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MOLECULES
Monomers and
ATP Inorganic Ions
Polymers
Biological
Carbohydrates Water Tests
Proteins Enzymes
MONOMERS AND POLYMERS
• Monomer – single molecule, e.g. monosaccharide (glucose), amino acids and
nucleotides.
• Polymer – long, complex chain of repeating monomers chemically joined together
by covalent bonds, e.g. polysaccharides (carbohydrate polymers).
•Carbohydrates are made from monosaccharide and are substances used as energy and
structural materials.
•All carbohydrates contain: carbon, hydrogen and oxygen.
GLUCOSE (C 6H12O6)…
• Highly soluble
• Transported around the body
Two common isomers of glucose are alpha glucose and beta glucose.
They have the same chemical formula, however the atoms are arranged differently. On C1
the OH and the H group have swapped over in the beta glucose molecule.
Join together by a glycosidic
DISACCHARIDE (MALTOSE)
bond – a glycosidic bond is a
bond between two sugars that
involves oxygen.
Formation of disaccharides:
Maltose: Two Alpha-Glucose
Maltose
C6H12O6 molecules
+ C6H12O6
- H2O Sucrose Glucose and Fructose
__________
= C6H22O11
Lactose Glucose and Galactose
POLYSACCHARIDES: • Storage molecule
• A mixture of two polysaccharides of
STARCH
alpha glucose: amylose and amylopectin
Amylose Amylopectin
•1-4 glycosidic bonds •1-4 + 1-6 glycosidic bonds
•Unbranched chains •Highly branched chains – so they can be
broken down more easily by the
•Coiled/helical structure
enzymes and glucose can be released
•It is compact – more stored (fit more in) quickly.
Plants store excess glucose as starch. When a plant needs more glucose for
energy, it breaks down starch to release the glucose.
GLYCOGEN
•In animal cells –excess glucose is not stored as starch but as glycogen.
•Glycogen has a similar structure to amylopectin, containing many alpha 1-6
glycosidic bonds that produce even more branched structures; so glucose can be
released quickly and it is very compact (good for storage).
•This is due to the fact that there is a higher metabolic rate in animals than in plants
– so animals have a greater energy demand. So, being more highly branched means
that it can be hydrolysed even more rapidly.
•It is stored as granules, particularly in the muscles and liver.
CELLULOSE
• Cellulose is the main part of plant cell walls.
•It is very strong and prevents cells from bursting (due to osmotic pressure).
•Contains long, unbranched chains of beta glucose.
•Every other glucose molecule rotates 180so that the hydroxyl (OH) groups on each
molecule are adjacent to each other.
•Hydrogen bonding between chains give cellulose molecules great tensile strength
and structural support for cells (cell walls).
•Microfibrils are formed when many cellulose molecules are linked together by
hydrogen bonds.
NOTE: You don’t need to know much about chitin – except that
it makes up the cell walls for fungi
CHITIN
•A polymer of nitrogen-containing polysaccharide rendering a tough, protective
covering or structural support in certain organisms and makes up the cell walls of
fungi and exoskeleton of insects.
•It is made up of chains of the monosaccharide N-acetylglucosamine, which is
derived from glucose. The polysaccharide chains are long, unbranched and linked
together by weak hydrogen bonds.
•Chitin can be broken down by the enzyme called chitinase, which catalyse
hydrolysis reactions. Some organisms are able to make their own chitinases.
LIPIDS
Structure of a Triglyceride
The triglyceride
is insoluble in
water, as it no
longer has an
OH group.
FATTY ACIDS
There are two kinds of fatty acids – saturated and
unsaturated.
The difference is in their hydrocarbon tails (R group).
•Amino acids have the same general structure – a carboxyl group, an amino group,
and a carbon-containing variable group.
•They contain the elements: carbon, hydrogen, oxygen and nitrogen.
•All living things share a bank of only 20 amino acids.
•The only difference between them is their variable group.
POLYPEPTIDES
•Amino acids are linked together by
condensation reactions to form
polypeptides. A molecule of water is
released during the reaction. The bonds
formed between amino acids are called
peptide bonds.
•The reverse reaction happens during
digestion (hydrolysis).
STRUCTURE OF PROTEINS
•Primary Structure – this is the sequence of amino acids in the polypeptide
chain.
•Secondary Structure – hydrogen bonds form between the amino acids in the
chain. This makes it coil into an alpha helix or fold into a beta pleated sheet.
•Tertiary Structure – the coiled or folded chain of the amino acids is often
coiled and folded further. More bonds form between different parts of the
polypeptide chain, including hydrogen bonds and ionic bonds (due to the
attraction between negative and positive charges on different parts of the
molecule). Disulphide bridges also form whenever two molecules of the
amino acid cysteine come close together – the sulphur atom in one cysteine
bonds to the sulphur atom in the other.
•Quaternary Structure – some proteins are made of several different
polypeptide chains held together by bonds (e.g. haemoglobin, insulin,
collagen). The 4th structure is the way these polypeptide chains are
assembled together. This is the protein’s final 3D structure.
FUNCTIONS OF PROTEINS
Usually roughly spherical in shape due to the tight folding of the polypeptide chains.
They are soluble and often have roles in metabolism. Example, some enzymes break
Enzymes down large molecules and other enzymes help to synthesise (make) large molecules
(digestive enzymes)
Involved in the immune response. They’re made up of two short polypeptide chains
Antibodies and two long polypeptide chains bonded together. Antibodies have variable regions,
the amino acid sequences in these regions vary greatly.
Example, channel proteins are present in cell membranes. Channel proteins contain
Transport hydrophobic (water-hating) and hydrophilic (water-loving) amino acids, which cause
proteins the protein to fold up and form a channel. These proteins transport molecules and
ions across membranes.
Are physically strong. They consist of long polypeptide chains lying parallel to each
Structural other with cross-links between them. Structural proteins include keratin (found in
proteins hairs and nails) and collagen (found in connective tissue).
ENZYMES
Biological catalysts – speed up a reaction (by providing an alternative path which is
easier and requires less energy), and without being used up.
•Enzymes catalyse metabolic reactions – both at a cellular level (e.g. respiration) and
for the organism as a whole (e.g. digestion in mammals).
•Enzymes can affect structures in an organism (e.g. enzymes are involved in the
production of collagen, an important protein in the connective tissues of animals) as
well as functions (like respiration).
•Enzyme action can be intracellular (within cells), or extracellular (outside cells).
•Enzymes are proteins.
Activation energy – the energy
needed to start a reaction
ACTIVATION ENERGY
•In a chemical reaction, a certain amount of energy needs to be
supplied to the chemicals before the reaction will start. This is
called the activation energy – it’s often provided as heat.
Enzymes lower the amount of activation energy that’s needed,
often making reactions happen at a lower temperature than they
could without an enzyme. This speeds up the rate of reaction.
•When a substrate fits into the enzyme’s active site, it forms an
enzyme-substrate complex it’s this that lowers the activation
energy. Here are two reasons why:
• As the temperature rises, reacting molecules have more • As the pH moves away from the optimum, H+ (in
kinetic energy. This increases the chances of a successful acids) or OH- (in alkalis) break the hydrogen bonds and
collision and so the rate increases (more enzyme-substrate ionic bonds that maintain the tertiary structure of the
complexes formed). enzyme. As a result, the enzyme denatures so the
• Above the optimum temperature the enzyme structure active site’s shape changes – fewer/no enzyme-
substrate complexes form.
begins to break down hydrogen bonds at higher temperatures
(denature), causing the active site to change shape (few/no
enzyme-substrate complexes formed).
FACTORS AFFECTING ENZYME ACTIVITY
Enzyme As substrate
concentration is the concentration increases,
limiting factor. the rate of reaction
increases up to a point
and then levels off.
Increasing enzyme concentration will increase the rate of • An increase in substrate concentration means more
reaction, as more enzymes will be colliding with substrate substrate molecules will be colliding with enzyme
molecules. molecules, so more product will be formed.
However, this will only have an effect up to a certain • After a certain point, all the enzyme active site’s are
concentration, where the enzyme concentration is no longer occupied. This is the ‘saturation point’ (enzyme
the limiting factor. Substrate is limited so there's no further concentration is the limiting factor).
effect.
NON/COMPETITIVE
INHIBITION
•Competitive Inhibitor: These molecules have a similar structure to
the actual substrate and will compete with the substrate molecules
to bind to the active site, but no reaction takes place.
•How much enzyme is inhibited depends on the relative
concentrations of the inhibitor and the substrate.
DNA and RNA are both types of nucleic acid. They’re found in
all living cells and they both carry information. • Chromosomes are made
from DNA
• DNA and RNA are
•DNA (deoxyribonucleic acid) is used to store genetic macromolecules (very
information – that’s all the instructions an organism needs to large molecule)
• They are also polymer,
grow and develop from a fertilised egg to a fully grown adult.
made up of many similar,
•RNA (ribonucleic acid) is similar in structure to DNA. One of its smaller molecules joined
main functions is to transfer genetic information from the together in a chain
• The smaller molecules are
DNA to the ribosomes. Ribosomes are the body’s ‘protein nucleotides
factories’ – they read the RNA to make polypeptides (proteins) • DNA and RNA are
in a process called translation. Ribosomes themselves are therefore a
made from RNA and proteins. polynucleotides
Two condensation reactions are involved
in the formation of a nucleotide:
DEOXYRIBOSE AND RIBOSE 1. Deoxyribose + Base
2. Deoxyribose + Phosphate
Sugar-phosphate backbone
•Nucleotides join, by condensation reactions, to Sugar
form polynucleotide strands. Both DNA and RNA
nucleotides form polynucleotides (polymer of
nucleotides). P
Cytosine
Phosphodiester bond
DOUBLE-HELIX RNA is made from a single
polynucleotide chain (not a double one.
STRUCTURE
It’s much shorter than most DNA
polynucleotides.
Two polynucleotide chains of DNA are held together by hydrogen bonds between
complementary base pairs:
•Adenine pairs with thymine (A=T) via two hydrogen bonds
•Guanine pairs with cytosine (G=C) via three hydrogen bonds
This means that there are always equal amounts of both pairs in a DNA molecule.
In order for bases to be facing each other and thus able to pair, the two strands must
run in opposite directions (i.e. they are anti-parallel). These twist to form a double
helix.
FUNCTION OF DNA
Each gene in a molecule of DNA contains:
A different sequence of bases •DNA molecules are very
long and coiled so a lot of
Codes for a particular protein genetic information can be
stored in a small space.
Proteins are made in the cytoplasm of a cell, not in •The double helix is a very
the nucleus. Genes cannot leave the nucleus, so a stable structure.
copy of the gene is needed. This copy is able to •Base-pairing allows
leave the nucleus to go into the cytoplasm so that accurate replication.
proteins can be made by the cell.
DNA REPLICATION
The enzyme helicase ‘unzip’ (break) hydrogen bonds between bases on the two
polynucleotide DNA strands. This makes the helix unwind, to form single strands. This
leaves the bases exposed.
•Each original strand acts as a template. In the nucleus there are many free nucleotides
which can pair up with the exposed bases (complementary base pairing).
•Condensation reactions join the nucleotides of the new strands together – catalysed by
the enzyme DNA polymerase. Hydrogen bonds form between the bases of the original
and new strands.
•This is semi-conservative replication – Each new DNA molecule contains one strand
from the original DNA molecule and one new strand.
ANTIPARALLEL DNA STRANDS
A single DNA strand is different at its two ends. One end is called 5' (5 prime), the other is
called 3' (3 prime). In a DNA helix, the strands run in opposite directions – they’re
antiparallel.
•The active site of DNA polymerase is only complementary to the 3’ end of the newly forming
DNA strand – so the enzyme can only add nucleotides to the new strand at the 3’ end.
It’s an important metabolite •This means the ions will get totally surrounded by water
molecules – in other words, they’ll dissolve.
• Many metabolic reactions involve a condensation or a
hydrolysis reaction.
•A hydrolysis reaction requires a molecule of water to break a Buffer (resist) changes in temperature
bond. A condensation reaction releases a molecule of water as
a new bond is formed. •Hydrogen bonds absorb a lot of energy, which means that a
large amount of energy is required to raise the temperature of
water. This property means that oceans and lakes provide
a stable environment in which organisms can live.
Excellent polar solvent
•This also means that a large amount of heat is required
•A lot of important substances in metabolic reactions are ionic to evaporate water, so it is very useful in cooling, for example,
(e.g. salt). sweating to cool down.
• Because water is polar, the positive end of a water molecule
will be attracted to the negative ion, and the negative end of a
water molecule will be attracted to a positive ion.
PROPERTIES OF WATER
High latent heat of evaporation •Strong cohesion helps water flow, e.g. transport of water in
the Xylem in plants.
• It takes a lot of energy (heat) to break the hydrogen bonds
between water molecules. •Cohesion also gives the water a high surface tension when
it comes into contact with air, allowing small
•So water has a high latent heat of vaporisation – a lot of organisms, such as Pond Skaters, to walk along it. This is also
energy is used up when water evaporates (vaporises). why sweat forms droplets, which evaporate from the skin to
cool and organism down.
•This is useful for living organisms because it means they can
use water loss through evaporation to cool down without
losing too much water.
Ice is less dense than water and therefore floats
•Water is unusual because it's solid form is less dense than
High cohesive force between molecules (surface tension) it's liquid form. Below 4°c the density of water starts to
decrease and so ice floats on water and insulates the water
•Cohesion is the attraction of molecules within a substance below it.
ao they 'stick together'. Water molecules are very
cohesive because they’re polar. •This reduces the chances of large bodies of water
completely freezing and increases the chances of life in
water surviving. These changes in density of water with
temperature are important in the oceans because they set
up currents, which circulate nutrients.
ATP ATP is the immediate source of energy in a cell.
Uses of ATP:
•Plants and animal cells release energy from glucose – this process is called • muscle contraction
respiration. • active transport
•A cell can’t get its energy directly from glucose. • synthesis of
macromolecules
•So, in respiration the energy released from glucose is used to make ATP • stimulates the breakdown
(adenosine triphosphate).
of substrates to make even
•ATP is made from the nucleotide base adenine, combined with a ribose sugar more ATP for other uses.
and three phosphate groups. It’s what's known as a nucleotide derivative.
Because it’s a modified form of a nucleotide:
•Once made, ATP diffuses to the part of the cell that needs energy.
•The energy in ATP is stored in high energy bonds between the phosphate
groups. Its release via hydrolysis reactions.
IMPORTANT FEATURES OF ATP
•ATP releases energy in small amounts
•It is broken down in one step (single bond broken
between phosphate groups)
•It provides immediate energy (makes energy available
rapidly)
•Can phosphorylate other molecules (add phosphate to
other molecules) – this makes substances more
reactive/lowers the activation energy.
•It can be reformed and made again – i.e. ADP + Pi ATP
INORGANIC IONS
•An inorganic ion is on which doesn’t contain carbon (although there are a few
exceptions to this rule).
•Inorganic ions occur in solution, in the cytoplasm of cells and body fluids of
organisms, some in high concentrations and others in very low concentrations
(inferred by the ion’s role).
•Each type of ion has a specific role, depending on its properties.
BENEDICT'S TEST
3. Observe colour change
Non-reducing sugar:
•Add dilute hydrochloric acid to sample and boil for
one minute.
•Allow the tube to cool and then neutralize the acid
with sodium hydrogen carbonate.
•Carry out Benedict’s test.
•Observe colour change.
Solution Glucose Maltose Fructose Sucros Starch
e
Colour Brick- Brick- Brick-red Blue Blue
(non-
change red/Orange red/Orange /Orange reducing
sugar)
IODINE TEST FOR STARCH
Iodine dissolved in potassium iodide solution is added to a sample. A positive
result (starch is present), changes the solution from an brown-orange to a
blue-black colour.
BIURET TEST FOR PROTEINS