Chemical Foundations of Biological Systems
Chemical Foundations of Biological Systems
Chemical Foundations of Biological Systems
UNIT II
Chemical Foundations
of Biological Systems
Unit II MINITEST
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CHAPTER 6
ACID–BASE REACTIONS
An acid reacts with a base to form an ionic compound, often called a salt, plus water.
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176
UNIT II: BASES
Chemical
Foundations of A base is a compound that produces OH− (hydroxide ion) in water solution. There are
Biological Systems strong bases and weak bases. A strong base fully dissociates into its ions in water solu-
tion. Among the strong bases are hydroxides of groups IA and IIA that are fully soluble
in water. They are LiOH, NaOH, KOH, and Ba(OH)2 .
There are many weak bases, but most of them are organic analogs of ammonia,
NH3 . Ammonia dissolves in water, but only a very small percentage of NH3 molecules
produce NH4 OH, which then dissociates into NH+ 4 and OH .
−
When a strong acid reacts with a weak base, the ionic compound that forms is
acidic in water solution.
When a weak acid reacts with a strong base, the ionic compound that forms is basic
in water solution.
HF + NaOH → NaF + H2 O NaF is basic.
HCN + KOH → KCN + H2 O KCN is basic.
Compounds, such as water, that can serve as an acid (donates a proton) or base
(accepts a proton) are referred to as amphiprotic compounds.
Ionization of Water
Acidity is a measure of the concentration of H+ in a dilute water solution. It is mea-
sured using the pH scale, which is based on a process that water undergoes called
autoionization:
H2 O (l) H+ (aq) + OH− (aq) K w = 1 × 10−14
This is an equilibrium process that lies very far to the left. The K for this, in other
words, is very small. It is called K w (for water) and K w = 1 × 10−14 at 25 ◦ C. This means
that approximately 1 out of every 1014 molecules dissociates into ions in this manner.
An acid produces H+ in water solution. A base produces OH− (hydroxide) in water
solution. When an acid reacts with a base, a salt is formed. This chapter discusses these
compounds and their interactions.
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177
[H+ ] = [OH− ]
At pH 7,
From this, you can see that the pH = − log [H+ ] and that pOH = − log [OH− ].
When the pH is 7, the pOH is 7 as well.
pH + pOH = 14
SOLUTION:
SOLUTION:
➤ 8.4 = − log [H+ ]
➤ [H+ ] = 10−8.4 = 4 × 10−9 M
SOLUTION:
➤ pOH = 14 – 10.6 = 3.4
➤ [OH− ] = 10−3.4 = 4 × 10−4 M
HX + H2 O → X− + H3 O+
acid + base → base + acid
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178
UNIT II: where the acid (HX) donates a proton to water (which acts as a base) to yield H3 O+ ,
Chemical which is a hydronium ion (a water molecule that has accepted a donated proton). HX
Foundations of
and X− are often referred to as a conjugate acid–base pair defined as a pair of com-
Biological Systems
pounds that differ in structure by one proton. HX is a conjugate acid while X− is the
conjugate base. The acid, which has the proton to donate, is the conjugate acid, while
the base, which is ready to accept the proton, is the conjugate base.
An example of a reaction involving an acid is:
HCl + H2 O → Cl− + H3 O+
(hydrochloric acid) + (water) → (chloride ion) + (hydronium ion)
acid + base → base + acid
The same process applies when a base is placed in water, which yields the general
reaction:
X− + H2 O → HX + OH−
base + acid → acid + base
where the base (X− ) accepts a proton from water (which acts as an acid) to yield the
conjugate acid of the base and OH− (hydroxide ion). An example of a reaction involving
a base is:
NH3 + H2 O → NH+
4 + OH
−
Because there is no reverse reaction taking place, strong acids do not involve any
equilibrium process. Simple stoichiometry suffices. The concentration of the proton
and the concentration of the conjugate base Cl− are equal to the initial concentration
of the acid.
If 1,000 HCl molecules are dissolved in water, they dissociate into 1,000 H+ and
1,000 Cl− ions.
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STRONG BASES CHAPTER 6:
The Unique Nature
If the base is a strong base, every molecule dissociates into ions in water solution. The of Water and
most common strong bases are LiOH, NaOH, KOH, and Ba(OH)2 . Its Solutions
[KOH] = [OH− ]
SOLUTION:
SOLUTION:
1
➤ [Ba(OH)2 ] = [OH− ] = 0.065
2
➤ [OH− ] = 0.13 M
➤ pOH = − log 0.13 = 0.9
➤ pH = 14 − 0.9 = 13.1
180
UNIT II: Most of the molecules are still in the HA form. This is an equilibrium process, with
Chemical a very small K a (for acid). The K a values are typically in the range of 10−4 to 10−6 . The
Foundations of K a expression is written as:
Biological Systems
[H+ ] [A− ]
Ka =
[HA]
EXAMPLE: Calculate the pH of 0.15 M HNO3 .
SOLUTION:
➤ This is a strong acid, so the proton concentration is equal to the acid
concentration: [H+ ] = [HNO3 ] = 0 .15 M.
➤ pH = − log 0.15 = 0.8
EXAMPLE: Calculate the pH of 0.15 M HF. For this problem, K a = 6.7 × 10−4 .
SOLUTION: This is a weak acid. The steps for solving this problem are:
x = [H+ ] = 1 × 10−2 M
pH = − log (1 × 10−2 ) = 2
WEAK BASES
We use ammonia for the weak base problems because almost all weak bases are organic
derivatives of ammonia. When ammonia is dissolved in water, approximately 1 out of
every 100,000 molecules produces an OH− (hydroxide ion).
The equation is:
NH3 (aq) + H2 O (aq) NH+ −
4 (aq) + OH (aq)
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181
This is an equilibrium process and the K b (for base) is 1.8 × 10−5 . The K b expression CHAPTER 6:
is written: The Unique Nature
of Water and
[NH4 + ] [OH− ] Its Solutions
Kb =
[NH3 ]
POLYPROTIC ACIDS
Polyprotic acids are acids that have more than one proton; therefore, they have more
than one K a . There is just one K a per proton removed. In the following equations, all
substances are in aqueous solution.
182
UNIT II: ➤ K a1 for the first proton = 4.3 × 10−7 Weak acid
Chemical
➤ K a2 for the second proton = 4.8 × 10−11 Weaker acid
Foundations of
Biological Systems ➤ Phosphoric acid has 3 protons (all weak):
H3 PO4
1H → 0H
Na2 CO3 is also a salt of NaOH and H2 CO3 . It is a basic salt (K b ); thus, it produces
OH− and a conjugate acid:
NaH2 PO4
Na2 HPO4
Na3 PO4
All of these are basic salts; they produce OH− and a conjugate acid
183
EXAMPLE: Calculate the pH of 0.1185 M phosphoric acid solution. CHAPTER 6:
The Unique Nature
SOLUTION:
of Water and
➤ For the pH of a polyprotic acid, we use only the K a1 . Its Solutions
K a1 = 6.9 × 10−3
➤ Write the equation.
H3 PO4 H+ + H2 PO4 −1
➤ Fill in the table.
−1
H3 PO4 H+ + H2 PO4
0.1185 M x x
➤ Write K a expression.
[H+ ] [H2 PO4 −1 ]
Ka =
[H3 PO4 ]
➤ Fill in values and solve for x.
x2
6.9 × 10−3 =
0.1185 M
x = [H+ ] = 8.2 × 10−4 = 2.9 × 10−2 M
SOLUTION:
➤ Write the formula.
Na2 HPO4
➤ Recognize that this is a basic salt, so it is a base. So you need a K b .
➤ Write the equation.
HPO4 −2 + H2 O OH− + H2 PO4 −1
➤ Fill in the table.
−2 −1
HPO4 OH− + H2 PO4
0.0165 M x x
➤ Determine which K b is needed.
K b1 involves 2H → 3H
K b2 involves 1H → 2H
K b3 involves 0H → 1H
➤ Because our salt has 1H and is going to the conjugate acid with 2H, we
need K b2 .
K b2 = 1.6 × 10−7
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UNIT II: ➤ Write the K b expression.
Chemical
[OH− ] [H2 PO4 − ]
Foundations of K b2 =
Biological Systems [HPO4 −2 ]
➤ Fill in the values and solve for x.
x2
1.6 × 10−7 =
0.0165 M
x = [OH− ] = 5.1 × 10−5 M
pOH = 4.3
pH = 9.7
SOLUTIONS OF SALTS
When an acid reacts with a base, in stoichiometric quantities, an ionic compound
(a salt) is formed, along with water:
The ionic compound is neutral, acidic, or basic (when dissolved in water), depend-
ing on which acid and base were used to make it.
CASE 1:
CASE 2:
CASE 3:
We look next at salts from cases 2 and 3 only. In the following equations, all sub-
stances are in aqueous solution except water, which is liquid.
CASE 2 EXAMPLES:
CASE 3 EXAMPLES:
HF + LiOH −→ LiF + H2 O
185
ACIDIC SALTS CHAPTER 6:
The Unique Nature
Acidic salts are formed when a strong acid reacts with a weak base, as in case 2. of Water and
Its Solutions
EXAMPLE: Calculate the pH of 0.078 M ammonium nitrate. For this problem,
K a = 5.6 × 10−10 .
SOLUTION:
➤ Calculate pH.
pH = 5.2
BASIC SALTS
Basic salts are formed when a strong base reacts with a weak acid, as in case 3.
EXAMPLE: Calculate the pH of 0.035 M KCN. For this problem, K b = 1.6 × 10−5 .
SOLUTION:
186
UNIT II: ➤ Write the K expression.
Chemical [HCN] [OH− ]
Foundations of Kb =
[CN− ]
Biological Systems
➤ Fill in the values and solve for x, the [OH− ].
x2
1.6 × 10−5 =
0.035 M
x = [OH− ] = 7.5 × 10−4 M
➤ Calculate pOH.
pOH = 3.1
➤ Calculate pH.
pH = 10.9
Equilibrium Constants
You have just examined the equilibrium constants K a and K b for various acids and
bases. Now see how they work together to produce the ionization constant for water,
K w . First consider the K a expression for an acid and the K b expression for a base:
[H3 O+ ][A− ] [HA][OH− ]
Ka = and Kb =
HA [A− ]
When you multiply K a by K b, you get K a × K b = [H3 O+ ][OH− ] = K w = 1 × 10−14 .
Prove it to yourself by multiplying the K a value of HF (7.2 × 10−4 ) by the K b value of
F− (1.4 × 10−11 ).
One other equilibrium constant to be examined in this chapter is the solubility
product constant of a slightly soluble salt, K sp . Keep in mind that this is an equilib-
rium constant between the ionic compound and a saturated solution of the ions that it
forms. Consider the slight ability of AgCl (s) to dissolve in water. The equation for this is
AgCl (s) → Ag+ (aq) + Cl− (aq). When you write the equilibrium constant expressions
for a reaction, solids, liquids, and solvents are not included. This expression is written
as K sp = [Ag+ ][Cl− ] and has a value of 1.8 × 10−10 . When comparing this to the K sp
for CaSO4 (2.4 × 10−5 ), you see that the calcium sulfate is more soluble than the silver
chloride.
Buffers
DEFINITION OF COMMON BUFFER SYSTEMS
A buffer is a solution that resists change in pH when small amounts of acid or base are
added. It is usually a solution that is made of approximately equal concentrations of
an acid and its conjugate base. The calculation of the pH of a buffer uses exactly the
same method as for a common ion.
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187
EXAMPLE: Calculate the pH of a buffer made by mixing 60.0 milliliters (mL) of CHAPTER 6:
0.100 M NH3 with 40.0 mL of 0.100 M NH4 Cl. The equilibrium constant, K a , is The Unique Nature
of Water and
K a = 5.6 × 10−10 Its Solutions
SOLUTION:
➤ Calculate the molarity of each component in the mixture.
(0.0600 L) (0.100 M) = 0.006 mole/0.100 L = 0.060 M NH3
(0.0400 L) (0.100 M) = 0.004 mole/0.100 L = 0.040 M NH4 Cl
pH = 9.4
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UNIT II:
7
Chemical
Foundations of
6
Biological Systems
5 Buffer 1 HCI
pH
4
3
Purewater
Pure water11HCI
HCI
2
1
1027 1026 1025 1024 1023 1022 1021 100
Moles of HCI added
per liter (CHCI )
IONS IN SOLUTIONS
Anions and Cations
When an ionic compound is dissolved in a solution, there is a formation of both nega-
tive and positive ions. The negative ions are called anions, while the positive ions are
called cations. For example, when a salt such as sodium chloride is added to water, you
get Na+ and Cl− as the cation and anion, respectively.
189
TABLE 6-1 Simple and Complex Anions and Cations CHAPTER 6:
The Unique Nature
Main Group Cations and Simple Anions
of Water and
Group IA IIA IIIA IVA VA VIA VIIA Its Solutions
H+ H−
Hydrogen Hydride
Li+ Be2+ Al3+ N3− O2− F−
Lithium Beryllium Aluminum Nitride Oxide Fluoride
Na+ Mg2+ Ga3+ S2− Cl−
Sodium Magnesium Gallium Sulfide Chloride
K+ Ca2+ In3+ Se2− Br−
Potassium Calcium Indium Selenide Bromide
Rb+ Sr2+ Te2− I−
Rubidium Strontium Telluride Iodide
Cs+ Ba2+
Cesium Barium
Complex Anions
Cyanide CN−
Hydroxide OH−
Peroxide O2 −2
Permanganate MnO4 −
Chromate CrO4 −2
Dichromate Cr2 O7 −2
Carbonate CO3 −2 Hydrogen carbonate HCO3 −
Phosphate PO4 −3 Hydrogen phosphate HPO4 −2 Dihydrogen phosphate H2 PO4 −
Phosphite PO3 −3 Hydrogen phosphite HPO3 −2 Dihydrogen phosphite H2 PO3 −
Sulfate SO4 −2 Hydrogen sulfate HSO4 −
Sulfite SO3 −2 Hydrogen sulfite HSO3 −
Nitrate NO3 −
Nitrite NO2 −
Perchlorate ClO4 − Perbromate BrO4 − Periodate IO4 −
Chlorate ClO3 − Bromate BrO3 − Iodate IO3 −
Chlorite ClO2 − Bromite BrO2 − Iodite IO2 −
Hypochlorite ClO− Hypobromite BrO− Hypoiodite IO−
Complex Cation
Ammonium NH4 +
A good method to determine how many cations and how many anions are in a for-
mula is the lowest common denominator method. The lowest common denominator
of the charges is determined (ignoring the signs). This gives the total + charges and the
total − charges necessary.
SOLUTION: Sodium is Na+1 and oxide is O−2 . The lowest common denominator
of 1 and 2 (the charges) is 2. Thus, the positive charges must total +2 and the
negative charges must total −2. So there must be 2 sodium cations and 1 oxide
anion, and the formula is Na2 O.
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190
UNIT II: Transition metal cations vary in their possible charges; the charge of the metal
Chemical must be written in the name as a roman numeral. Thus, copper (II) oxide means
Foundations of that the copper cation is Cu+2 . Because oxide is always O−2 , the charges balance,
Biological Systems
and the formula is CuO.
Copper (I) oxide means that the copper cation is Cu+1 . Oxide is O−2 . The lowest
common denominator is 2; thus, there must be two Cu+1 cations for every oxide
anion. The formula is Cu2 O.
The complex anions must be memorized. Their names, formulas, and net
charge are given in the previous table.
SOLUTION: The sodium cation is Na+1 and the phosphate anion is PO4 −3 . The
lowest common denominator of the charges is 3. Thus, there must be 3 sodium
cations and 1 phosphate anion to result in a net zero charge for the molecule. So
the formula is Na3 PO4 .
SOLUBILITY
Concentration Units
There are various concentration units that can be used to describe how much solute
is dissolved in a certain amount of solution. This section deals with reactions that take
place in solution. The concentration unit that is used to make solutions for reaction is
molarity, which has the symbol M, and is defined as:
191
This definition is also a working equation. There are three variables; if two are known, CHAPTER 6:
the third can be calculated. The Unique Nature
of Water and
EXAMPLE: Calculate the molarity of a solution that is prepared by dissolving 1.192 Its Solutions
grams (g) of oxalic acid (C2 H2 O4 ) in water to a total of 100.0 milliliters (mL) of
solution.
SOLUTION:
1. Convert the mass of oxalic acid to moles.
(1.192 g) (1 mole/90.04 g) = 0.01324 mole oxalic acid
K sp = [Ca+2 ] [C2 O4 −2 ]
K sp = [Pb+2 ] [I− ]2
K sp = [Ca+2 ]3 [PO4 −3 ]2
The solubility of the compound (in M units) can be calculated from the K sp data.
➤ Write the equation.
CaF2 (s) Ca+2 (aq) + 2F− (aq)
At equilibrium x 2x
➤ Write the K sp expression.
K sp = [Ca+2 ] [F− ]2
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192
UNIT II: ➤ Plug in value for K sp (found in the following table) and solve for x.
Chemical
Foundations of 4.0 × 10−11 = x(2x)2 = 4x3
Biological Systems x = [Ca+2 ] = 2.2 × 10−4 M
Compound Ksp
193
EXAMPLE: Calculate the K sp of lead (II) iodide if the solubility is 1.2 × 10−3 M. CHAPTER 6:
The Unique Nature
SOLUTION: The solubility equals x; therefore, x = 1.2 × 10−3 . of Water and
Its Solutions
➤ Write the equation.
PbI2 (s) Pb+2 (aq) + 2I− (aq)
K sp = 6.9 × 10−9
K sp = 2.3 × 10−9
SOLUTION:
➤ Write the equation.
CaC2 O4 (s) Ca+2 (aq) + C2 O4 −2 (aq)
At equilibrium 0.15 + x x
➤ Assume the change is negligible.
➤ Write the K sp expression.
K sp = [Ca+2 ] [C2 O4 −2 ]
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194
UNIT II: ➤ Plug in values and solve for x.
Chemical
Foundations of 2.3 × 10−9 = (0.15)x
Biological Systems x = [C2 O4 −2 ] = 1.5 × 10−8 M
The common ion effect occurs when you add strong acid or strong base to a solu-
tion of weak acid or weak base at equilibrium. The added base or acid reacts to form
more of one of the components in equilibrium.
K a = 1.8 × 10−5
SOLUTION:
195
Accompanying these complexes are equilibrium constants of formation, or forma- CHAPTER 6:
tion constants, K f . The greater the value of K f , the more stable the complex of ions will The Unique Nature
be in aqueous solution. of Water and
Its Solutions
However, should an electron pair be introduced into the preceding reaction, the
equilibrium can be shifted toward the right. If cyanide ion were then added to the pre-
ceding reaction, CN− would bond to Ag+ to form the complex ion Ag(CN)−
2 . This com-
plex ion has an equilibrium constant of formation, which is on the order of 10 21 . The
cyanide ion does a terrific job of removing the silver ions from solution, driving the
reaction to the right and increasing the solubility of AgCl.
SOLUBILITY AND pH
Lowering the pH increases the solubility of basic ionic compounds. If you calculate
the solubility of a basic compound in pure water as a reference, you can compare the
solubility at a lower pH.
K sp = 2.0 × 10−15
SOLUTION:
➤ Write the equation.
Ni(OH)2 (s) Ni+2 (aq) + 2OH− (aq)
At equilibrium x 2x
➤ Write the K sp expression.
K sp = [Ni+2 ] [OH− ]2
196
UNIT II: EXAMPLE: (Part II): Calculate the solubility of nickel (II) hydroxide at pH 8.
Chemical
SOLUTION:
Foundations of
Biological Systems ➤ The pOH = 6; therefore, [OH− ] = 1 × 10−6 M.
➤ Plug in values using this concentration of OH− .
2.0 × 10−15 = x(1 × 10−6 )2
x = [Ni+2 ] = 2 × 10−3 M
This says that at any pH less than 9.2, the solubility is > 7.9 × 10−6 M, and as shown
previously, at pH 8, the solubility is 2 × 10−3 M.
ACID–BASE TITRATIONS
An acid–base titration is the addition of a quantity of base of known concentration,
using a burette, to a known volume of acid of unknown concentration, until the end-
point is reached. An indicator compound, such as phenolphthalein, is added so that
a color change occurs at the endpoint. At that point, an equivalent amount of base has
been added, and the volume that contains that amount is determined from the initial
and final volumes on the burette. The concentration of the acid solution can then be
calculated.
EXAMPLE: A 25.0-mL sample of HCl is titrated with 0.0750 M NaOH. The titration
requires 32.7 mL of base to reach the endpoint. Calculate the molarity of the HCl.
SOLUTION:
➤ Write the equation for the reaction.
HCl + NaOH → NaCl + H2 O
197
There are two major types of acid–base titrations. One is the addition of strong CHAPTER 6:
base to strong acid; the other is the addition of strong base to weak acid. The pH of the The Unique Nature
endpoint solution can be calculated for the second case. of Water and
Its Solutions
[H+ ] = [HA]
➤ Calculate pOH.
➤ Calculate pH.
EXAMPLE: A 25.0-mL sample of 0.0875 M acetic acid is titrated with 0.150 M NaOH.
Consider the following given values:
SOLUTION:
198
UNIT II: 1.8 × 10−5 = x2 /0.0875
Chemical
x = [H+ ] = 1.25 × 10−3 M
Foundations of
Biological Systems pH = 2.9
➤ Calculate the pH at the point when 5.0 mL of base has been added.
(0.005 L) (0.150 M NaOH) = 7.5 × 10−4 mole base added
Indicators
The easiest way to tell the approximate pH value of a solution is via the use of an indi-
cator. Universal indicators are usually made from a blend of indicators and can have
more than six distinct colors to give more exact pH values. Other indicators, such as
litmus, have just two colors. When choosing an indicator for a titration, there is much
to consider.
Indicators such as phenolphthalein are useful during a titration because their
change in color tells you when the endpoint has been reached. The reaching of the
endpoint is the reaching of the equivalence point as well. Not all indicators turn color
at the same pH. This is why you need to pick an indicator with a pK that is close
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199
to the equivalence point. For example, the equivalence point in a titration between CHAPTER 6:
NaOH and acetic acid is about 9.2. You would choose phenolphthalein for this reaction The Unique Nature
because it has a pK of 9.3. If you were to titrate a strong acid and a weak base, then of Water and
Its Solutions
methyl orange might be used as an indicator. The pK of this indicator is about 3.7,
and it changes color at a pH range of 3.1–4.4.
Neutralization
Neutralization is the process by which an acid and base are mixed together to form a
salt and water. A classic example is the reaction between HCl and NaOH to form NaCl
and H2 O. Because the three ionic compounds in the reaction are all completely soluble
electrolytes, the net ionic reaction for the neutralization of these substances will be:
H+ + OH− → H2 O
However, this is not the only type of neutralization that you can find. For example,
if you were to have an acid spill in the laboratory, you would use sodium bicarbonate
(NaHCO3 ) or sodium carbonate (Na2 CO3 ) to neutralize the spill. In these cases, the
acid is neutralized and carbon dioxide is formed. The equations for the reactions are:
HCl + NaHCO3 → NaCl + H2 O + CO2
2HCl + Na2 CO3 → 2NaCl + H2 O + CO2
200
UNIT II:
Strong acid – strong base Strong acid – weak base
Chemical
pH pH
Foundations of
Biological Systems
7 7
7 7
14
13
12
11
10
9
8
pH 7
6
5
4
3
2
1
0
0 10 20 30 40 50 60
mL 0.100 M NaOH added to 25 mL 0.100 M H2CO3
Oxidation–Reduction Reactions
Oxidation–reduction reactions, the third type of reaction in solution (next to precipi-
tation reactions and acid-base reactions), involve the transfer of one or more electrons
from one species in the reaction to another.
Any species that loses electrons is oxidized. Any species that gains electrons is
reduced. Oxidation and reduction can be tracked using the oxidation number of each
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201
atom. Each atom in a formula has an oxidation number. It is similar to a charge; for CHAPTER 6:
simple ions, the charge and the oxidation number are the same. For atoms of an ele- The Unique Nature
ment, the oxidation number is always zero. of Water and
Its Solutions
EXAMPLE: State which atom is oxidized and which is reduced in the following
equation:
Fe + Cu+2 → Fe+2 + Cu
SOLUTION:
EXAMPLE: Try another problem. Which atom is oxidized and which is reduced?
SOLUTION:
202
UNIT II: COMMON TYPES OF OXIDATION–REDUCTION REACTIONS
Chemical
Foundations of A few of the more common classifications of oxidation–reduction reactions are
Biological Systems combination reactions, decomposition reactions, single displacement reactions, and
combustion reactions.
A combination reaction occurs when two substances combine to form a third
substance.
OXIDATION–REDUCTION TITRATIONS
Oxidation–reduction titration typically does not require an indicator compound to be
added, because there is often an automatic color change on reaction.