WATER

COURSE OUTCOME (C0 1) CO2: Ability to define and describe the

biochemical concepts and terms associated with life.

Terms used in Course Outcome and Teaching

Knowledge: Define, introduce, describe, name, relate, explain, identify and Remember concepts and principles.

Repetition: Repeat and discuss concepts and principles.

Application: Apply, demonstrate, interpret and illustrate concepts and principles.

*LECTURE CONTENTS

1. Why water is important to biochem ? 2. USES OF WATER 3. PHYSICS & CHEMISTRY OF WATER4. PHYSICAL PROPERTIES OF WATER5. Molecular Structure of Water6. Hydrogen Bonding7. Polarity of water8. Noncovalent Bonding9. Weak, van der Waal’s forces10. Thermal properties of water11. Osmosis, reverse osmosis & dialysis12. Water ionization, pH, titration and buffer13. Summary14. The end note

Sect

*Sect 1. Introduction

Why water is important to biochem ? More than 70% of the earth’s surface is

covered with the molecule of water. Cell components and molecules (protein,

poly sacharides, nucleic acid, membranes) assume their shape in response to water

Water acts as a solvent & substrate for many cellular reactions

Water is a common chemical substance that is essential for the survival of all known forms of life. (In typical usage, water refers only to its liquid form or state, but the

substance also has a solid state, ice, and a gaseous state, water vapor. )

IntroductionUses of Water

AGRICULTURE FOR DRINKING AS SOLVENT HEAT TRANSFER FLUID FOOD PROCESSING INDUSTRIAL APPLICATIONS AS A SCIENTIFIC STANDARD

IntroductionPhysics & Chemistry of water

Water is the chemical substance with chemical formula H2O: one molecule of water has two hydrogen atoms covalently bonded to a single oxygen atom.

Water is a tasteless, odorless liquid at ambient temperature and pressure, and appears colorless in small quantities, although it has its own intrinsic very light blue hue.

Oxygen attracts electrons much more strongly than hydrogen, resulting in a net positive charge on the hydrogen atoms, and a net negative charge on the oxygen atom.

The presence of a charge on each of these atoms gives each water molecule a net dipole moment.

Electrical attraction (hydrogen bonding) between water molecules due to this dipole pulls individual molecules closer together, making it more difficult to separate the molecules and therefore raising the boiling point.

Water can be described as a polar liquid that dissociates disproportionately into the hydronium ion (H3O+(aq)) and an associated hydroxide ion (OH−(aq))

Water is in dynamic equilibrium between the liquid, gas and solid states at standard temperature and pressure (0°C, 100.000 kPa) , and is the only pure substance found naturally on Earth.

Introduction UNIQUE PHYSICAL PROPERTIES OF WATER

Exist in all three physical states of matter: solid, liquid, and gas.

Has high specific heat Water conducts more easily than any

liquid except mercury Water has a high surface tension Water is a universal solvent Water in a pure state has a neutral pH.

*Sect 2 : Molecular Structure of Water

The oxygen in water is sp3 hybridized. Therefore water has tetrahedral geometry. Consequently the water molecule is bent. The H-O-H angle is 104.5o.

Molecular structure of water

The bent structure indicate water is polar coz linear structure is nonpolar.

Phenomenon where charge is separated to partial –ve charge and partial +ve charge is called dipoles.

Sect 3 : Noncovalent Bonding

Ionic interactions

Hydrogen bonding

Van der Waals forces Dipole-dipole Dipole-induced dipole Induced dipole-induced dipole

Ionic Interactions Ionic interactions occur between charged atoms or groups. Oppositely charged ions are attracted to each other.

In proteins, side chains sometimes form ionic salt bridges.

CH2CH2COO-

CH2CH2NH3

+

Salt bridge

Hydrogen Bonding

Water molecules can perform hydrogen bond with one another. Four hydrogen bonding attractions are possible per molecule:

2 through the

hydrogens and

2 through the

nonbonding

electron pairs.

HO

H

HO

H

HO

H

HO

HH

OH

Hydrogen Bonding A hydrogen attached to an O or N

becomes very polarized and highly partial plus (δ+). This partial positive charge interacts with the nonbonding electrons on another O giving rise to the very powerful hydrogen bond.

R1 O H

HO

H

HOHhydrogen bond

shown in yellow

Water has an abnormally high boiling point due to intermolecular hydrogen bonding.

HO

H

HO

H

HO

H

H bonding is a

weak attraction between an electronegative atom in one molecule and an H(on an O) in another.

Water molecule with bond ( ) and net

( ) dipoles.

HO

H+

-

+

These forces are electrostatic interactions. Relatively weak.

These interactions occur among permanent or induced dipoles, where the hydogen bonds form a special kind of dipolar interaction

Interactions among permanent dipoles such as carbonyl groups are much weaker than ionic interactions

Van der Waal’s forces

Van der Waals Attractionsa. Dipole-dipole

b. Dipole-induced dipole

c. Induced dipole-induced dipole

C O C O+-

+-

H

H

HH

H

H

HH

+-

+-

C O H

H

HH

+- +

-

Sect 4 : Thermal properties of water Hydrogen bonding keeps water in the liquid phase

between 0oC and 100oC.

Liquid water has a high:Heat of vaporization - energy to vaporize one

mole of liquid at 1 atm

Heat capacity - energy to change the temperature by 1oC

Water plays an important role in thermal regulation in living organisms.

Relationship between temperature and hydrogen bond

Max number of hydrogen bonds form when water has frozen into ice.

Hydrogen bonds is approximately 15% break when ice is warmed.

Liquid water consists of continuously breaking and forming hydrogen bonds.

The rising tempt. The broken of hydrogen bonds are accelerating.

When boiling point is reached, the water molecules break free from one another and vaporize.

Water easily dissolves a wide variety of the constituents of living organisms.

Water also unable to dissolve some substances

This behavior is called hydrophilic and hydrophobic properties of water.

Sect. 5: Solvent Properties of Water

Water is a polar molecule.

A polar molecule is one in which one end is partially positive and the other partially negative.

This polarity results from unequal sharing of electrons in the bonds and the specific geometry of the molecule.

Polarity of water

Hydrophillic substances dissolve in water The polar nature of water makes it an excellent

solvent for polar and ionic materials that are water loving (hydophillic)

An ion immersed in a polar solvent such as water attracts the the oppositely charged ends of the solvent dipoles and becomes surrounded by one or more concentric shells of orientated solvent molecules, therby becoming solvated or hydrated when water is the solvent

The bond dipoles of uncharged polar molecules make them soluble in aqueous solutions.

HYDROPHOBIC INTERACTIONS

Nonpolar molecules tend to coalesce into droplets in water. The repulsions between the water molecules and the nonpolar molecules cause this phenomenon.

The water molecules form a “cage” around the small hydrophobic droplets.

Nonpolar MoleculesNonpolar molecules have no polar bonds or

the bond dipoles cancel due to molecular geometry.

These molecules do not form good attractions with the water molecule. They are insoluble and are said to be hydrophobic (water hating).

eg.: CH3CH2CH2CH2CH2CH3, hexane

Nonpolar Molecules-2

Water forms hydrogen-bonded cage like structures around hydrophobic molecules, forcing them out of solution.

Amphipathic Molecules Amphipathic molecules contain both polar and

nonpolar groups.

Ionized fatty acids are amphipathic. The carboxylate group is water soluble and the long carbon chain is not.

Amphipathic molecules tend to form micelles, colloidal aggregates with the charged “head” facing outward to the water and the nonpolar “tail” part inside.

A Micelle

Typical “Bond” Strengths

Type kJ/mol

Covalent >210

Non-covalent

Ionic interactions 4-80

Hydrogen bonds 12-30

van der Waals 0.3-9

Hydrophobic interactions 3-12

Osmosis, Reverse Osmosis & Dialysis

Osmosis is a spontaneous process in which solvent (e.g. water) molecules pass through a semi permeable membrane from a solution of lower solute (e.g. chemical) concentration to a solution of higher solute concentration.

Osmosis is the movement of solvent from a region of high concentration (here, pure water) to a region of relatively low concentration (water containing dissolved solute).

Water moves by osmosis and solutes by diffusion.

OSMOTIC PRESSURE Osmotic pressure is the pressure required to

stop osmosis or the influx of water (22.4 atm for 1M solution).

Because cells have a higher ion concentration than the surrounding fluids, they tend to pick up water through the semi permeable cell membrane.

The cell is said to be hypertonic relative to the surrounding fluid and will burst (hemolyze) if osmotic control is not effected.

Cells placed in a hypotonic solution will lose water and shrink (crenate).

If cells are placed in an isotonic solution (conc. same on both sides of membrane) there is no net passage of water.

Definitions of solutions

Hypotonic solution: A solution with a lower salt concentration than in normal cells of the body and the blood.

Hypertonic solution: A solution with a higher salt concentration than in normal cells of the body and the blood.

Isotonic solution: A solution that has the same salt concentration as the normal cells of the body and the blood. An isotonic beverage may be drunk to replace the fluid and minerals which the body uses during physical activity.

OSMOMETER Osmotic pressure () is measured in an

osmometer.

Osmotic-pressure formula

iMRTi = van’t Hoff factor (% as ions)M = molarity (mol/L for dilute solutions)R = (normal gas constant expressed in liters and atmospheres)

0.082 L atm/ mol KT = Kelvin temperature

Orπ= i*C*R*T

T= absolute temperature (in Kelvin)R= the gas constant in whatever units you need to express osmotic pressure (e.g. if you want π in atm then R=0.082 L*atm/(mole*K))C = the concentration of your solute in mole/L

i is the van't Hoff coefficient. For non-electrolytes i=1

For strong electrolytes i= the number of ions that are produced by the dissociation according to the molecular formula e.g for NaCl you have 2 ions (1 Na+ and 1 Cl-) so i=2, for CaCl2, 3 ions (1 Ca+2 from 2 Cl-) so i=3.

For weak electrolytes, if n is the number of ions coming from the 100% dissociation according to the molecular formula and a the degree of dissociation then i=(1-a)+na. E.g. if we assume for CH3COOH a=80% i=(1-0.8)+2*0.8= 0.2+1.6=1.8

Liquids move from high osmotic pressure (high conc. solvent and low conc. solute) to low osmotic pressure (high conc. solute and low conc. of solvent)

REVERSE OSMOSIS Reverse osmosis (RO) is a separation process

that uses pressure to force a solution through a membrane that retains the solute on one side and allows the pure solvent to pass to the other side.

More formally, it is the process of forcing a solvent from a region of high solute concentration through a membrane to a region of low solute concentration by applying a pressure in excess of the osmotic pressure.

It is used in water purification and desalination.

DIALYSIS

A concentrated solution is separated from a large volume of solvent by a dialysis membrane or bag that is permeable to both water and solutes.

Only small molecules can diffuse through the pores of the membrane.

At equilibrium, the concentrations of small molecules are nearly the same on either side of the membrane, whereas the macromolecules, such as proteins or nucleic acids, remain inside the dialysis bag.

KIDNEY DIALYSIS Reverse osmosis is the technique used

in dialysis, which is used by people with kidney failure.

The kidneys filter the blood, removing waste products (e.g. urea) and water, which is then excreted as urine.

A dialysis machine mimics the function of the kidneys. The blood passes from the body via a catheter to the dialysis machine, across an osmotic filter.

Sect 12: Water ionization, pH, titration and buffer

The self-ionization of water is the chemical reaction in which two water molecules react to produce a hydronium (H3O+) and a hydroxide ion (OH−).

Water ionization occurs endothermically due to electric field fluctuations between molecules caused by nearby dipole librations resulting from thermal effects, and favorable localized hydrogen bonding.

Ions may separate but normally recombine within a few min. to seconds. Rarely (about once every eleven hours per molecule at 25°C, or less than once a week at 0°C) the localized hydrogen bonding arrangement breaks before allowing the separated ions to return, and the pair of ions (H+, OH-) hydrate independently and continue their separate existence.

Ionization of Water

Water dissociates. (self-ionizes)H2O + H2O = H3O+ + OH-

Kw = Ka [H2O]2 = [H3O+ ][OH-]

Ka = [H3O+][OH-]

[H2O]2

Water Ionization-2The conditions for the water dissociation

equilibrium must hold under all

situations at 25o C.

Kw= [H3O+][OH-]=1 x 10-14

In neutral water,

[H3O+ ] = [OH-] = 1 x 10-7 M

Water ionization - 3

When external acids or bases are added to water, the ion product

([H3O+ ][OH-] ) must equal Kw.

The effect of added acids or bases is best understood using the Bronsted-Lowry- theory of acids and bases.

Bronsted-Lowry definitionsAn acid is a substance that can donate a proton

A base is a substance that can accept a proton

H+ ions (called a protons, since a H+ ion has neither electrons nor neutrons).

This definition can be represented by the general chemical reaction

  A B + H+   which does not attempt to show electrical charge balance. In this equation - ·      A is the acid., ·      B is the base and ·      H+ (a hydrogen atom without an electron) is a proton.

Conjugate acid/base

An acid can donate a proton

An acid (HA) reacts with a base (H2O) to form the conjugate base of the acid (A-) and the conjugate acid of base (H3O+)

HA + H2O = H3O+ + A-

A B CA CB

C: conjugate (product) A/B

Conjugate base/acid

base = proton acceptor

RNH2 + H2O = OH- + RNH3+

B A CB CA

Measuring Acidity Added acids increase the concentration of

hydronium ion and bases the concentration of hydroxide ion.

In acid solutions [H3O+] > 1 x 10-7 M [OH-] < 1 x 10-7 M

In basic solutions [OH-] > 1 x 10-7 M

[H3O+] < 1 x 10-7 M

pH scale measures acidity without using exponential numbers.

pH Scale

Define: pH = - log(10)[H3O+]

0---------------7---------------14

acidic basic

[H3O+]=1 x 10-7 M, pH = ?

7.0

Strength of AcidsStrength of an acid is measured by

the percent which reacts with water to form hydronium ions.

Strong acids (and bases) ionize close to 100%. e.g.. HCl, HBr, HNO3, H2SO4

Strength of Acids-2

Weak acids (or bases) ionize typically in the 1-5% range .

e.g.. CH3COCOOH, pyruvic acid

CH3CHOHCOOH, lactic acid

CH3COOH, acetic acid

Strength of Acids-3Strength of an acid is also measured

by its Ka or pKa values.

HA + H2O = H3O+ + A-

Larger Ka and smaller pKa valuesindicate stronger acids.

Ka = [H3O+][A-]

[HA]

Strength of Acids-4

Ka pKa

CH3COCOOH 3.2x10-3 2.5

CH3CHOHCOOH 1.4x10-4 3.9

CH3COOH 1.8x10-5 4.8

Larger Ka and smaller pKa values indicate stronger acids.

Monitoring Acidity

The Henderson-Hasselbalch (HH) equation is derived from the equilibrium expression for a weak acid.

pH = pKa + log [A-] [HA]

Monitoring Acidity-2

The HH equation enables us to calculate the pH during a titration and to make predictions regarding buffer solutions.

What is a titration?It is a process in which carefully measured volumes of a base are added to a solution of an acid in order to determine the acid concentration.

Monitoring Acidity-3

When chemically equal (equivalent) amounts of acid and base are present during a titration, the equivalence point is reached.

The equivalence point is detected by using an indicator chemical that changes color or by following the pH of the reaction versus added base, ie. a titration curve.

Glutamic acid titration curve

Titration Curve – solved example

0.7 equivalents of NaOH neutralizes 0.7 eq of acid producing 0.7 eq of salt and leaving 0.3 eq of unneutralized acid.

pKa of HOAc is 4.76

pH = 4.76 + log [0.7] [0.3]

30% acid and 70% salt. pH=5.13

Buffer Solutions

Buffer : a solution that resists change in pH when small amounts of strong acid or base are added.

A buffer consists of: a weak acid and its conjugate base or a weak base and its conjugate acid

Buffer Solutions - 1High concentrations of acid and

conjugate base give a high buffering capacity.

Buffer systems are chosen to match the pH of the physiological situation, usually around pH 7.

Buffer Solutions- 2

Within cells the primary buffer is the phosphate buffer: H2PO4

-/HPO42-

The primary blood buffer is the bicarbonate system: HCO3

-/H2CO3.

Proteins also provide buffer capacity. Side chains can accept or donate protons.

Buffer Solutions-3

A Zwitter ion is a compound with both positive and negative charges.

Zwitterionic buffers have become common because they are less likely to cause complications with biochemical reactions.

Example of Zwitter ion buffer

N-tris(hydroxymethyl)methyl-2-aminoethane sulfonate (TES) is a example of zwitterion buffer.

(HOCH2)3CN+H2CH2CH2SO3-

Buffer Solutions-4

Buffers work by chemically tying up acid and base. Eg.:

HCO3- + H3O

+ H2CO3 + H2O

H2CO3 + OH- HCO3- + H2O

Solved example on Buffer

Calculate the ratio of lactic acid to lactate in a buffer at pH 5.00. The pKa for lactic acid is 3.86

5.00 = 3.86 + log [lactate] [lactic acid]

5.00-3.86 = log [lactate] [lactic acid]

antilog 1.14 = [lactate] [lactic acid]

= 13.8

Sect 13: SUMMARY

Water is essential for all living things. Water molecules can form hydrogen

bonds with other molecules because they have 2 H atoms that can be donated ans 2 unshared electron pairs that can act as acceptors.

Liquid water is an irregular network of water molecules that each form 4 hydrogen bonds with neighbouring water molecules.

Summary contd. Hydophilic substances such as ions and

polar molecules dissolve readily in water. The hydrophobic effect is the tendency

of water to minimizeits contact with nonpolar substances.

Water molecules move from regions of high concentration to regions of low concentration by osmosis.

Solutes move from regions of high conc. to regions of low conc. by diffusion.

Summary contd. Water ionizes to H+ (which represents the

hydronium ion H3O) and OH-. The concentration of H+ ions in solutions is

expressed as a pH value. Acids can donate protons and bases accept

protons. The strength of an acis is expressed as its pK. Henderson-Hasselbalch equation relates the pH

of a solution to the pK and concentration of an acid to its conjugate base.

Buffered solutions resist changes in pH within about one pH unit of the pK of the buffering species.

THE END Note & Lao Tzu’s quote on water

“Be careful what you water your dreams with. Water them with worry and fear and you will produce weeds that choke the life from your dream. Water them with optimism and solutions and you will cultivate success. Always be on the lookout for ways to turn a problem into an opportunity for success. Always be on the lookout for ways to nurture your dream.”

Tutorial on Water

1. Noncovalent bonding of water has play a vital role in determining the properties of water. Describe types of those bonding and

water properties they determined.

2. Differentiate polar and nonpolar molecule. Explain how polar nature of water makes it an excellent solvent for polar and ionic materials.