Unformatted text preview: Bio 20A-M. Dalbey
Assigned Reading: WATER (Chapter 2)
Chapter 2 Section 2.4 1/7/09
p. 31 The structure of the water molecule 2-D R esen ion o the W r M cul
tat s f
ate ole e H
[theoretical = ~110o] X X δ+0.33 H
H Oδ δ+0.33 -0.33 δ-0.33 Therepr sen on o th le d notshowthe2 e tron inthe1sorbialof
e tati n e ft oes
Oxyg n b usetheyare no " enceEectr ns"(ie. t eydo notpar patein
resen onsobscu t e rue 3 te
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e HYDROGEN BONDING
Linus Pauling developed concept of H-bonding to explain the
unusual properties of liquid H2O.
H bonds are 10X stronger than VDW interactions in ordinary
liquids, 10X weaker than covalent bonds.
Note that in a H2O dimer, both molecules are free to rotate
about the axis of the H bond. Association of 2 Water Molecules by
Intermolecular Hydrogen Bo ding
n ~0.10 nm
460 kJ / m e
~0 8 nm
20 kJ / mo
le H OH
O 0.2 nm
8 H In an iso ed, H-bon
dedpa of wat r mol cu , bot
arefreeto rot abo theH b
A CPK model of 5 water molecules H-bonded in the typical tetrahedral lattice structure of
ice. 1 of 4 Bio 20A-M. Dalbey WATER (Chapter 2) 1/7/09 Important properties of water
• Cohesion, Adhesion ("Surface Tension"; "Capillary Action") and Elasticity
• Specific Heat
• Heat of Vaporization
• Expansion on Freezing
• *Solvent Properties
• *Ionization pH
Buffering • *Reactivity (hydrolysis / dehydration; oxidation / reduction)
• Supercooling (not mentioned in the text)
* Denotes those properties most important for Bio 20A. Other properties are more germane
to ecology and physiology.
The properties listed above should be understood as manifestations of the difference in
electronegativities between Hydrogen and Oxygen, leading to polarity of the water molecule
and to intermolecular Hydrogen Bonding.
The structure of liquid water is sometimes said to contain "flickering microclusters" of ice.
Liquid water is somewhere between an ideal liquid and ideal crystal in that it has about 3040% of the H bonds of ice at 25° C.
WATER AS A SOLVENT
ions and polar molecules = hydrophilic
non-polar molecules = hydrophobic
If a non-polar molecule is surrounded by water molecules, the ability of the water
molecules to form hydrogen bonds to each other is diminished, and not compensated by
their ability to interact with the solute molecule (as would be the case if the solute were
polar or ionic). This amounts to forcing the water molecules into a more highly structured
arrangement; i.e. causes a decrease in entropy for the system. To minimize the entropy
decrease non-polar molecules tend to associate with each other rather than with the water
molecules. This is the physical basis of the so-called hydrophobic effect.
A nonpolar molecule in an aqueous environment decreases entropy.
DISSOCIATION OF WATER MOLECULES
Ionization of the water molecule can be viewed as an extreme manifestation of its polarity.
This is the basis for defining pH values.
2 of 4 Bio 20A-M. Dalbey WATER (Chapter 2) pH = log 1 ⎡H+ ⎤
⎣⎦ 1/7/09 = − log ⎡ H + ⎤
⎣⎦ " Neutral " pH = log 1 ⎡10−7 ⎤
⎦ =7 ACID/BASE CONCEPTS
2 e- Acceptor Arrhenius 1880's
2 e- Donor The Arrhenius concept is too limited because it fails to account for the properties of some
important functional groups , notably the amino group.
NH2 + H+
Base ↔ NH3
Acid The Lewis Acid/Base concept is useful in evaluating non-aqueous systems. This is not
often necessary in biochemistry.
For any acid/base dissociation: HA ↔ H+ + A- Buffers TheCar ate - Bic ona Buf er Sy
pKa= CO + H2O
Dioxide Carbonic Ac d
i 3.8 HCO3+
2 Wa r
te CO -2
Carbonate Can you use this to explain why laboratory di water usually has a pH of between 5 and 6?
Blood leaving the capillary circulation in the human lungs normally has a pH near value
7.6, while blood leaving capillary circulation in tissues has a pH value near 7.2. Can you
explain the basis for this difference in pH? 3 of 4 Bio 20A-M. Dalbey WATER (Chapter 2) 1/7/09 Suggested Problems from the TEXT Chapter 2
#6, 7, 8, 9
#4 4 of 4 ...
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This note was uploaded on 09/15/2011 for the course BIO 20a taught by Professor Dalby during the Spring '08 term at UCSC.
- Spring '08