Molecular Geometry & Bonding
what the shape decides
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Essays arrive in groups rather than one at a time, and a group usually opens up a subject not covered before. Between one group and the next nothing changes, so a reader who has seen the most recent group has seen everything.

17 September 2026

19 essays on what symmetry decides, when the molecule does not stop, what a spectrum settles, what the shape is for, what is taught wrongly, bonding models, beyond the octet, where the atoms go and orbitals

Only lithium's d level sits close enough to p. Each alkali's offset — how far its d level sits above p, in units of its s–p gap — at every shell from its valence shell to the thirtieth, computed from measured quantum defects, against the threshold below which a shell's s and p levels have a coupled minimum in a field. The screening model's offset of one fifth is drawn for comparison. Lithium sits below the threshold at every shell. Sodium, potassium, rubidium and caesium sit above it everywhere, by factors of 2.6 to 7. What symmetry decides

Four alkalis the model cannot hold

A shell's s and p levels have a coupled minimum in an electric field when its d level sits within a threshold fraction of the s–p gap above p, and a screening model put every shell's d level at one fifth — inside the threshold from the third shell on, with more room the larger the defect. Computed from measured quantum defects, lithium keeps the minimum at every shell. Sodium, potassium, rubidium and caesium lose it at every shell, and the screening model has no member that resembles any of them.

6 figures On the frustrated net the widest gap wins everywhere but just past a change of winner. Every basin found at half filling on the triangular net, at eleven contrasts, placed by the gap it opens at the Fermi level; the winning basin is filled and the rest open, sized by how many of two hundred starts reach them. Up to a contrast of 2.5 there is one basin. From 3 a second appears, and the winner is the one with the wider gap — except at 4, where the winner has a gap of 4.947 and a runner-up has 5.088. Squares mark basins with thirty-two unlike bonds and circles thirty. When the molecule does not stop

The gap follows the winner late

On a triangular net at half filling, the arrangement that binds best was expected to be the one that opens the widest gap at the Fermi level. Across twenty cases it is, eighteen times. The two exceptions are not noise: the frustrated net's winner changes at a contrast of 3.790, from an arrangement with thirty unlike bonds to one with thirty-two, and the gaps of the two do not cross until 4.849. For a whole unit of contrast the better binder has the narrower gap.

6 figures Every exact fit lies on one closed curve. The one-parameter family of force fields that reproduce all six of boron trifluoride's frequencies exactly, drawn in the B–F stretch constant and the stretch–bend coupling. It is a closed curve: the stretch constant runs from 3.94 to 12.11 millidyne per ångström and the coupling from -0.36 to 6.71. The four fits from four starting points sit together in one small patch of it. What a spectrum settles

The residual was a loop

Projecting away boron trifluoride's flat direction left four fits disagreeing by a tenth in the B–F stretch constant, and the disagreement was put down to the search or to the arithmetic. It is neither. Two frequencies cannot fix three constants in one symmetry block, so the exact fits form a closed curve along which the stretch constant runs from 3.9 to 12.1, and the four fits are four points on a short arc of it.

6 figures Where the nuisance parameters separate hardly depends on purity. For each of the seven clusters with a ground spin, the two couplings below 150 cm⁻¹ at which the monomer fraction and the temperature-independent term are uncorrelated, against the monomer fraction from half a per cent to sixteen, on logarithmic axes. Every cluster keeps both at every fraction. For ground spins of one and above they move by under three per cent; for the three doublets by about a tenth. A circle marks a pole of the third direction's exponent there and a square a zero. What the shape is for

Purity renames the poles

A susceptibility fit's sign poles were located at one monomer impurity, two per cent, and a real sample's impurity is rarely known. Swept from half a per cent to sixteen, the couplings where the fit's nuisance parameters separate barely move for ground spins of one and above and move a tenth for doublets. But the same separation stops being a pole and becomes a zero of the exponent at a few per cent, and above six to eight per cent every singlet acquires separations of its own.

6 figures The orbit identity holds on all nineteen, and the formula it replaced on eight. For each molecule in the census under the radius rule: its number of totally symmetric vibrations, the corrected count — symmetric orbits less symmetric redundancies — and the usual formula, orbits less redundancies. The corrected count lands on the molecule's own count every time. The usual formula is right for 8 of 19, and for ferrocene under the new bond list it predicts minus sixty-six. What symmetry decides

The census a bond rule was hiding

Every internal coordinate, redundancy and totally symmetric count here is built on a bond list, and the bond list came from a length cutoff that gave five molecules no bonds. Rebuilt on the radius rule, the census reaches nineteen molecules instead of fifteen, the orbit identity holds on every newcomer, ferrocene's coordinates finally span all its vibrations — and a different gap appears: no bond rule can give a square-planar centre its two out-of-plane vibrations.

6 figures The resonant share is not a straight line; it bends over and saturates. The share of runs of six in a resonant pair against the logarithm of the chain length, from a thousand sites to 10⁵⁰, at five concentrations of low sites. Dashed lines carry the slope from 10³ to 10¹² straight on. At x = 0.5 the share is 16.1 per cent at 10¹² and 57.7 per cent at 10⁵⁰, where the straight line would be at 78.6. At x = 0.75, the concentration with the most runs of six, it passes 76 per cent by 10³⁰. When the molecule does not stop

The share that was read as a line

The share of defect runs sitting in a resonant pair was read as a straight line in the logarithm of the chain length, rising by a density times a reach per decade and never saturating. The exact rise is that amount times the share of runs not yet resonant. At the concentration first studied the difference is small over nine decades and large beyond them; swept to the concentration with the most runs, the rise falls to a third, and half of all runs are resonant ten orders of magnitude later than the straight line says.

6 figures The measured cubic and quartic overshoot what Morse fell short of. Each molecule's αₑ as a fraction of the measured value, from its Morse curve and from a quartic potential built with the cubic and quartic coefficients the measured αₑ and ωₑxₑ imply. Every Morse curve is short, by 4 to 15 per cent. Every quartic is over, by 1 to 5 per cent: the repair moves αₑ past the measurement rather than onto it. What a spectrum settles

Two coefficients are not a potential

A Morse curve built from measured constants gets the vibration–rotation constant αₑ short by four to fifteen per cent, and the measured αₑ and anharmonicity imply the cubic and quartic a real potential should have. Built with exactly those two coefficients and solved, the potential overshoots instead. The reason is that the Morse curve's own series, cut after its quartic, moves αₑ by a sixth to a half of the error being repaired — so a quartic cannot tell whether the shortfall was the cubic.

6 figures Stars drift above the band and K₂,ₙ graphs fall below it. The upper separation coupling times (S + ½) against ground spin for every cluster computed, with the seven that defined the band shaded between 114.7 and 129.3 cm⁻¹. The stars, from four centres to eight, run 129.3, 114.7, 117.3, 127.2, 140.3 — down and then steadily up. The K₂,ₙ graphs, from K₂,₃ to K₂,₆, run 114.8, 124.0, 100.9, 90.0 — up and then steadily down. K₃,₅ sits at 113.9. Seven clusters of up to six centres happened to lie where the two families cross. What the shape is for

Five more clusters break the band

Seven spin clusters put their upper separation coupling times the ground spin plus a half inside a band from 115 to 129 cm⁻¹, which looked like a law of where a susceptibility fit's nuisance parameters decouple. Five clusters built to test it — two larger stars and three larger bipartite graphs — land inside it once. Stars drift above and bipartite graphs below, and neither the shape of the curve nor the first excitation places the separation instead.

6 figures Letting disputed pairs through narrows the rule and barely moves the panel. Over 61,353 straight boundaries in the plane of difference and dispute, the fewest pairs any boundary flags for each number of disputed pairs it lets through (bars), and the number of tables that flagged count needs at the measured correlation of 0.325 (dots). Missing none, nineteen is the least — the published rule. Each miss saves one or two flags and two to five tables; at eight misses, half the disputed pairs, the rule flags 8 and still needs 46 tables. What is taught wrongly

The rule is not the lever

One exception among nineteen flagged bond pairs would need seventy-three electronegativity tables to mean anything, and a rule that flagged fewer pairs looked like the way to need fewer. Searched over sixty-one thousand boundaries, nineteen is already the fewest that misses no disputed pair; each missed pair buys a table or five; and a rule flagging a single pair would still need fourteen. The requirement lives in the correlation between the tables, which moves it nine times as far as any rule can.

6 figures Each half has an integer exponent and the mixture does not. On logarithmic axes against the amplitude: the combined residual, the even half's anisotropy and the odd half relative to the mean. The even half is a straight line of slope 2.005. The odd half has slope 0.981 below 0.04 and then bends over. The combined residual, fitted as one power, gives 1.248 — an average of two integers weighted by where the sweep happens to sit, with the halves crossing at 0.084. What a spectrum settles

Two integers made one exponent

A sum over boron trifluoride's depolarised bands is nearly isotropic, and its residual scaled as the amplitude to the 1.248 — no integer, and a two-term fit left a pattern it could not remove. Averaging each distortion with its reverse splits the residual exactly into an even half that scales as the square, to 2.005, and an odd half that scales as the first power until a fifth-order term turns it over. And the sum was a stand-in: what an unresolved pair of bands would actually show is twenty times less flat.

6 figures Six removal lines, each smooth, and the contrast is whichever two sit at the cut. The weight of each of the six strongest removal lines of the half-filled chain of six, followed from U = 16 upward by continuity in energy and labelled by the energy it tends to. Every line is monotone from U = 19. The contrast is the third strongest over the fourth, so it changes whenever two lines exchange those ranks: at U = 28.92 the line tending to +0.45 overtakes the one tending to −1.80 and the two weights are equal, and at U = 157 the fourth and fifth exchange. Lines at ±E, drawn in one colour, converge to one weight. What is taught wrongly

The limit of one is a parity

A half-filled chain of six has no degenerate removal lines, and its intensity contrast still goes to one — after dipping near U = 32 and rising again to U = 128. Followed line by line, every removal line is smooth and monotone; the dip is an exact tie between two lines at U = 28.916, and the rise ends where two satellites change places. At large repulsion the lines pair up at ±E with equal weights, so the contrast goes to one exactly when the cut falls inside a pair. On a chain of four it does not, and the limit is 1.3125.

6 figures The unpaired electron's level stays put while its spin moves to the far end. Above, the trio's three levels as the overlap of A with C is raised from 0.25 to 0.45 while B's stays at 0.25. The lowest falls from -16.26 to -17.07 eV and the highest rises from -8.02 to -2.78 eV; the middle one, which holds the radical's unpaired electron, stays at −13.6 eV. Below, the spin on A and on B over the same change: from a half each to 0.236 on A and 0.764 on B, with the ratio of squared overlaps drawn as open circles on top. Bonding models

The spin the count does not hold

Three orbitals in a row keep one level at the free-atom energy however the overlap of one end is changed, and at three electrons that level holds the radical's unpaired electron. Its energy does not move. Its spin does: from half on each end to 0.236 and 0.764 as one overlap goes from 0.25 to 0.45, exactly the squared ratio of the two overlaps, at every energy of the middle orbital. A coupling between the ends moves the level and cannot move the spin. The energy and the spin are answering to different things.

6 figures The one-bend family was one angular ring at its ends and two everywhere else. Filled circles: the worst spread within a separation class for the eight nine-ring chains built by bending one fusion, placed at the angular rings each actually has. The chains bent at the first and last fusions have one angular ring, next to an end; the six bent in between have two adjacent angular rings whose turns cancel. The lower line is a single angular ring at each interior position, running 3.05, 3.66, 3.46, 3.03, 3.46, 3.66, 3.05; the upper line is two adjacent ones, running 4.30, 4.60, 4.06, 4.06, 4.60, 4.30. Every published point lies on one line or the other. Bonding models

The scatter counts angular rings

Eight nine-ring chains built by turning one fusion looked like one bend moved along a molecule. They were two families: one angular ring when the turned fusion is at an end, two adjacent angular rings everywhere else. Built from stated angular rings instead, twenty-seven chains show the ring-current scatter ignores which way a ring turns, does not grow with how many turn, and is mostly explained by one count per pair — each angular ring between two rings multiplies their response by 0.60, each one under them by 0.65.

6 figures Angular rings leave the heteroatom's own ring alone and scale the rest. Each ring's response as a fraction of the straight chain's, with the heteroatom on ring 0 and the first one, two, four or ten interior rings angularly fused, on a logarithmic axis. The heteroatom's ring stays within one and a half per cent in every case. The rings beyond the angular fusions fall, to under half by the third ring once two are angular, and to between an eighth and a third along the fully angular chain, alternating from ring to ring. Beyond the octet

An angular ring rescales what lies beyond it

A heteroatom's influence along a chain of fused rings decays with a length near 0.7 rings, and one bend was found to change almost nothing. Counted properly, that bend was two angular rings, and counting angular rings one at a time shows what they do: the heteroatom's own ring never moves by more than one and a half per cent, the rings beyond angular fusions fall to between an eighth and a half of their response — or rise by up to two fifths — and the decay length changes by a tenth.

6 figures A long bond goes axial at five and equatorial at seven. The energy of the odd site placed axially minus placed equatorially, against the odd bond's length relative to the others, for the trigonal bipyramid and the pentagonal bipyramid. Above zero the equatorial site is preferred. At five a longer bond goes axial and a shorter one equatorial; at seven, from 0.7 to 1.3, every sign is reversed — a shorter bond axial, a longer one equatorial. An open marker is a placement that is not a minimum: at seven the site each bond avoids is one it would slide out of. Where the atoms go

The long bond goes to the crowded site

Given one bond longer than the others, the repulsion model puts it axial in a trigonal bipyramid — against the rule it is usually cited for. The reason is a crowding count, and at seven sites the count reverses: the pentagonal bipyramid's crowded site is equatorial, so a long bond goes equatorial and a short one axial. PF₅'s long bonds are axial and IF₇'s are equatorial. And at seven the site a bond avoids is not even a minimum.

6 figures An antibonding occupation fills the zero and moves the minimum. The profile along the bond near π/R, per electron, on a logarithmic scale, for five antibonding occupations of the same two orbitals. With nothing in the antibonding orbital the profile is exactly zero at π/R = 1.573. Two hundredths of an electron leave a minimum at 1.608, which reads the separation as 1.954 bohr instead of 1.997. At 0.104 the minimum becomes a flat shoulder, and the Heitler–London bond, at 0.236, has none. Orbitals

The zero belongs to one determinant

A bonding orbital's momentum profile along the bond is exactly zero at π/R, and that zero reads a bond length with nothing fitted. It is a property of putting every electron into that one orbital. Any antibonding occupation fills it in linearly and drags the minimum outward, a tenth of an electron erases it, and the valence-bond wavefunction built from the same two functions never has one at any separation.

7 figures Folding the ring off its plane never gives the orbital back. For rings of four to eight ligands round a centre with no lone pair, the orphan count minus the formula n + L − 4, at polar angles from 60° to 120°. The upper dot in each row is the bare ring and the lower the same ring with a ligand on the axis. The bare ring is one over the formula at every angle, including 90°, where the ring is flat and its group is D₄ₕ, D₅ₕ or D₆ₕ; there is no table here for D₇ₕ or D₈ₕ. The capped ring agrees with the formula at every angle, 90° included, where the ring is exactly flat and the apex alone keeps its group C₄ᵥ to C₈ᵥ. Beyond the octet

Folding the ring does not give the orbital back

Three arrangements break the orphan count n + L − 4, all flat, and the reason given was flatness: the p orbital perpendicular to the ring has no ligand combination of its species. Fold the ring into an umbrella at any angle and that orbital becomes totally symmetric — and the count stays wrong by exactly one, for rings of four to eight. The ring offers one symmetric combination to a centre with two symmetric orbitals. Writing C₅ᵥ to see it also counts the pentagonal pyramid at last, and the formula holds there.

6 figures The zero at π/R follows parity, not bonding. The bonding and antibonding combinations of three atomic functions on nitrogen, each along the bond and each normalised to its own largest value, against momentum in units of π/R. For 2s the bonding combination is zero at π/R and the antibonding one is not. For 2p along the bond it is the other way round: the σ bond carries a sine, is zero at the origin and near its largest at π/R, and the antibonding combination carries the cosine. For 2p across the bond the π bond carries the cosine again. The factor is a cosine exactly when the orbital's inversion parity matches the atomic function's. Orbitals

The zero is a parity, not a bond

A hydrogen-like σ bond has a momentum profile along its axis that vanishes at π/R, and it is natural to read that zero as a bond's signature. Built from 2p functions pointing along the axis, the σ bond carries a sine instead and sits at 83 per cent of its peak there. Which factor an orbital carries is decided by whether its inversion parity matches its atom's, and bonding has nothing to do with it.

6 figures The consecutive triples fail for a uniform chain at every length. The share of three decades of accuracy line over which some basis size is usable, against the number of fragments from three to eight, for three arrangements and three ways of assembling the correction. On the uniform chain the consecutive-triple assembly covers less than pairs alone at every length from four, and the shortfall grows. On the heavy-inside chain it covers exactly what every triple covers. On the heavy-outside chain it covers more than every triple from five fragments on. Orbitals

Length did not rescue the consecutive triples

On four fragments, keeping only the consecutive triples of a counterpoise assembly worked for two arrangements and did worse than pairs for the uniform chain, and a short chain was the obvious excuse. Carried to eight fragments the excuse fails: the uniform chain's consecutive assembly settles at 48 per cent of the line against 68 for pairs. And the heavy-outside chain turns the lesson over — from five fragments every triple together covers less than the consecutive ones alone.

6 figures

Before that

Everything published earlier, newest first. Titles only — the cards are on the full listing.

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