Option B: Biochemistry Flashcards
Biochemistry
Definition.
- the study of chemical processes in living cells at the molecular level
Metabolism
Definition.
- is all the chemical processes that take place within a living organism to maintain life
Catabolism
Definition.
- is the breakdown of complex moleucules in living organism into simpiler units that is usually accompanied by the release of energy
Anabolism.
Definition.
- is the biosynthesis of complex molecules from simpiler units that usually requires energy
Metabolic Pathway
Definition.
- is a biochemical trasformation of a molecule through a series of intermediates (metabolites) into the final product
Formation of polymers
- functions of biological molecules depend on their shapes and structures.
- biopolymers are commonly made of smaller, recurring subunits called monomers
- form by condensation reactions in which monomers react to form a polymer. This releases water.
- broken down by hydrolysis reactions in which a polymer breaks up into separate monomers. This requires water.
Photosynthesis
Definition.
- is the biosynthesis of organic molecules from carbon dioxide and water using the energy of light
Photosynthesis
Chemical Formula.
6CO2(g) + 6H2O(l) → C6H12O6(aq) + 6O2(g)
Photosynthesis
Explain why photosynthesis is an anabolic process.
- Photosynthesis is an anabolic process as photosynthesis takes CO2 and H2O (somewhat low energy molecules), and then assembles them into glucose, releasing hydrogen.
Respiration
Definition.
- is the metabolic processes that release energy from nutrients consumed by living organisms
Respiration
Explain why respiration is a catabolic process.
- cells generate energy through the breakdown of glucose (smaller molecules)
- respiration takes place in all living cells all the time.
Respiration
Chemical Formula.
C6H12O6(aq) + 6O2(g) → 6CO2(g) + 6H2O(l) + energy
Aerobic Respiration
Definition.
- is the reverse process of photosynthesis, in which carbon dioxide and water are formed from organic molecules and oxygen
Anaerobic Respiration
Definition.
- is the catabolism of organic compounds that does not involve molecular oxygen as an electron acceptor
Anaerobic Respiration
a) In yeast
b) In animals
Chemical Formulas.
a) C6H12O6 → 2C2H5OH + 2CO2 (Glucose → Ethanol + CO2)
B) C6H12O6 → 2C3H6O3 (Glucose → Lactic Acid)
Proteins
Definition and Chemical Formula. (5)
- proteins are found in every cell and are fundamental to cell structure and operation
- are polymers built up from small monomer molecules called amino acids
- All amino acids have the alpha carbon bonded to a hydrogen atom (H), carboxyl group (COOH), and amino group (NH2)
- The “R” group varies among amino acids
- Formula of 2-amino acids: RCH(NH2)COOH
Functions of proteins in the body
Collagen
- provides structural support to the extracellular space of connective tissues
- found in the skin, bone and tendon
Functions of proteins in the body
Hemoglobin
- found in the blood
- oxygen transport from lungs to other tissues
Amino Acids Characteristics
Whay are Amino acids amphoteric (so amphiprotic?
- they can act as a Brønsted – Lowery acid or base by donating a proton or accepting a proton
Amino acids Characteristics
Zwitterion
Definition. (2)
- A molecule having separate positively and negatively charged groups
- zwitterions contains both positive and negative charges so they will cancel each other out and the overall charge will be neutral
Amino acids Characteristics
What is the isoelectronic point of an amino acid?
(1)
- is the pH that the amino acid will exist as a zwitterion
Amino acids Characteristics
What does a low pH for an amino acid mean?
(2)
- A low pH has an acidic environment so there will be many H+ so the NH2 becomes N+H3. It becomes protonated
- Amino acids at a lower pH than its isoelectric point can be described as a cation
Amino acids Characteristics
What does a high pH for an amino acid mean?
(2)
- A high pH has a basic environment so there will be many OH- so the COOH becomes COO-. It becomes deprotonated
- Amino acids at a higher pH than its isoelectric point can also be described as an anion
Peptide bonds/Amide Link
How are amino acids linked together in proteins?
- special kind of covalent bond known as a peptide bond or amide link
- Peptide bonds are formed by condensation reactions. H2O is also released.
- This bond occurs between a carboxyl group (COOH) on one molecule, and an amino group (NH2) on another molecule
- Polypeptide chains can be broken down via hydrolysis reactions, which requires water to reverse the process.
Peptides
(7)
- Molecules made from amino acids are called peptides
- A dipeptide is formed when 2 amino acids join together to form a peptide chain
- An oligopeptide is formed when 3-10 amino acids join together
- A polypeptide is formed by many amino acids (>10)
- Polypeptides built with more than 50 amino acids are called proteins
- Polypeptides differ from one another by their length, number of amino acids and order of amino acids
- The amino acid sequence is what gives each polypeptide its unique properties
Protein Structure
How many different levels of protein structure exist?
(4)
- primary structure
- secondary structure
- tertiary structure
- quaternary structure
Protein structure
Primary Structure
(3)
- refers to the sequence of amino acids in the polypeptide chain
- held together by peptide bonds (amide links)
- The sequence of a protein is unique to that protein, and defines the structure and function of the protein
Protein Structure
Secondary Structure
- refers to the folding of the polypeptide as a result of hydrogen bonding
- The folding can be either:
- α-helix in which the protein twists in a spiraling manner rather like a coiled spring
- β-pleated to give a sheet-like structure.
- Hydrogen bonds form between one of the lone oxygen atom and the hydrogen attached to a nitrogen atom (between amine and carboxylic groups)
Protein Structure
Tertiary Structure
- ** refers to the overall twisting and folding of the secondary structure to form a specific 3D shape**
- is held together by interactions between the side chains (The R groups)
- These interactions are:
- Hydrogen bonds
- Ionic interactions
- Dispersion forces
- Disulfide links (sulfur bridges)
Protein Structure
Quaternary Structure
- refers to the interactions between polypeptide chains
- The bonding is the same as tertiary bonding
- An example is hemoglobin that has a quaternary structure composed of four polypeptide chains
Fibrous Proteins
Definitions with examples.
- Fibrous proteins are elongated molecules with a well-defined secondary structure
- Fibrous proteins have cross-linking at intervals to form long fibers or sheets
- examples
- α-keratin
- collagen
Properties of Fibrous Proteins
- long and narrow
- structural (strength and support)
- insoluble in water
- repetitive amino acid sequence
- less sensitive to changes in heat and pH
Globular Proteins
Definition with examples.
- spherical molecules that have a well-defined tertiary structure
- usually soluble to some extent in water as the hydrophobic side tends to be in the center
- examples:
- hemoglobin
- insulin
- catalase
Properties of Globular Proteins
- rounded/spherical
- functional (catalysts and transport)
- soluble in water
- irregular amino acid sequence
- more sensitie to changes in heat and pH
Gel Electrophoresis
Definition.
- technique used to separate mixtures of DNA, RNA or proteins according to molecular size
How does gel electrophoresis work?
- A solution of the sample is placed in a well-cut block of special gel
- Positive and negative electrodes are connected to opposite ends of the gel, causing the ions in the sample to migrate towards the oppositely charged electrode
- When connected to a circuit, the amino acids move according to their electrical charge
gel electrophoresis involves an electrical field. This field is applied such that one end of the gel has a positive charge and the other end has a negative charge. Because DNA and RNA are negatively charged molecules, they will be pulled towards the positively charged end of the gel
Gel Electrophoresis
Since proteins are not negatiely charged, what detergent must they be mixed with?
- sodium dodecyl sulfate
Gel Electrophoresis
What are the different ways bands representing molecule can be detected?
(3)
- Adding a dye that binds to them and fluoresces (glows) in UV light
- Adding radioactive probes that bind to them; the radiation is then used to expose a photographic plate
- Shining lasers onto fragments that have a fluorescent dye incorporated into their structure