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The
Chemistryof
Microbiology
Atoms
Atoms
Atomic Structure
Electrons negatively charged subatomic
particles circling a nucleus
Nucleus structure containing neutrons and
protons
Neutrons uncharged particles
Protons positively charged particles
Electron shells
Nucleus
Proton (p)
Neutron (n0)
Electron (e)
Atoms
Atomic Structure
Element composed of a single type of atom
Atomic number equal to the number of
protons in the nucleus
Atomic mass (atomic weight) sum of
masses of protons, neutrons, and electrons
Atoms
Isotopes
Atoms of a given element that differ in the
number of neutrons in their nuclei
Stable isotopes
Unstable isotopes
Release energy during radioactive decay
Atoms
Electron Configurations
Only the electrons of atoms interact, so they
determine atoms chemical behavior
Electrons occupy electron shells
Valence electrons electrons in outermost
shell that interact with other atoms
H
Li Be
Na Mg
K Ca
Hydrogen
H
He
B C N O F Ne
Al Si P S Cl Ar
Helium
He
Lithium
Li
Beryllium
Be
Boron
B
Carbon
C
Nitrogen
N
Oxygen
O
Fluorine
F
Neon
Ne
Sodium
Na
Magnesium
Mg
Aluminum
Al
Silicon
Si
Phosphorus
P
Sulfur
S
Chlorine
Cl
Argon
Ar
Potassium
K
Calcium
Ca
Chemical Bonds
Chemical Bonds
Chemical Bonds
Hydrogen (H)
Hydrogen (H)
Oxygen (O)
Oxygen (O)
Hydrogen (H)
Methane (CH4)
Carbon (C)
or
Carbon (C)
Hydrogen (H)
Oxygen (O)
Formaldehyde (CH2O) or
III
II
IV
VI
Inert
VII gases
He
0.0
H
2.1
Li
1.0
Be
1.5
B
2.0
C
2.5
N
3.0
O
3.5
F
4.0
Ne
0.0
Na
0.9
Mg
1.2
Al
1.5
Si
1.8
P
2.1
S
2.5
Cl
3.0
Ar
0.0
K
0.8
Ca
1.0
Ga
1.6
Ge
1.8
As
2.0
Se
2.4
Br
2.8
Kr
0.0
Sc Ti
1.3 1.5
V Cr Mn Fe
1.6 1.6 1.5 1.8
Co
1.8
Ni
1.8
Cu
1.9
Zn
1.6
Chemical Bonds
Chemical Bonds
Ionic Bonds
Occur when two atoms with vastly different
electronegativities come together
Atoms have either positive (cation) or
negative (anion) charges
Cations and anions attract each other and
form ionic bonds (no electrons shared)
Typically form crystalline ionic compounds
known as salts
Figure 2.8 The interaction of sodium and chlorine to form an ionic bond
Electron lost
Chlorine atom
Sodium atom
Attraction
of opposite
charges
Formation of
an ionic bond
Chemical Bonds
Hydrogen Bonds
Weak forces that combine with polar covalent bonds
Electrical attraction between partially charged H+ and
full or partial negative charge on same or different
molecule
Weaker than covalent bonds but essential for life
Many help to stabilize 3-D shapes of large molecules
Hydrogen bond
Cytosine
Guanine
Chemical Reactions
Chemical Reactions
Synthesis Reactions
Involve the formation of larger, more
complex molecules
Require energy (endothermic)
Most common type is dehydration synthesis
Water molecule formed
Small molecule
Small molecule
Dehydration synthesis
Energy
Larger molecule
Chemical Reactions
Decomposition Reactions
Break bonds within larger molecules to form smaller
atoms, ions, and molecules
Release energy (exothermic)
Most common type is hydrolysis
Ionic components of water are added to products
Large molecule
Hydrolysis
Energy
Small molecule
Small molecule
Chemical Reactions
Exchange Reactions
Involve breaking and forming covalent bonds,
and involve endothermic and exothermic steps
Involve atoms moving from one molecule to
another
Sum of all chemical reactions in an organism
is called metabolism
Water
Most abundant substance in organisms
Most special characteristics due to two polar
covalent bonds
Cohesive molecules surface tension
Excellent solvent
Remains liquid across wide range of temperatures
Absorbs significant amounts of energy without
changing temperature
Participates in many chemical reactions
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Increasing concentration
of H
Extremely
Acidic
Battery acid
Hydrochloric acid
Lemon juice
Beer, vinegar
Wine, tomatoes
Black coffee
Urine, milk
Increasing concentration
of OH
Pure water
Extremely
Basic
Seawater
Baking soda
Milk of magnesia
Household ammonia
Household bleach
Oven cleaner
Sodium hydroxide
Salts
Compounds that dissociate in water into cations
and anions other than H+ and OH
Cations and anions of salts are electrolytes
Create electrical differences between
inside/outside of cell
Transfer electrons from one location to another
Form important components of many enzymes
Organic Macromolecules
Functional Groups
Contain carbon and hydrogen atoms
Functional groups of common arrangements
Macromolecules large molecules used by all
organisms
Lipids
Carbohydrates
Proteins
Nucleic acids
Organic Macromolecules
Lipids
Not composed of regular subunits, but are all
hydrophobic
Four groups
Fats
Phospholipids
Waxes
Steroids
Organic Macromolecules
Waxes
Contain one long-chain fatty acid covalently linked
to long-chain alcohol by ester bond
Completely insoluble in water; lack hydrophilic head
Organic Macromolecules
Carbohydrates
Organic molecules composed of carbon, hydrogen,
and oxygen (CH2O)n
Functions
Long-term storage of chemical energy
Ready energy source
Part of backbones of nucleic acids
Converted to amino acids
Form cell wall
Involved in intracellular interactions between animal
cells
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Organic Macromolecules
Carbohydrates
Types
Monosaccharides
Disaccharides
Polysaccharides
Organic Macromolecules
Proteins
Mostly composed of carbon, hydrogen, oxygen,
nitrogen, and sulfur
Functions
Structure
Enzymatic catalysis
Regulation
Transportation
Defense and offense
Organic Macromolecules
Amino Acids
The monomers that make up proteins
Most organisms use 21 amino acids in the synthesis
of proteins
Side groups affect how amino acids interact and how
a protein interacts with other molecules
A covalent bond (peptide bond) is formed between
amino acids by dehydration synthesis reaction
Mirror
L-Serine
Left
(Ser)
D-Serine
(Ser)
Right
Dehydration
synthesis
Carboxyl Amino
group group
Amino acid 1
Amino acid 2
Peptide bond
Dipeptide
Organic Macromolecules
Nucleic Acids
DNA and RNA: the genetic material of
organisms
RNA also acts as enzyme, binds amino
acids, and helps form polypeptides
Organic Macromolecules
Nucleic Acids
Nucleotides and nucleosides
Nucleotides are monomers that make up nucleic
acids
Composed of three parts
Phosphate
Pentose sugar deoxyribose or ribose
One of five cyclic nitrogenous bases
Organic Macromolecules
Nucleic Acids
Nucleic acid structure
Three H bonds form between C and G
Two H bonds form between T and A in DNA or
between U and A in RNA
DNA is double stranded in most cells and
viruses
Two strands are complementary
Two strands are antiparallel
Organic Macromolecules
Nucleic Acids
Nucleic acid function
DNA is genetic material of all organisms and
of many viruses
Carries instructions for synthesis of RNA and
proteins; controls synthesis of all molecules in
an organism
Organic Macromolecules
Nucleic Acids
Adenosine triphosphate (ATP)
Short-term, recyclable energy supply for cells
Phosphate-phosphate bonds of ATP are highenergy bonds
Adenine
Ribose
Adenosine (nucleoside)
Adenosine monophosphate (AMP)
Adenosine diphosphate
Adenosine triphosphate