group; the formula n + L − 4 is right for 23 and wrong for 4. Every failure is a planar arrangement of four or more ligands, and every one of them is a molecule that does not adopt that arrangement.

The square that wastes an orbital

The orphan count that prices hypervalency was treated as a property of a molecule's composition — ligands plus lone pairs minus four. Run on twenty-six arrangements of the same ten molecules it is right for twenty-three and wrong for three, and all three are flat. A planar arrangement gives a main-group centre three usable orbitals rather than four, so the count is a property of the shape.

beyond · Hypervalency The pair's regime is not a property of the pair. How much the pair's bonding responds to its own overlap — the ratio of what it is bonded by at an overlap of 0.4 to what it is bonded by at 0.1 — with and without a third orbital coupled to both. Alone it is 11.83, which is the regime in which bonding tracks overlap. With a third orbital present it falls to 1.46, 0.92, 0.74 — and two of those are below one, meaning a fourfold increase in the overlap between the two atoms buys them less bonding rather than more. The coupling comes from the overlap by the Wolfsberg–Helmholz rule with K = 1.75, which is fitted rather than derived. Every stabilisation here inherits that; the shape of the curve against separation does not, because K is a constant.

A regime that belongs to the neighbours

Two orbitals at the same energy are bonded in proportion to their overlap and two far apart are barely bonded at all — two regimes, and the natural question is whether the regime is a property of the pair. It is not. Put a third orbital beside them and the pair's response to its own overlap falls from twelvefold to less than one: more overlap buys less bonding.

wrong · Overlap The count is a curve, and the curve flattens. How many distinct localised descriptions of a twelve-vertex cage had been found after each batch, out of 4,000 random starts. The last new one appears at start 124; the remaining 3,876 add nothing. The dashed curve is what the basin sizes measured here predict — the chance of having hit each description at least once — and it is a closed form rather than a fit to the points.

Where the count stops being an effort

A cage's localised descriptions were counted by a search that stopped when it stopped finding new ones, which makes the count a property of the stopping rule. Run to four thousand starts the count is fourteen and the last new description appears at start 124 — after which three thousand eight hundred and seventy-six starts add nothing. The four rarest are found six times in a thousand, which is what says nothing rarer is hiding.

beyond · Multicentre Three basin populations from one search. The share of 4000 random starts landing on each localised description, in rank order, on a logarithmic axis, for three cages and fillings. a twelve-vertex cage at twelve electrons gives 14 descriptions and two groups with a gap; a nine-vertex cage at eight electrons gives 63 descriptions and a smooth tail; a twelve-vertex cage at twenty electrons gives 15 descriptions and one basin and dust. Only the first is the twelve-vertex shape, and the rule it suggests is a rule about that shape.

Three shapes from one search

A cage's fourteen localised descriptions fell into two groups with a factor of five between them and nothing in the gap, which made counting the big basins look like a stopping rule. Two more cases from the same family give a smooth tail over sixty-three descriptions and a single basin holding ninety-eight per cent. One search, one family, three shapes.

beyond · Multicentre A pair with no overlap, and a third orbital swept past it. The three levels of a trio in which the two outer orbitals have exactly no overlap with each other, as the third orbital's energy is swept. The middle line is at -13.6 at every point — the antisymmetric combination of the two, which has no partner of its own symmetry and cannot mix with anything. The other two move, so the pair is split by an orbital it has no direct contact through.

A bond order between atoms that do not interact

A diatomic held where its overlap changes sign has no interaction between its two orbitals at all — which is what the sign change of its overlap means. Put a third orbital beside it and the pair is still split, one line sits exactly at the free-atom energy at every third-orbital energy, and the bond order between the two runs to −0.9999. Three measures of the same bond disagree completely.

wrong · Overlap

Named alongside it

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

HypervalencyNon-bonding orbitalsModel limitMulticentre bondingBond orderElectron-deficient bondingOctet ruleReduction formulaDegeneracyElectron countElectronegativityIrreducible representations

All concepts