1. Organic Compounds

2. Organic chemistry is the chemistry of carbon.
Carbon always forms 4 covalent bonds.
It can produce long chains that form the backbone of the important molecules in a cell.
Examples: sugars, fats, proteins, nucleic acids

3. The structure of a molecule is related to its function
1. Functional groups- a recognizable group of atoms attached to the carbon skeleton.
They may make the molecule polar or change its pH.
Examples:
a. Hydroxyl (OH)—found on alcohols
b. Carbonyl (C=O or C=OH) –found on the end of the molecule called aldehyde, when found in the middle called ketone
c. Carboxyl (C=OOH)—found on sugars, fats and proteins
d. Amine (NH3)—found on proteins
e. Phosphate (PO4)—found on nucleotides, ATP
f. Methyl (CH3)—found on fats

4. 2. Monomers form polymers
Monomer-mono = one, these are small subunits used to build larger molecules
these subunits are stored in cells until needed
Polymer-poly = many, these are huge molecules, built by joining subunits, used for either structural or functional parts of cells

5. types of reactions:
1. electron transfer-one or more electrons are taken from one molecule and given to another oxidation-occurs on the molecule that gives away electrons reduction-occurs on the molecule that takes electrons

6. 2. condensation (dehydration)-joining two molecules by removing a water molecule 3. cleavage (hydrolysis)-breaking apart a molecule by inserting a water molecule

7. All reactions either require energy or give off energy as they progress.
Exergonic-give off energy as they happen, occur spontaneously
these are catabolic reactions-they release energy by breaking down molecules
2. Endergonic-require energy to proceed, not spontaneous
these are anabolic reactions-simple molecules combine to form complex ones.

8. * the rate of any reaction is determined by temperature, concentration, catalysts

9. The 4 major Molecules of life
1. Carbohydrates-
starches and sugars
used by cells as structural material, transport or to store energy
made of C, H, O in a ratio of 1:2:1

10. mono means one, saccharide means sugar.
Monosaccharides-
mono means one, saccharide means sugar.
examples-glucose, fructose, ribose
C6H12O6 C6H12O C5H10O5

11. Disaccharides- 2 sugars bonded together examples:
Sucrose = fructose + glucose
Lactose = glucose + galactose
Maltose = glucose + glucose

12. Means many sugars, these are complex and very large examples:
Polysaccharide-
Means many sugars, these are complex and very large
examples:
In plants-
starch-consists of long chains of glucose stored in plastids.
Represents stored energy.
A sugar can be broken off the chain when needed by hydrolysis.
Starches are helical (called alpha configuration)

13. Cellulose-commonly known as fiber, it is part of the cell walls of plant, most abundant organic compound on earth. Few organisms have the necessary enzymes that can break it apart. It is made by joining sugar in straight chains called the beta configuration.
                                                                                                                                                

14. In Animals
glycogen-excess sugar is stored in liver and muscle cells. This molecule has long branching chains. In humans glycogen is depleted daily and must be replaced by eating

16. chitin-used by arthropods to build exoskeletons.
Also found in cell walls of fungi.

17. 2. Lipids-
store huge amounts of energy (one gram stores more than twice starch),
made of glycerol and fatty acids.
animals store fat in adipose cells
fat also cushions organs and insulates the body

18. a. Fatty acids-long carbon chain with a carboxyl functional group (-COOH) b. Triglyceride-one complete fat molecule, made of 3 fatty acids chains c. Unsaturated fat-has one or more double bonds on its chain, usually a liquid, comes from plants and fish d. Saturated-no double bonds along the chain, usually a solid, comes from animals

19. e. Phospholipids-made with 2 fatty acids and a phosphate linked to a glycerol.

20. f. Sterols-contain 4 carbon rings, vary in their functional groups.
Examples include hormones and cholesterol (component of cell membranes)

21. g. Waxes-long fatty acids chains linked to alcohols
coating that protects and lubricates
plant’s cuticle-helps to conserve water
beeswax to make honeycomb
bird feathers kept dry

22. 3. Proteins
Used for structural support, transport, communication, movement, defense, enzymes
A single human cell has tens of thousands of proteins
Made by joining amino acids- 20 are common. Some are made by cells, others must be eaten.

24. Peptide Bond-a covalent bond formed when two amino acids are linked together
Polypeptide-long chains of amino acids.
A complete protein is one or more polypeptides folded and coiled into place

25. Primary structure-the amino acid chain
Primary structure-the amino acid chain. The order they go in is determined by DNA.
The order determines function of the protein
example: substituting one amino acid in hemoglobin causes sickle cell anemia

26. Secondary structure-coils and pleats, shape is held together by hydrogen bonds.

27. Tertiary structure-folded on top of itself

28. Quaternary structure-2 or more of these polypeptides bonded together.
Example: hemoglobin is 4
protein shape determines its function

30. Variations in final proteins: lipoproteins-protein combined with a fat
glycoproteins-protein attached to sugars
Denaturation-when a protein unravels due to environmental conditions
pH, temperature
Loss of shape means loss of function

31. Enzymes
Definition: catalytic proteins, they cause reactions to proceed faster.
All reactions require the breaking and making of bonds. Energy is required to do this and enzymes reduce the energy needed.
They change the rate of the reaction but not the product.

32. Ex: sucrose + water sucrase> glucose + fructose

33. Characteristics of enzymes:
work on the normal reaction (not making a new one)
can be used over and over
the same enzyme usually works for forward and reverse reaction
selective about substrates

34. Structure-one or more active sites
Structure-one or more active sites. This is the catalytic center (reactive place)
Enzymes function best when cell’s environment stays within a limited range
temperature-each has an optimal range, when it is exceeded denaturation occurs
pH-optimal pH is 6-8 (except gastric enzymes)

35. Inhibitors-slow enzymes by controlling their active site
competitive-chemical mimics, they resemble the substrate and compete for the active site
example: penicillin blocks the active site of the enzyme needed to make the cell wall of the bacteria cell

36. Noncompetitive-react by changing the
shape of the active site
Allosteric (noncompetitive)-binds to
enzyme at another site but still
changes the active site so it can’t
function

37. Things that help enzymes work better:
Coenzymes-organic molecules known as vitamins Cofactors-inorganic molecules- known as minerals

38. 4. Nucleic acids
Known as “information” molecules, DNA and RNA are examples.
They are built from monomers called nucleotides
which consist of a sugar, a phosphate and a base
4 bases are used in DNA:
Adenine
Guanine
Thymine
Cytosine
*RNA uses uracil instead of thymine

39. G and A are double ringed and called purines T and C are single rings and are called pyrimidines.

40. Differences in DNA and RNA:
DNA-double stranded, helical, made with sugar called deoxyribose RNA-single stranded, helical, made with sugar called ribose