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← General Chemistry I

6. Molecular Geometry, Intermolecular Forces and Bonding Theories

Why is water bent, and why does that make life possible?

Predict shape and polarity, relate intermolecular forces to properties, and use hybridization and molecular orbital theory.

ExperimentsWhat shape is a molecule?Measure the angles between bonds, before explaining them.
Experiment 1 · Measured today

How wide is the angle?

Molecules have shapes. What decides the angle between two bonds?

In 1874 Jacobus van 't Hoff and Joseph Le Bel proposed, independently, that the four bonds of a carbon atom point to the corners of a tetrahedron, to explain why some carbon compounds come in mirror-image forms. The idea that molecules are three-dimensional is that old. The Lewis structures of the last unit are flat drawings, but real molecules have shapes, and the shapes decide how they behave. Before explaining them, look at what is measured: predict each angle, drag the atom to where you think it sits, and compare.
109.5°OOCCO₂ · carbon dioxide
Molecule 1 of 4 · CO₂Carbon has two bonded atoms and no lone pairs. Drag the right-hand atom up or down to open or close the angle.
MoleculeCO₂
Bonds + lone pairs2 + 0
Angle shown109.5°
Predictions made0 / 4
The maths
Bond angle = the angle between two bonds at the central atom, in degrees.
CO₂: 2 bonded atoms, 0 lone pairs on C. You put it at 109.5°.
Questions you might have (3)
Why is the angle in water not 109.5° like methane?

Both have four pairs of electrons around the central atom, so both are built on a tetrahedron. But in methane all four pairs are bonds, and in water two are lone pairs. A lone pair is held by only one nucleus, so its cloud is fatter, and it pushes the bonding pairs together. The next section simulates this.

Where do these numbers come from?

From the NIST CCCBDB, which gives experimental bond angles (for water, 104.48° from rotational spectroscopy). A script reads them, and nothing was typed from memory.

Why does the figure show only two bonds?

A bond angle is the angle between two bonds, so two are enough to draw it. In BF₃ and NH₃ the third atom is out of the plane of the page, and the angle between any two of the three is the same.

Run the experiment to see what it showed.
TheoryPairs of electrons repelOne idea explains the shapes: build a molecule from electron pairs and let it settle.
Theory 1 · Sidgwick and Powell, 1940; Gillespie and Nyholm, 1957

Why molecules have the shapes they do

What single idea predicts the angles you measured?

In 1940 Nevil Sidgwick and Herbert Powell noticed that the shape of a molecule follows from the number of electron pairs around its central atom, and in 1957 Ronald Gillespie and Ronald Nyholm turned the idea into a method. You have measured carbon dioxide straight, water bent, and ammonia in between. One idea explains them all: electron pairs repel each other. Build a molecule from pairs of electrons around a central atom, and watch it settle.
● X bonded atom · ◯ lone pair · drag to turn
Bonding pairs2
Lone pairs0
Or choose a molecule:
Step 1 of 3 · Add pairs, one at a timeStart with two bonding pairs and add a third, then a fourth. Watch where they go. How far apart are they at four?
Electron pairs2
Arrangement of the pairslinear
Shape of the moleculelinear
Bond angle simulated180.0°
The maths
Model: each electron pair is a point on a sphere around the central atom; points repel, and settle where the total repulsion is least. A lone pair repels a little more than a bonding pair.
2 electron pairs (2 bonding, 0 lone): arrangement linear, shape linear, hybridization sp
Simulated bond angle: 180.0°. Measured: 180.0°.
Questions you might have (4)
Why do lone pairs push harder than bonding pairs?

A bonding pair is held between two nuclei, so it is pulled into a narrow region along the bond. A lone pair belongs to the central atom alone, so it spreads out in a fatter cloud close to that nucleus. The wider cloud takes up more angular room, and the bonds are squeezed. The simulation represents this by weighting lone pairs a little more.

Does a double bond count as one pair or two?

One region of electron density. VSEPR counts directions in which electrons sit round the central atom: a double or triple bond is one of them. So CO₂ (two double bonds) has two regions and is linear, and the carbon in ethylene has three and is flat, with angles near 120°.

Where are the lone pairs in a trigonal bipyramid?

In the middle plane, not at the poles. There the lone pair has only two close neighbours at 90° instead of three, so it feels less repulsion. Try SF₄ (seesaw), ClF₃ (T-shaped) and XeF₂ (linear), and look for where the lone pairs end up.

Is this a real calculation?

It is a model, and a good one: it reproduces the measured angles of NH₃ and H₂O to within about a degree. It treats electron pairs as points repelling with a steep law, with lone pairs weighted more, and finds the lowest-energy arrangement by a short numerical search.

Work through it to see what it shows.
ExperimentsCan you see a molecule is polar?A charged rod, and four liquids.
Experiment 2 · Debye, 1912

Bending a stream of liquid

Hold a charged rod near a thin stream of liquid. Which liquids bend toward it, and why?

In 1912 Peter Debye proposed that some molecules carry a permanent separation of charge, a dipole, and showed how to measure it from the way a substance responds to temperature. There is a simpler way to see one. Hold a charged rod beside a thin stream of liquid: if the molecules have a positive end and a negative end, the rod will pull on the stream. The tug-of-war section said unequal sharing makes a bond polar. Compare four liquids, and look for a pattern the bond polarities alone do not explain.
Liquid:Rod:
Drag in the picture to move the rod closer or farther. The dashed line is where a stream that does not bend would fall.
Predict for H₂O:
Step 1 of 4 · Water, positive rodWater falls in a thin stream. Predict, then open the tap with a positively charged rod beside it.
LiquidH₂O
Measured dipole1.86 D
Rodpositive
Streamclosed
The maths
A molecule with a dipole has a slightly positive end and a slightly negative end. In an electric field it turns so the opposite end faces the rod, and the net pull bends the stream.
H₂O (water): measured dipole moment 1.86 debye. It is polar, so the stream should lean toward the rod.
Questions you might have (3)
Why does water bend toward a negative rod too?

A water molecule has a positive end and a negative end. Near a negative rod the molecules turn their positive ends toward it, and the rod pulls on the near positive ends harder than it pushes on the far negative ends, because the near ends are closer. So a neutral stream of dipoles is attracted by either sign.

Is the deflection drawn to scale?

No. The lean is drawn in proportion to the measured dipole moment, so a bigger dipole bends more, but the size is for display. Hanging a rod beside a stream is a qualitative demonstration, and the dipoles, in debye, are from the NIST CCCBDB: water 1.86, dichloromethane 1.62, chloroform 1.04, carbon tetrachloride 0.

What is a debye?

The unit of dipole moment: the charge separation of one electron and one proton about 21 pm apart, roughly. Water has 1.86 D, hydrogen chloride 1.09 D.

Run the experiment to see what it showed.
TheoryShape decides polarityAdd the bond dipoles as arrows, and see when they cancel.
Theory 2 · Adding arrows

When bond dipoles cancel

Carbon tetrachloride has polar bonds and does not bend in a field. Water does. What decides it?

The stream experiment left a puzzle. Carbon tetrachloride has four polar bonds and does not bend toward a rod, while chloroform, with three of the same bonds and one C–H, does. Water has only two polar bonds and bends strongly. The difference must be geometry. Add up the bond dipoles as arrows, and see when they cancel.
Molecule:
OOCCO₂ · carbon dioxideorange arrows: bond dipoles, pointing toward the more electronegative atom. Drag to turn.
Is CO₂ polar overall?
Molecule 1 of 4Choose CO₂ above. Look at the arrows, decide whether they cancel, then add them.
MoleculeCO₂
Shapelinear
Sum of arrows (model)?
Measured dipole?
The maths
Bond dipole = an arrow toward the more electronegative atom, length |ΔEN|. The molecule's dipole = the sum of the arrows (a vector sum).
CO₂: C–O ΔEN 0.89. 2 bonds, linear.
Questions you might have (4)
Why is the model about half the measured size?

It uses electronegativity difference as the size of each bond dipole, which is only a rough guide, and it leaves out the dipole contributed by lone pairs. Water's two lone pairs, for example, add to the dipole. The pattern is what the model gets right: which molecules are polar and which are not, and the order within a family.

Phosphine, PH₃, has bond dipoles near zero. Is it nonpolar?

The model says nearly so, because P and H have almost the same electronegativity. But phosphine has a measured dipole of 0.58 D, from its lone pair, whose electrons are off to one side of the molecule. Lone pairs matter.

Is ozone polar?

Yes, 0.53 D, though it contains only oxygen atoms and each bond would have zero dipole. This comes from the formal charges in its resonance structures: the atom in the middle is positive and the ends share a negative charge, and the molecule is bent.

How does this connect to the stream experiment?

Water, chloroform and dichloromethane bent in the field because their arrows add up. Carbon tetrachloride did not because its four arrows, pointing to the corners of a tetrahedron, cancel exactly.

Work through it to see what it shows.
ExperimentsWhen Lewis structures failA prediction from the structure you drew, put to the test.
Experiment 3 · A demonstration since the 1890s

Liquid oxygen in a magnet

Pour liquid nitrogen between the poles of a strong magnet, and then liquid oxygen. Which one is held?

In the 1840s Michael Faraday noticed that oxygen gas is weakly attracted to a magnet. When liquid oxygen could be made in quantity, in the 1890s, James Dewar showed that it clings to one. Our Lewis structure for O₂ pairs up every electron, and paired electrons give no magnetism. Make the prediction from the structure you drew, and then watch what the liquid does.
Predict for nitrogen, from its Lewis structure:
Step 1 of 2 · NitrogenNitrogen's Lewis structure is :N≡N: with all electrons paired. Predict, then pour.
Liquidnitrogen
Lewis structure unpaired0
Measured unpaired0
In the magnet—
The maths
A substance with unpaired electrons is attracted into a magnetic field (paramagnetic). One with every electron paired is very slightly repelled (diamagnetic).
N₂: ground-state spin multiplicity 2S + 1 = 1 (NIST), so 0 unpaired electrons. The Lewis structure :N≡N: has 0 unpaired.
Questions you might have (3)
How can oxygen have unpaired electrons when its Lewis structure shows none?

The Lewis structure pairs up electrons in localized bonds and lone pairs. The molecular orbital picture puts the electrons into orbitals spread over the whole molecule. Oxygen has two electrons in a pair of antibonding orbitals of equal energy, and by Hund's rule they sit in separate orbitals with parallel spins. This is worked out in the molecular orbital section.

What does spin multiplicity mean?

2S + 1, where S is the total spin of the electrons. All electrons paired gives S = 0 and multiplicity 1 (a singlet). Two unpaired electrons with parallel spins give S = 1 and multiplicity 3 (a triplet). The NIST database lists O₂ as a triplet, and N₂ as a singlet.

Is this the same effect as in the Stern-Gerlach experiment?

Related. There, a beam of single atoms with one unpaired electron split in a magnetic field. Here, molecules with two unpaired electrons are drawn into a strong field. Both are the magnetic moment of unpaired electron spin.

Run the experiment to see what it showed.
TheoryHow atoms prepare to bondOrbitals that point where the bonds are.
Theory 3 · Pauling, 1931

Hybrid orbitals

Carbon uses 2s and 2p orbitals, which are not at 109.5° to each other. How does methane get its tetrahedral bonds?

In 1931 Linus Pauling faced a puzzle. Carbon's outer electrons occupy one 2s and three 2p orbitals, which are not alike and are not at 109.5° to one another, yet methane has four identical bonds at exactly that angle. His answer was that an atom can mix its orbitals into new ones, hybrids, that point where the bonds are. You can see how by turning one knob: the fraction of s in the mix.
96.4°two hybrid orbitals, s fraction 0.10 blue: the large lobe. red: the small back lobe (opposite sign). Drag the marker below.sp³sp²spall phalf s
Step 1 of 2 · Turn the knobDrag the marker. Start from the left, where the two orbitals are pure p (90° apart), and move right. Find sp³, sp² and sp: the marks turn green when you land on them.
s fraction0.100
Angle between hybrids96.4°
Special values found0 / 3
Molecules matched0 / 4
The maths
Two hybrids, each with s fraction a, are orthogonal when cos θ = −a / (1 − a).
a = 0.100: cos θ = −0.100 / 0.900 = -0.111 → θ = 96.4°
CH₄: 4 regions of electron density round C (4 bonded atoms; a double bond counts as one region) → sp³. Bonds at C: 4 σ.
Questions you might have (4)
Why do ammonia and water, which are sp³, have angles below 109.5°?

The four hybrids are not identical: a lone pair takes a little more s character and the bonds a little less p, so they close slightly. The idea of equal sp³ hybrids is the ideal case; the lone-pair squeeze from VSEPR is the correction.

What is the difference between a σ and a π bond?

A σ bond is formed by overlap along the line between the nuclei (two hybrids, or an s orbital with a hybrid, meeting head on). A π bond is formed by sideways overlap of p orbitals above and below the line. In the last unit you found the second pair in a double bond adds less to the bond energy than the first (C=C 590 kJ/mol against C–C 330): sideways overlap is weaker.

Are hybrid orbitals real?

They are a mathematical way of combining orbitals that gives a good picture of bonds in a molecule with a definite shape. Nothing physical happens in an atom to mix them: it is the molecule's own wave function, rewritten in a convenient basis. Hybrids and the electron-pair picture of Lewis go together, and they work well for geometry. For energies and magnetism, as with oxygen, the next section's molecular orbitals do better.

Why d orbitals for sp³d and sp³d²?

Atoms in period 3 and below with five or six regions of electron density, like phosphorus in PCl₅ and sulfur in SF₆, are described with sp³d and sp³d² hybrids. As in the Lewis unit, the role of d orbitals in such molecules is debated; the shapes (trigonal bipyramid, octahedron) are what VSEPR already gave you.

Work through it to see what it shows.
Theory 4 · Hund and Mulliken, 1927 to 1932

Molecular orbitals

What does the electron picture look like if the electrons belong to the whole molecule, and why does oxygen come out magnetic?

While Pauling was building his picture of bonds between pairs of atoms, Friedrich Hund and Robert Mulliken, between 1927 and 1932, were building a rival one in which the electrons belong to the whole molecule. Its early success was oxygen. You already know how to fill levels with electrons; the rules are the same, but the levels are now orbitals of the molecule. Fill them for the diatomic molecules and see whether oxygen comes out magnetic.
Molecule:
↑ energyσ*1santibondingσ1sbonding
Click a box to add the next electron. Blue: bonding. Red: antibonding.
Step 1 of 3 · NitrogenChoose N₂. It has 10 valence electrons. Click a box in the energy ladder to add the next electron; fill from the bottom.
Electrons placed0 / 2
Bond order…
Unpaired electrons…
Expected (rules)1, 0 unpaired
The maths
Bond order = ½ × (electrons in bonding MOs − electrons in antibonding MOs).
H₂: 2 valence electrons. Bonding 0, antibonding 0 → bond order ½ × (0 − 0) = 0. Unpaired: 0.
Questions you might have (4)
Why is the order of σ2p and π2p different for N₂ and O₂?

The 2s and 2p orbitals of the same atom can mix, which pushes σ2p up. The mixing matters when 2s and 2p are close in energy, as in boron, carbon and nitrogen. By oxygen the gap has grown and the mixing is small, and σ2p drops below π2p. For O₂ the final filling comes out the same either way. The order matters for B₂ and C₂, where it decides whether the π2p pair fills before σ2p.

Why does Ne₂ have bond order 0?

Eight valence electrons from each atom fill every bonding and antibonding orbital, so bonding and antibonding electrons are equal. A bond order of zero means no net bonding, and neon exists as separate atoms. Helium, dihelium, likewise.

Does the bond order match the measurements?

Yes: N₂ (order 3) is 109.8 pm long and takes 945 kJ/mol to break, O₂ (order 2) 120.8 pm and 498, F₂ (order 1) 141.2 pm and 159, from the NIST data. As the bond order falls, the bond lengthens and weakens.

Why is C₂ interesting?

With 8 valence electrons it fills σ2s, σ*2s, and puts all four of its remaining electrons into the pair of π2p orbitals: two π bonds and no σ bond from the p orbitals. A bond order of 2 made entirely of π bonding is unusual, and the measured molecule is diamagnetic, as the filling here predicts.

Work through it to see what it shows.
ExperimentsWhat holds molecules to each other?Neutral molecules attract. How much shows up in the boiling point.
Experiment 4 · Measured today

Why does water boil at 100 °C?

Compare the boiling points of the hydrides of a family. Where should the lightest one sit, and where is it?

In 1920 Wendell Latimer and Worth Rodebush proposed that a hydrogen atom can hold together two other atoms, to explain why water is such an unusual liquid. The evidence was in the boiling points. Molecules attract each other even though they are neutral, and how strongly shows in how much heat it takes to pull them apart into a gas. Predict the boiling point of the first member of each family from the pattern of the others, and see which ones break it.
Family:
-150-100-50050100Boiling point, °Cperiod 2period 3period 4period 5SiH₄GeH₄SnH₄drag here: where will CH₄ sit?
Predict the boiling point of methane, CH₄: drag on the chart (up is hotter).
Family 1 of 4 · Group 14Look at the three heavier hydrides in Group 14: they rise steadily. Where does the line put methane, CH₄? Drag to predict it, then check.
Bigger molecules boil higher: the alkanes (CₙH₂ₙ₊₂)
CH₄
-161.49 °C
C₂H₆
-88.55 °C
C₃H₈
-42.25 °C
C₄H₁₀
-1.15 °C
C₅H₁₂
35.85 °C
C₆H₁₄
68.45 °C
C₈H₁₈
125.05 °C
Each added CH₂ adds electrons and surface, so the dispersion attraction between molecules grows, and so does the boiling point.
FamilyGroup 14
Trend predicts-144 °C
Measured?
Above the trend?
The maths
Within a family, heavier molecules have more electrons, so stronger dispersion forces, so higher boiling points. Fit a line through periods 3, 4 and 5 and extend it to period 2.
Group 14 hydrides, periods 3 to 5: SiH₄ -111.9 °C, GeH₄ -88 °C, SnH₄ -52 °C. The trend predicts -144 °C for CH₄.
Questions you might have (4)
What are dispersion forces?

Even a nonpolar molecule has electrons that move, so at any instant the charge is slightly uneven and the molecule is a tiny, flickering dipole. That induces a matching dipole in a neighbour, and the two attract. All molecules have these forces, and they grow with the number of electrons and the surface area. They are why methane can be liquefied at all.

Why do the hydrides of nitrogen, oxygen and fluorine stand out?

An N–H, O–H or F–H bond is very polar, because N, O and F are small and highly electronegative, and it leaves the hydrogen almost bare: a small positive charge on a very small atom, with no inner electrons shielding it. That hydrogen can approach a lone pair on a neighbouring N, O or F very closely, and the attraction is far stronger than ordinary dipole–dipole attraction. That is a hydrogen bond.

Is methane's low boiling point a surprise?

No: carbon is not electronegative enough to polarize C–H much, and it has no lone pair. Methane has only dispersion forces, and it sits right on the trend of its family, which is how you can tell nothing extra is holding it.

Where do the boiling points come from?

From the Wikipedia article on each compound, which cites the CRC Handbook of Chemistry and Physics and other references, read by a script. Water's is 99.98 °C there.

Run the experiment to see what it showed.
TheoryWater, from one molecule to a lakeEvery idea in this unit, in one chain.
Theory 5 · The moment

Why ice floats

Almost every substance is denser as a solid than as a liquid. Water is not. Follow the chain from the shape of one molecule to a lake with ice on top.

Every winter the ponds freeze from the top, with ice on the surface and liquid water beneath, and fish survive the cold. It is so familiar that it hardly seems strange, but almost every other substance is denser as a solid than as a liquid. The hook of this unit asks why water's bent shape makes life possible. You now have all the parts: repelling electron pairs, bond dipoles that add, and the strong attraction between water molecules. Put them together, one step at a time.
1 · Shape2 · Polarity3 · Hydrogen bonds4 · Ice
Oxygen has two bonding pairs and two lone pairs: four pairs. They arrange as a tetrahedron. Only the atoms show. What is the shape of the water molecule?
Step 1 of 4 · The shapeWater has four pairs of electrons round oxygen. Predict its shape.
Shape?
Dipole?
Hydrogen bonds per molecule?
Ice vs water at 0 °C?
The maths
The chain: 4 pairs of electrons → bent → polar → hydrogen bonds → open network → less dense.
Water: 2 bonding + 2 lone pairs. Simulated angle 105.4°, measured 104.5°.
Questions you might have (4)
Why does liquid water become less dense below 4 °C?

Two things compete as you cool it. Cooling slows the molecules and brings them closer, which raises the density, as for any liquid. But as the water cools, more hydrogen-bonded rings and open clusters form, which take up more room. Above 4 °C the first effect wins; below, the second. Freezing completes the open network.

Why does a lake freeze from the top?

Water at 4 °C is the densest, so it sinks, and cooler water (denser until 4 °C only) floats up. As the whole lake approaches 4 °C it stops overturning, then the surface cools below 4 °C, is less dense, and stays on top until it freezes. Ice floats on that. Liquid water below stays near 4 °C, and fish survive winter.

How strong is a hydrogen bond?

Much weaker than a covalent bond but much stronger than ordinary attractions between molecules. It is why water boils 190 °C above the trend of its family, and why so many properties of water are unusual: its high boiling point, high heat capacity and its expansion on freezing all come from the same network of hydrogen bonds.

Where does the density data come from?

From Wikipedia's data page for water, which cites the CRC Handbook: liquid density at temperatures from −30 to 100 °C, and 0.92 g/cm³ for ordinary ice (ice Ih), which the source gives to two figures. A script reads it, and the expansion on freezing, about 8.7 %, is worked out from it.

Work through it to see what it shows.
PracticeProblemsNumbers from this unit, in the style of a college problem set.
Practice

Practice

Numbers from the experiments, in the style of a college problem set. Every problem has a hint and a worked solution.

VSEPR0 right of 0 · streak 0

A central atom has 2 bonded atoms and 0 lone pairs. How many electron domains does it have?

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