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BIOLOGICAL MOLECULES


The structure of carbohydrates, lipids and
proteins and their roles in living organisms




                                      ALBIO9700/2006JK
• Molecular biology: the study of
  structure and functioning of biological
  molecules

• Metabolism: the sum total of all the
  biochemical reactions in the body

• The building blocks of life:
  – Hydrogen, carbon, oxygen and nitrogen
  – Monosaccharides, organic bases, amino acids,
    fatty acids and glycerol

                                            ALBIO9700/2006JK
• Macromolecule: ‘giant molecule’

• Polymers (cellulose & rubber; polyester,
  PVC & nylon): macromolecules made up of
  many repeating subunits that are similar
  or identical to each other and are joined
  end to end (polymerisation)

  – Polysaccharides
  – Proteins (polypeptides)
  – Nucleic acids (polynucleotide)
                                       ALBIO9700/2006JK
Carbohydrates
• Contains carbon, hydrogen and oxygen

• General formula: Cx(H2O)y

• 3 main groups:
  – Monosaccharides
  – Disaccharides
  – Polysaccharides

                                     ALBIO9700/2006JK
Monosaccharides
• Sugars (saccharide ~ sweet or sugar)

• General formula: (CH2O)n
  – Molecular and structural formula

• Single sugar molecule (mono)

• Types:
  – Trioses (3C)
  – Pentoses (5C)
  – Hexoses (6C)


                                         ALBIO9700/2006JK
ALBIO9700/2006JK
Ring structures
• α-glucose: the form of glucose where the
  hydroxyl group (-OH) on carbon atom 1 is
  below the ring

• β-glucose: the form of glucose where the
  hydroxyl group (-OH) on carbon atom 1 is
  above the ring

• Isomers: 2 forms of the same chemical

                                      ALBIO9700/2006JK
Roles of monosaccharides in living
            organisms
• Source of energy in respiration (glucose)
  – Due to large number of carbon-hydrogen
    bonds which can be broken to release energy

• Building blocks for larger molecules
  – Glucose: make polysaccharides (starch,
    glycogen and cellulose)
  – Ribose (a pentose): make RNA and ATP
  – Deoxyribose (a pentose): used to make DNA

                                           ALBIO9700/2006JK
Disaccharides and glycosidic bond
• Sugars

• Condensation: how 2 monosaccharides join
  together to form disaccharides

• Bridge is called glycosidic bonds

• Hydrolisis: addition of water, reverse of
  condensation (during digestion of disaccharides
  and polysaccharides)

• Both controlled by enzymes
                                             ALBIO9700/2006JK
Condensation




 Hydrolisis




               ALBIO9700/2006JK
Polysaccharides
• Not sugars

• Polymers with monosaccharide subunits joined
  by condensation with glycosidic bonds

• Several thousand monosaccharide units join to
  form a macromolecule

• Most important polysaccharides:
  –   Starch
  –   Glycogen    Polymers of glucose
  –   Cellulose

                                            ALBIO9700/2006JK
• Glucose is converted to storage
  polysaccharides which are convenient,
  compact, insoluble molecules

• In the form of starch in plants and glycogen
  in animals




                                          ALBIO9700/2006JK
Starch, Glycogen and Cellulose
• Starch is a mixture of amylose and
  amylopectin

• Amylose: many 1,4-linked α-glucose
  molecules form a spring like compact structure

• Amylopectin: 1,4-linked α-glucose but shorter
  chains with branching out due to 1,6 linkages

• Starch grains commonly found in chloroplast and
  in storage organs such as the potato tuber
  and the seeds of cereals and legumes

                                             ALBIO9700/2006JK
Amylose




          ALBIO9700/2006JK
Amylopectin




              ALBIO9700/2006JK
Glycogen
• No starch in animal cells

• Glycogen: amlyopectin-like molecules used as
  the storage carbohydrates

• Glycogen molecules tend to be more branched
  than amylopectin

• They clump together to form granules – liver
  cells and muscle cells

                                            ALBIO9700/2006JK
Glycogen




           ALBIO9700/2006JK
Cellulose
• Most abundant organic molecule (20-40% of the
  average cell wall)

• Structural role (mechanically strong)

• Cellulose is a polymer of β-glucose

• Hydrogen bonds       Microfibrils     Fibrils


                                             ALBIO9700/2006JK
ALBIO9700/2006JK
ALBIO9700/2006JK
• Very high tensile strength (almost equal to steel)

• Provide support by making tissues rigid

• Responsible for cell expansion during growth

• Freely permeable, allowing water and solutes to reach
  plasma membrane

                                                       ALBIO9700/2006JK
Lipids
• Diverse group of
  chemicals

• Triglycerides – most
  common type

• Commonly fats and
  oils



                              ALBIO9700/2006JK
Triglycerides

• 3 fatty acid + 1 glycerol (condensation)

• -COOH group attached to a hydrocarbon tail

• Glycerol – alcohol

• Glyceride – fatty acid + glycerol (triglyceride)



                                             ALBIO9700/2006JK
Condensation




               ALBIO9700/2006JK
• Insoluble in water but soluble in organic
  solvent (ether, chloroform and ethanol)

• Due to hydrocarbon tail of fatty acids

• Non-polar and hydrophobic



                                           ALBIO9700/2006JK
Saturated and unsaturated fatty
             acids




                             ALBIO9700/2006JK
• Unsaturated – do not contain the maximum
  possible amount of hydrogen

• Fatty acids and lipids melt easier due to double
  bonds

• Polyunsaturated - >1 double bond

• Monounsaturated - 1 double bond

• Animal lipids – saturated (fats)

• Plant lipids – unsaturated (oils)

                                             ALBIO9700/2006JK
Roles of triglycerides
• Energy reserves (richer in carbon-hydrogen
  bonds than carbohydrates/higher calorific value)

• Insulator against loss of heat

• Buoyancy

• Metabolic source of water


                                              ALBIO9700/2006JK
Desert kangaroo rat




                      ALBIO9700/2006JK
Phospholipids
• One end is soluble in water

• One of the 3 fatty acids is replaced by a
  phosphate group which is polar

• Phosphate group is hydrophilic

• Membrane structure

                                         ALBIO9700/2006JK
ALBIO9700/2006JK
Proteins
• >50% of the dry mass of most cells is protein
• Functions:
   – Essential components of cell membranes
   – The oxygen-carrying pigment haemoglobin
   – Antibodies which attack and destroy invading
     microorganisms
   – All enzymes
   – Hair and the surface layers of skin contain the
     protein keratin
   – Collagen adds strength to the many tissues,
     such as bone and the walls of arteries
                                               ALBIO9700/2006JK
Amino acids
• Basic component of protein

• Central carbon atom, amine group (-NH2),
  carboxylic acid group (-COOH)

• R group

• 20 different amino acids

                                      ALBIO9700/2006JK
ALBIO9700/2006JK
The eight amino acids in the orange area are nonpolar and hydrophobic.
The other amino acids are polar and hydrophilic ("water loving").
The two amino acids in the magenta box are acidic ("carboxy" group in the side chain).
The three amino acids in the light blue box are basic ("amine" group in the side chain).
                                                                                      ALBIO9700/2006JK
The peptide bond




                   ALBIO9700/2006JK
• 2 linked amino acids – dipeptide

• Many amino acids – polypeptide
  (macromolecule/polymer)

• Ribosomes – sites where amino acids are
  linked together to form polypeptides

• Complete protein may contain one or
  more polypeptide chain which interact
  with each other

                                          ALBIO9700/2006JK
Primary structure
• The types of amino acids contained in
  the polypeptide chain and the
  sequence in which they are joined

• Enormous number of different possible
  primary structures


                                   ALBIO9700/2006JK
ALBIO9700/2006JK
Secondary structure
• Polypeptide chain coils into an α-helix due to
  attraction between the oxygen of the      -CO
  group of one amino acid and the hydrogen of
  the -NH group of the amino acid four places
  ahead of it

• This is result of the polar characteristics of the –
  CO and –NH groups

• Sometimes a much looser, straighter shape is
  formed, called a β-pleated sheet


                                                 ALBIO9700/2006JK
ALBIO9700/2006JK
Tertiary structure
• The secondary structure coils and folds to
  form 3 dimensional shapes

• Four types of bonds involved:
  – Hydrogen bonds (between R groups)
  – Disulphide bonds (between 2 cysteine
    molecules)
  – Ionic bonds (between R groups containing
    amine and carboxyl groups)
  – Hydrophobic interactions (between R
    groups which are non-polar or hydrophobic)

                                           ALBIO9700/2006JK
Tertiary structure




                     ALBIO9700/2006JK
Quaternary structure




                       ALBIO9700/2006JK
Globular and fibrous proteins
• Globular protein: protein whose molecules curl
  up into a ‘ball’ shape (e.g. myoglobin &
  haemoglobin)
• Usually curl up so that their non-polar,
  hydrophobic R groups point into the centre of
  the molecule, away from their watery
  surroundings. The polar, hydrophilic, R group
  remain on the outside of the molecule
• Fibrous protein: long strands, insoluble and
  have structural roles (e.g. keratin & collagen)


                                            ALBIO9700/2006JK
Globular and fibrous proteins




  e.g. enzymes   e.g. keratin and collagen


                                    ALBIO9700/2006JK
• Molecular structure and function of
  haemoglobin as an example of a globular
  protein

• Molecular structure and function of
  collagen as an example of a fibrous
  protein



                                        ALBIO9700/2006JK
ALBIO9700/2006JK
ALBIO9700/2006JK

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Biological Molecules

  • 1. BIOLOGICAL MOLECULES The structure of carbohydrates, lipids and proteins and their roles in living organisms ALBIO9700/2006JK
  • 2. • Molecular biology: the study of structure and functioning of biological molecules • Metabolism: the sum total of all the biochemical reactions in the body • The building blocks of life: – Hydrogen, carbon, oxygen and nitrogen – Monosaccharides, organic bases, amino acids, fatty acids and glycerol ALBIO9700/2006JK
  • 3. • Macromolecule: ‘giant molecule’ • Polymers (cellulose & rubber; polyester, PVC & nylon): macromolecules made up of many repeating subunits that are similar or identical to each other and are joined end to end (polymerisation) – Polysaccharides – Proteins (polypeptides) – Nucleic acids (polynucleotide) ALBIO9700/2006JK
  • 4. Carbohydrates • Contains carbon, hydrogen and oxygen • General formula: Cx(H2O)y • 3 main groups: – Monosaccharides – Disaccharides – Polysaccharides ALBIO9700/2006JK
  • 5. Monosaccharides • Sugars (saccharide ~ sweet or sugar) • General formula: (CH2O)n – Molecular and structural formula • Single sugar molecule (mono) • Types: – Trioses (3C) – Pentoses (5C) – Hexoses (6C) ALBIO9700/2006JK
  • 7. Ring structures • α-glucose: the form of glucose where the hydroxyl group (-OH) on carbon atom 1 is below the ring • β-glucose: the form of glucose where the hydroxyl group (-OH) on carbon atom 1 is above the ring • Isomers: 2 forms of the same chemical ALBIO9700/2006JK
  • 8. Roles of monosaccharides in living organisms • Source of energy in respiration (glucose) – Due to large number of carbon-hydrogen bonds which can be broken to release energy • Building blocks for larger molecules – Glucose: make polysaccharides (starch, glycogen and cellulose) – Ribose (a pentose): make RNA and ATP – Deoxyribose (a pentose): used to make DNA ALBIO9700/2006JK
  • 9. Disaccharides and glycosidic bond • Sugars • Condensation: how 2 monosaccharides join together to form disaccharides • Bridge is called glycosidic bonds • Hydrolisis: addition of water, reverse of condensation (during digestion of disaccharides and polysaccharides) • Both controlled by enzymes ALBIO9700/2006JK
  • 10. Condensation Hydrolisis ALBIO9700/2006JK
  • 11. Polysaccharides • Not sugars • Polymers with monosaccharide subunits joined by condensation with glycosidic bonds • Several thousand monosaccharide units join to form a macromolecule • Most important polysaccharides: – Starch – Glycogen Polymers of glucose – Cellulose ALBIO9700/2006JK
  • 12. • Glucose is converted to storage polysaccharides which are convenient, compact, insoluble molecules • In the form of starch in plants and glycogen in animals ALBIO9700/2006JK
  • 13. Starch, Glycogen and Cellulose • Starch is a mixture of amylose and amylopectin • Amylose: many 1,4-linked α-glucose molecules form a spring like compact structure • Amylopectin: 1,4-linked α-glucose but shorter chains with branching out due to 1,6 linkages • Starch grains commonly found in chloroplast and in storage organs such as the potato tuber and the seeds of cereals and legumes ALBIO9700/2006JK
  • 14. Amylose ALBIO9700/2006JK
  • 15. Amylopectin ALBIO9700/2006JK
  • 16. Glycogen • No starch in animal cells • Glycogen: amlyopectin-like molecules used as the storage carbohydrates • Glycogen molecules tend to be more branched than amylopectin • They clump together to form granules – liver cells and muscle cells ALBIO9700/2006JK
  • 17. Glycogen ALBIO9700/2006JK
  • 18. Cellulose • Most abundant organic molecule (20-40% of the average cell wall) • Structural role (mechanically strong) • Cellulose is a polymer of β-glucose • Hydrogen bonds Microfibrils Fibrils ALBIO9700/2006JK
  • 21. • Very high tensile strength (almost equal to steel) • Provide support by making tissues rigid • Responsible for cell expansion during growth • Freely permeable, allowing water and solutes to reach plasma membrane ALBIO9700/2006JK
  • 22. Lipids • Diverse group of chemicals • Triglycerides – most common type • Commonly fats and oils ALBIO9700/2006JK
  • 23. Triglycerides • 3 fatty acid + 1 glycerol (condensation) • -COOH group attached to a hydrocarbon tail • Glycerol – alcohol • Glyceride – fatty acid + glycerol (triglyceride) ALBIO9700/2006JK
  • 24. Condensation ALBIO9700/2006JK
  • 25. • Insoluble in water but soluble in organic solvent (ether, chloroform and ethanol) • Due to hydrocarbon tail of fatty acids • Non-polar and hydrophobic ALBIO9700/2006JK
  • 26. Saturated and unsaturated fatty acids ALBIO9700/2006JK
  • 27. • Unsaturated – do not contain the maximum possible amount of hydrogen • Fatty acids and lipids melt easier due to double bonds • Polyunsaturated - >1 double bond • Monounsaturated - 1 double bond • Animal lipids – saturated (fats) • Plant lipids – unsaturated (oils) ALBIO9700/2006JK
  • 28. Roles of triglycerides • Energy reserves (richer in carbon-hydrogen bonds than carbohydrates/higher calorific value) • Insulator against loss of heat • Buoyancy • Metabolic source of water ALBIO9700/2006JK
  • 29. Desert kangaroo rat ALBIO9700/2006JK
  • 30. Phospholipids • One end is soluble in water • One of the 3 fatty acids is replaced by a phosphate group which is polar • Phosphate group is hydrophilic • Membrane structure ALBIO9700/2006JK
  • 32. Proteins • >50% of the dry mass of most cells is protein • Functions: – Essential components of cell membranes – The oxygen-carrying pigment haemoglobin – Antibodies which attack and destroy invading microorganisms – All enzymes – Hair and the surface layers of skin contain the protein keratin – Collagen adds strength to the many tissues, such as bone and the walls of arteries ALBIO9700/2006JK
  • 33. Amino acids • Basic component of protein • Central carbon atom, amine group (-NH2), carboxylic acid group (-COOH) • R group • 20 different amino acids ALBIO9700/2006JK
  • 35. The eight amino acids in the orange area are nonpolar and hydrophobic. The other amino acids are polar and hydrophilic ("water loving"). The two amino acids in the magenta box are acidic ("carboxy" group in the side chain). The three amino acids in the light blue box are basic ("amine" group in the side chain). ALBIO9700/2006JK
  • 36. The peptide bond ALBIO9700/2006JK
  • 37. • 2 linked amino acids – dipeptide • Many amino acids – polypeptide (macromolecule/polymer) • Ribosomes – sites where amino acids are linked together to form polypeptides • Complete protein may contain one or more polypeptide chain which interact with each other ALBIO9700/2006JK
  • 38. Primary structure • The types of amino acids contained in the polypeptide chain and the sequence in which they are joined • Enormous number of different possible primary structures ALBIO9700/2006JK
  • 40. Secondary structure • Polypeptide chain coils into an α-helix due to attraction between the oxygen of the -CO group of one amino acid and the hydrogen of the -NH group of the amino acid four places ahead of it • This is result of the polar characteristics of the – CO and –NH groups • Sometimes a much looser, straighter shape is formed, called a β-pleated sheet ALBIO9700/2006JK
  • 42. Tertiary structure • The secondary structure coils and folds to form 3 dimensional shapes • Four types of bonds involved: – Hydrogen bonds (between R groups) – Disulphide bonds (between 2 cysteine molecules) – Ionic bonds (between R groups containing amine and carboxyl groups) – Hydrophobic interactions (between R groups which are non-polar or hydrophobic) ALBIO9700/2006JK
  • 43. Tertiary structure ALBIO9700/2006JK
  • 44. Quaternary structure ALBIO9700/2006JK
  • 45. Globular and fibrous proteins • Globular protein: protein whose molecules curl up into a ‘ball’ shape (e.g. myoglobin & haemoglobin) • Usually curl up so that their non-polar, hydrophobic R groups point into the centre of the molecule, away from their watery surroundings. The polar, hydrophilic, R group remain on the outside of the molecule • Fibrous protein: long strands, insoluble and have structural roles (e.g. keratin & collagen) ALBIO9700/2006JK
  • 46. Globular and fibrous proteins e.g. enzymes e.g. keratin and collagen ALBIO9700/2006JK
  • 47. • Molecular structure and function of haemoglobin as an example of a globular protein • Molecular structure and function of collagen as an example of a fibrous protein ALBIO9700/2006JK