5E · The chemistry of life

Thermodynamics and kinetics

Gen ChemBiochem

The two questions every reaction faces: will it go? (thermodynamics — enthalpy, entropy, Gibbs free energy, equilibrium) and how fast? (kinetics — rate laws, activation energy, catalysis). They are independent: a spontaneous reaction can be immeasurably slow.

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Chemical reactions and stoichiometry

Gen Chem med-yield

Every quantitative chemistry problem rests on a balanced equation, whose coefficients are mole ratios. Reactions fall into a few recognizable types, and stoichiometry converts between grams, moles, and particles — capped by the limiting reagent.

Balance an equation by conserving atoms of each element (and charge, for ionic equations); the coefficients then give the mole ratios that drive every calculation. Knowing the common reaction types lets you predict products, and tracking the limiting reagent tells you how much product can actually form. This is the computational backbone underneath the thermodynamics, kinetics, and equilibrium that follow.

Classifying reactions

distinction Gen Chem low-yield

Common types: synthesis (A + B → AB), decomposition (AB → A + B), single and double displacement, combustion (hydrocarbon + O₂ → CO₂ + H₂O), neutralization (acid + base → salt + water), and redox (electron transfer).

Recognizing the type speeds product prediction: a hydrocarbon plus O₂ always combusts to CO₂ and water; an acid plus a base neutralizes to a salt and water; two ionic solutions may precipitate if a product is insoluble (use solubility rules). Many reactions belong to two types at once (a single-displacement reaction is also redox). The MCAT tests recognition and product prediction, not exhaustive classification.

Stoichiometry, limiting reagent, and yield

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Stoichiometry runs grams → moles → (mole ratio) → moles → grams. The limiting reagent runs out first and caps the product; percent yield = (actual ÷ theoretical) × 100%.

Convert each given amount to moles, compare against the balanced mole ratio to find which reactant is limiting (produces the least product), and convert that product back to the requested unit. The other reactant is in excess. The theoretical yield is the limiting-reagent prediction; the actual yield is always less (side reactions, losses), so percent yield quantifies the gap. Rests entirely on the mole.

Don't confuse

The limiting reagent is not simply the reactant present in the smallest amount — it's the one that runs out first relative to its coefficient. Compare moles ÷ coefficient, not raw moles or grams.

Thermodynamics and spontaneity

theory Gen Chem high-yield trap

Gibbs free energy ΔG = ΔH − TΔS predicts spontaneity: ΔG < 0 spontaneous (exergonic), ΔG > 0 nonspontaneous, ΔG = 0 at equilibrium. Enthalpy (ΔH) is heat; entropy (ΔS) is disorder; temperature weights the entropy term.

Spontaneity is a tug-of-war between enthalpy and entropy, refereed by temperature. Exothermic (ΔH < 0) and entropy-increasing (ΔS > 0) both favor spontaneity. When they conflict, temperature decides: a reaction that is enthalpy-disfavored but entropy-favored (ΔH > 0, ΔS > 0) becomes spontaneous only at high T (the TΔS term wins), and vice versa. ΔH, ΔS, and ΔG are state functions (path-independent), so Hess's law lets you add reaction steps. Free energy connects to electrochemistry through ΔG° = −nFE° and to equilibrium through ΔG° = −RT ln K.

Don't confuse

Spontaneous ≠ fast. ΔG tells you only whether a reaction is thermodynamically favorable, not how quickly it happens — diamond → graphite is spontaneous yet imperceptibly slow. Spontaneity is thermodynamics; rate is kinetics.

Heat, calorimetry, and the first law

PhysicsGen Chem med-yield

Heat added to a substance either raises its temperature (q = mcΔT) or drives a phase change at constant temperature (q = mL). The first law (ΔU = Q − W) is energy conservation: a system's internal energy changes by the heat added minus the work it does.

This is the physical (heat-and-temperature) side of thermodynamics that complements the chemical free-energy side. Temperature is average molecular kinetic energy; heat is energy transferred because of a temperature difference. Within one phase, heat changes temperature; at a phase change, heat instead breaks intermolecular bonds at constant temperature. The first law ties heat, work, and internal energy together for any process — including the W = PΔV work a gas does when it expands.

Calorimetry, specific heat, and latent heat

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Within a phase: q = mcΔT (c = specific heat, per gram; heat capacity is per object). At a phase change: q = mL (L = latent heat of fusion or vaporization), with temperature constant.

Specific heat c is the heat to raise one gram by one degree; water's is famously high (4.18 J/g·°C), so it resists temperature change. Heat capacity is the same idea for a whole object (per °C, not per gram) — don't conflate the two. Crossing a phase boundary takes latent heat (q = mL) at constant temperature, and the heat of vaporization is much larger than the heat of fusion. A heating curve is therefore sloped segments (q = mcΔT) joined by flat plateaus (q = mL).

Don't confuse

Specific heat (per gram) vs. heat capacity (per object) — and temperature is constant during a phase change, so q = mcΔT does not apply on a plateau; use q = mL there.

The first law, gas work, and thermal expansion

theory Physics med-yield

First law: ΔU = Q − W (internal-energy change = heat in − work done by the system). A gas does work W = PΔV when it expands (the area under a P–V curve). Solids and liquids expand when heated: ΔL = αLΔT.

The first law is conservation of energy for thermodynamic systems (heat into the system and work done by the system are the conventional positives). For a gas, expansion against pressure does work equal to the area under the P–V curve, so process type matters: isothermal (constant T, ΔU = 0), adiabatic (no heat, Q = 0), isobaric (constant P), isochoric (constant V, no work). Thermal expansion (ΔL = αLΔT) explains why materials grow when heated — bimetallic strips and expansion gaps in bridges.

The work done by an expanding gas equals the area under its path on a P–V diagram (W = PΔV).
A pressure–volume diagram with a curve falling from high pressure / low volume to low pressure / high volume as a gas expands; the area under the curve is shaded and labeled as the work done by the gas (W = PΔV).

The work done by an expanding gas equals the area under its path on a P–V diagram (W = PΔV).

Gases

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Ideal gases obey PV = nRT (and its sub-laws: Boyle, Charles, Avogadro). The kinetic molecular theory explains why, with average kinetic energy ∝ temperature. Real gases deviate at high pressure and low temperature.

The ideal gas law links pressure, volume, moles, and temperature; the named sub-laws are just PV = nRT with variables held constant (Boyle: P↓V↑ at fixed T; Charles: V∝T at fixed P). At STP (0 °C, 1 atm) one mole occupies 22.4 L. The kinetic molecular theory models gas particles as tiny, non-interacting, elastically colliding points whose average kinetic energy depends only on temperature — the basis for the gas laws and for effusion.

The ideal gas law and its sub-laws

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PV = nRT (R = 0.0821 L·atm/mol·K or 8.314 J/mol·K). Sub-laws: Boyle (P ∝ 1/V), Charles (V ∝ T), Gay-Lussac (P ∝ T), Avogadro (V ∝ n). At STP, 1 mol of gas = 22.4 L.

Always use absolute temperature (kelvin). The combined gas law P₁V₁/T₁ = P₂V₂/T₂ handles "before/after" changes without n. The ideal gas law also gives gas density (ρ = PM/RT) and drives gas stoichiometry (volume ↔ moles via 22.4 L/mol at STP), connecting back to the mole. Choose the R whose units match the problem's pressure/energy.

Partial pressures, KMT, and effusion

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Dalton's law: total pressure = sum of partial pressures, P_i = X_i·P_total. KMT: average kinetic energy ∝ T, so lighter gases move faster. Graham's law: effusion rate ∝ 1/√(molar mass).

In a gas mixture each component contributes a partial pressure proportional to its mole fraction — the principle behind alveolar gas exchange in 4B. Because average kinetic energy depends only on temperature, at a given T a lighter molecule has a higher speed (equal ½mv² ⇒ smaller m, larger v); Graham's law makes this quantitative for effusion (lighter gases effuse faster, ∝ 1/√M).

Real (non-ideal) gases

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Real gases deviate from ideal behavior at high pressure and low temperature, where molecular volume and intermolecular attractions — both ignored by the ideal model — start to matter. The van der Waals equation corrects for both.

The ideal gas law assumes point particles with no attractions — valid at low pressure and high temperature, where molecules are far apart and fast. At high pressure the particles' own volume becomes significant, and at low temperature intermolecular attractions pull molecules together (lowering the real pressure below ideal). The van der Waals equation adds correction terms for both. Gases behave most ideally when small, nonpolar, hot, and dilute.

Chemical equilibrium

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At equilibrium forward and reverse rates are equal; the equilibrium constant K = [products]/[reactants] (each raised to its coefficient). Compare the reaction quotient Q to K to find the direction of shift; Le Châtelier predicts the response to a stress.

ΔG° = −RT ln K links the sign of free energy to the position of equilibrium: K > 1 (products favored) means ΔG° < 0. Q vs. K: if Q < K the reaction proceeds forward; if Q > K, reverse. Le Châtelier's principle: a system at equilibrium shifts to counteract a stress — add reactant → shift right; remove product → shift right; increase pressure → shift toward fewer gas moles; raise temperature → shift in the endothermic direction (treat heat as a reactant or product). Catalysts speed both directions equally and do not shift the equilibrium position.

Le Châtelier's principle

process Gen Chem trap

Stress an equilibrium and it shifts to relieve the stress: changes in concentration, pressure/volume, or temperature each move it predictably. Temperature is the only stress that changes the value of K.

Adding a species shifts the system away from it; compressing a gas mixture shifts toward the side with fewer moles of gas. Only temperature changes K itself — concentration and pressure changes shift the position but leave K unchanged. For an exothermic reaction, raising temperature decreases K (shifts left); for endothermic, raising temperature increases K. A catalyst changes neither K nor the position — only the rate of reaching it.

Don't confuse

Adding a catalyst or an inert gas at constant volume does not shift the equilibrium. Catalysts speed both directions equally; only a volume change (which changes partial pressures) shifts a gas equilibrium. The trap is "more pressure always shifts it" — it must be pressure from a volume change.

Reaction kinetics

term Gen Chem high-yield

Rate is set by the activation energy barrier and the rate-determining (slowest) step. The rate law (rate = k[A]ᵐ[B]ⁿ) is determined experimentally; catalysts lower activation energy and speed the reaction without being consumed or changing ΔG.

Molecules react only if they collide with enough energy (above Ea) and correct orientation; the Arrhenius equation shows rate rising steeply with temperature and falling with Ea. The rate law reflects the mechanism's slow step and must be found from data, not from stoichiometry (reaction order ≠ coefficients). A catalyst provides an alternate pathway with lower Ea, accelerating the reaction without altering the thermodynamics — exactly what enzymes do biologically (overlapping the enzyme-kinetics content of Bio/Biochem). Reaction-coordinate diagrams display Ea (kinetics) and ΔG/ΔH (thermodynamics) on one picture.

How AAMC tests it

A passage gives initial-rate data at varying concentrations and asks for the rate law or order. Find how rate changes when one reactant is doubled: rate ×2 → first order in that reactant, ×4 → second order, unchanged → zero order.

A catalyst lowers the activation energy (dashed path) without changing ΔG; here the products lie below the reactants, so the reaction is exergonic.
A reaction-coordinate diagram of free energy versus reaction progress: reactants rise over a transition-state peak to products that sit lower than the reactants (exergonic); a dashed lower peak shows the smaller activation energy with a catalyst, and ΔG is marked as the negative drop from reactants to products.

A catalyst lowers the activation energy (dashed path) without changing ΔG; here the products lie below the reactants, so the reaction is exergonic.

Thermodynamic vs. kinetic control

distinction Gen Chem trap

The thermodynamic product is the most stable (lowest ΔG); the kinetic product forms fastest (lowest Ea). Low temperature and short times favor the kinetic product; high temperature and equilibrium favor the thermodynamic one.

When a reaction can give more than one product, which dominates depends on conditions. Under mild conditions the faster-forming (kinetic) product accumulates; given enough energy and time to reach equilibrium, the more stable (thermodynamic) product wins. This crystallizes the chapter's theme: the fastest path and the most favorable destination are not always the same.

Don't confuse

A catalyst changes the rate (kinetics), never the equilibrium position or product stability (thermodynamics). It cannot make a nonspontaneous reaction spontaneous — it only helps a favorable reaction get there faster.

Worked question

A reaction has ΔH = +60 kJ/mol and ΔS = +150 J/(mol·K). At which condition is it spontaneous?

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