Biological Molecules
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Biological Molecules
Summary — What This Chapter Covers
- Water is a polar molecule that forms hydrogen bonds — this makes it a superb solvent, gives it cohesion/adhesion, and makes it the medium for all life's chemistry.
- Saccharides (carbohydrates) come in three sizes: monosaccharides (1 sugar unit), disaccharides (2 units), and polysaccharides (many units) — all built from C, H and O.
- Condensation reactions join monomers together and release a water molecule; hydrolysis reactions use water to split them apart again.
- Glycosidic bonds link sugar monomers (e.g. 1,4 or 1,6 bonds); ester bonds link glycerol to fatty acids in lipids.
- Starch (amylose + amylopectin) stores energy in plants; glycogen does the same job in animals and fungi — both are insoluble, compact, and branched for fast glucose release.
- Benedict's test detects reducing sugars (colour change blue → brick-red); a modified version with acid + neutralisation detects non-reducing sugars like sucrose.
- Iodine test detects starch (orange/brown → blue-black).
- Both tests can be made semi-quantitative using serial dilutions + a colorimeter to build a calibration curve.
- Triglycerides (fats/oils) are made of 1 glycerol + 3 fatty acids joined by ester bonds (esterification), releasing 3 water molecules.
- Fatty acids can be saturated (no C=C double bonds, straight chains) or unsaturated (mono/poly, kinked chains, mostly plant oils).
1. The Importance of Water
Why water is polar
Water (H₂O) is one oxygen atom covalently bonded to two hydrogen atoms. Oxygen is far more "electron-greedy" (electronegative) than hydrogen, so the shared electrons in each covalent bond spend more time near the oxygen. That creates a slightly negative region on the oxygen (δ⁻) and slightly positive regions on each hydrogen (δ⁺).
Think of it like a tug-of-war where oxygen is much stronger than hydrogen — it doesn't rip the rope away completely (that would be an ionic bond), it just pulls the middle point closer to its own side. That uneven "middle point" is called a dipole, and a molecule with a dipole like this is called a polar molecule.
Why this matters — properties that come from hydrogen bonding
- Cohesion — water molecules stick to each other via hydrogen bonds. This is why water flows as a continuous stream and why it can be pulled up a plant stem in one unbroken column.
- Adhesion — water molecules stick to other polar surfaces (like the walls of a xylem vessel). Cohesion + adhesion together explain capillary action.
- Excellent solvent — because water is polar, its δ⁺ ends surround negative ions (like Cl⁻) and its δ⁻ ends surround positive ions (like Na⁺). This pulls ionic and polar substances apart so they dissolve — which is essential because dissolved substances can move freely and react with each other inside cells.
Explain, in terms of electronegativity, why water is described as a polar molecule.
Sodium chloride dissolves readily in water. Explain how water molecules cause NaCl to dissolve.
2. Saccharides (Carbohydrates)
The three levels of carbohydrate
Carbohydrates all contain carbon, hydrogen and oxygen, and they're built in a "Lego-brick" hierarchy: small units (monomers) snap together into bigger and bigger structures.
| Level | What it is | Examples |
|---|---|---|
| Monosaccharide | The single sugar monomer — the basic Lego brick | Glucose (6C), Fructose (6C), Galactose (6C), Ribose (5C), Glyceraldehyde (3C) |
| Disaccharide | Two monosaccharides joined by a glycosidic bond | Maltose (glucose+glucose), Sucrose (glucose+fructose), Lactose (glucose+galactose) |
| Polysaccharide | Many monosaccharides joined in long chains | Starch (amylose + amylopectin), Glycogen, Cellulose |
Alpha (α) vs Beta (β) glucose
Glucose is a hexose (6-carbon) sugar that forms a six-membered ring. Carbons 1–5 form the ring, and carbon 6 sticks up above it. There are two nearly identical forms of glucose, and the only difference is which way round the H and OH groups point on carbon 1:
- Alpha (α) glucose — the H is above the ring at carbon 1, the OH is below.
- Beta (β) glucose — the H is below the ring at carbon 1, the OH is above.
This tiny difference matters enormously — it's the reason starch and glycogen (built from α-glucose) form compact, coiled/branched storage molecules, while cellulose (built from β-glucose, not required in this topic but useful context) forms straight, strong structural fibres.
Disaccharides & glycosidic bonds
Two monosaccharides join together via a condensation reaction to form a disaccharide, creating a glycosidic bond and releasing one water molecule. The "name" of the bond (1,4 or 1,2, etc.) tells you which numbered carbons on each sugar are joined.
| Disaccharide | Made from | Bond type |
|---|---|---|
| Maltose | α-glucose + α-glucose | 1,4 glycosidic bond |
| Sucrose | α-glucose + β-fructose | 1,2 glycosidic bond |
| Lactose | α-glucose + β-galactose | 1,4 glycosidic bond |
Because disaccharides carry lots of exposed –OH (hydroxyl) groups, they form hydrogen bonds readily with water — which is why they're easily soluble and taste sweet, and why the body can quickly break them down for a fast source of energy.
Polysaccharides: Starch & Glycogen
Polysaccharides are the storage form of carbohydrate — big, insoluble, and packed with energy. Being insoluble is actually a feature, not a limitation: a soluble molecule would lower the water potential of the cell and cause water to rush in by osmosis, swelling and possibly bursting the cell. Starch and glycogen dodge this problem entirely.
Starch (plants) — made of two different polysaccharides
- Amylose — an unbranched chain of α-glucose joined by 1,4 glycosidic bonds. It coils into a helix shape, held together by hydrogen bonds within the molecule. The helix packs the chain very compactly, so a lot of glucose can be stored in a small space.
- Amylopectin — a branched molecule with 1,4 and 1,6 glycosidic bonds. The branches create lots of exposed terminal glucose molecules, which enzymes can hydrolyse quickly when the cell needs energy.
Both forms are insoluble and stored as granules inside plastids (membrane-bound organelles specialised for storage/photosynthesis in plant cells).
Glycogen (animals & fungi)
Glycogen works on the same principle as amylopectin — 1,4 and 1,6 glycosidic bonds — but is even more branched. More branches means more terminal glucose ends, which means glucose can be added or removed faster. This matters because animals are highly metabolically active and need to mobilise glucose quickly. It's stored as visible granules in liver and muscle cells.
| Feature | Amylose | Amylopectin | Glycogen |
|---|---|---|---|
| Monomer | α-glucose | α-glucose | α-glucose |
| Branched? | No | Yes (~every 20 monomers) | Yes (~every 10 monomers) |
| Helix shape? | Yes | No | No |
| Glycosidic bonds | 1,4 | 1,4 and 1,6 | 1,4 and 1,6 |
| Found in | Plants | Plants | Animals/fungi |
Glycogen is more highly branched than amylopectin. Suggest why this is an advantage to animal cells.
Explain why starch is a good storage molecule, referring to its solubility and structure.
3. Core Practical 1: Testing for Sugars & Starch
Benedict's Test — Reducing Sugars
Benedict's reagent is a blue solution containing copper(II) sulfate. Reducing sugars (which can donate electrons — remember OILRIG: Oxidation Is Loss, Reduction Is Gain, of electrons) reduce the blue Cu²⁺ ions to insoluble brick-red copper(I) oxide, which forms a precipitate.
Method
- Add an excess of Benedict's reagent to the sample in a test tube.
- Heat in a water bath that has been brought to the boil, for a few minutes.
- Observe the colour change.
Testing for non-reducing sugars (e.g. sucrose)
Sucrose won't react with Benedict's reagent directly because it isn't a reducing sugar. To test for it:
- Add dilute hydrochloric acid to the sample and heat in a boiling water bath — this hydrolyses any glycosidic bonds present, breaking the disaccharide into its monosaccharides.
- Neutralise with sodium hydrogencarbonate (check with red litmus paper, then add a little extra so conditions are slightly alkaline — Benedict's test needs this to work).
- Carry out the standard Benedict's test as normal — a colour change now confirms a reducing sugar was present (i.e. that a non-reducing sugar was hydrolysed into reducing monosaccharides).
The resulting monosaccharides expose an aldehyde or ketone functional group that can donate electrons to copper(II) sulfate, allowing the red precipitate to form.
Iodine Test — Starch
Add a few drops of orange/brown iodine solution directly to the sample.
This test is especially useful in enzyme experiments — e.g. to show that amylase has fully digested starch (the blue-black colour disappears over time).
Making it Semi-Quantitative: Colorimetry
A colour change from "green" to "brick-red" is useful, but human eyes are bad at judging exact shades. To turn these tests into quantitative data (an actual concentration value), we use a colorimeter.
Step 1 — Serial dilution
Create a set of standard solutions of known concentration by serially diluting a stock solution (e.g. 0, 2, 4, 6, 8, 10 mmol dm⁻³ glucose, or "doubling dilutions" where concentration halves each time).
Step 2 — React identically
Treat every standard solution (and the unknown sample) in exactly the same way: same volume of Benedict's reagent or iodine, same water bath temperature, same time.
Step 3 — Colorimeter reading
A colorimeter shines a specific wavelength of light through the sample in a cuvette and measures how much light is absorbed. The filter colour chosen should contrast with the sample's colour — e.g. Benedict's turns orange/red, so a blue filter is used, because blue light is strongly absorbed by orange/red solutions.
Step 4 — Calibration curve
Plot absorbance (y-axis) against known concentration (x-axis) for your standards. This produces a calibration curve. Measure the absorbance of your unknown sample, then read across and down from the curve to estimate its concentration.
A student wants to compare the reducing sugar concentration of two fruit juices using a colorimeter. Describe how they could produce a calibration curve to determine the unknown concentrations.
4. Condensation & Hydrolysis
Two reactions, opposite directions
These two reaction types appear everywhere in biology — carbohydrates, lipids, and (later) proteins and nucleic acids all use the same basic pattern.
In carbohydrate chemistry specifically, the bond formed/broken is called a glycosidic bond, and it forms between two hydroxyl (–OH) groups on adjacent monosaccharides. The name (1,4-glycosidic, 1,6-glycosidic, 1,2-glycosidic) tells you which numbered carbons on each ring are linked.
Maltose is hydrolysed to form two glucose molecules. Describe what happens to the water molecule in this reaction.
5. Triglycerides & Ester Bonds
What a triglyceride is made of
Lipids are macromolecules made of carbon, hydrogen and oxygen — but with a much lower proportion of oxygen than carbohydrates, which is exactly why they're non-polar and hydrophobic (insoluble in water). Triglycerides are the type of lipid that makes up fats and oils.
A triglyceride is built from two types of monomer:
- Glycerol — a small alcohol molecule (C₃H₈O₃) with three hydroxyl (–OH) groups, one on each carbon.
- Fatty acids (×3) — each has a long hydrocarbon "tail" (the R group, typically 4–24 carbons) with a methyl group (CH₃) at one end and a carboxyl group (–COOH) at the other. Shorthand formula: RCOOH.
To break a triglyceride back down (during digestion, for example), the reverse — hydrolysis — occurs: water is added to break each ester bond, releasing the glycerol and fatty acids again.
Functions of lipids
Saturated vs Unsaturated Fatty Acids
Fatty acids vary in two ways: the length of the hydrocarbon (R group) chain, and whether the chain is saturated or unsaturated.
| Type | Structure | Typical source |
|---|---|---|
| Saturated | No C=C double bonds — chain is "saturated" with hydrogen atoms, forms straight, unbranched chains | Mainly animal fat |
| Monounsaturated | 1 C=C double bond, causing a kink in the chain | e.g. olive oil (oleic acid) |
| Polyunsaturated | More than 1 C=C double bond, multiple kinks | e.g. vegetable oils (linoleic acid) |
Most vegetable oils are unsaturated (exceptions: coconut and palm oil, which are saturated despite being plant-derived — a classic exam trap!).
Describe the formation of a triglyceride from glycerol and fatty acids, including the name of the reaction and bond formed.
Explain the structural difference between a saturated and an unsaturated fatty acid, and how this relates to their physical properties.
What to Memorise
Key Terms
| Term | Meaning |
|---|---|
| Polar molecule | A molecule with unevenly distributed charge — one end slightly δ⁻, the other slightly δ⁺ |
| Hydrogen bond | Weak attraction between δ⁺ H on one molecule and δ⁻ atom on another |
| Cohesion | Attraction between water molecules and each other |
| Adhesion | Attraction between water molecules and other polar surfaces |
| Monomer / Polymer | Small repeating subunit / large molecule made of many monomers |
| Glycosidic bond | Covalent bond joining two monosaccharides, formed by condensation |
| Ester bond | Covalent bond joining glycerol's –OH to a fatty acid's –COOH |
| Reducing sugar | A sugar that can donate electrons (reduce Cu²⁺ to Cu⁺ in Benedict's test) |
| Condensation reaction | Joins two molecules together, releasing one water molecule |
| Hydrolysis reaction | Splits a molecule apart using a water molecule |
Formulas & Quick Facts
- Fatty acid shorthand: RCOOH
- Glycerol formula: C₃H₈O₃
- 1 triglyceride = 1 glycerol + 3 fatty acids − 3 H₂O
- Benedict's positive result: blue → green → yellow → orange → brick-red
- Iodine positive result: orange/brown → blue-black
- OILRIG: Oxidation Is Loss, Reduction Is Gain (of electrons)
Concepts Checklist
Exam Tips
- Confusing condensation (releases water) with hydrolysis (uses water) — always double-check which direction the question is asking about.
- Saying "sucrose is a reducing sugar" — it is NOT; it requires acid hydrolysis before Benedict's test will give a positive result.
- Assuming all plant oils are unsaturated — coconut and palm oil are notable saturated exceptions.
- Forgetting to mention that Benedict's test is only semi-quantitative by eye — full quantitative data requires a colorimeter and calibration curve.
- Mixing up alpha and beta glucose — remember "alpha (a) has H above, beta (b) has H below."
- 3. Core Practical 1: Testing for Sugars & Starch
- 4. Condensation & Hydrolysis
- 5. Triglycerides & Ester Bonds
- Disaccharides & glycosidic bonds
- Polysaccharides: Starch & Glycogen
- Glycogen (animals & fungi)
- Formulas & Quick Facts
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