Basic Civil Engineering first year Notes- Chapter 4 Building.pptx
Proteins
1. PROTEINS
Dr. Daxaben N. Mehta
Principal
Smt. Sadguna C.U.Shah Home Science and
C. U. Shah Arts & Commerce Mahila College,
Wadhwancity, Dist: Surendranagar
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Proteins
2. Proteins
• We need protein to build our muscles.
• Even our hair and nails need protein.
• We get protein from
meat, poultry, eggs, cheese, and
beans.
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Proteins
3. Proteins
(Greek = “of first importance”)
Functions:
Structure - skin, bones, hair, fingernails
Catalysis - biological catalysts are
enzymes
Movement - muscle: actin and myosin
Transport - hemoglobin, transport thru
membranes
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Proteins
4. Proteins
Functions:
Hormones - insulin, oxytocin, etc.
Protection - antigen-antibody reactions,
fibrinogen in clotting
Storage - casein in milk, ovalbumin in
eggs, ferritin in liver-stores iron
Regulation - control in expression of genes
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Proteins
5. Proteins
• Protein types:
9000 different proteins in a cell
Individual human being >100,000 different
Fibrous Protein Insoluble in H2O
• Used mainly for structural purposes
Globular Protein Partly soluble in H2O
• Usually not used for structural purposes
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Proteins
6. Proteins Natural Polymers
• Proteins are constructed in the body from many
repeating units call amino acids
• Just like other polymers the amino acids
(monomers) are joined together to make long
chains (polymers) – but we call them proteins
instead
• All of the polymer information applies to proteins
– cross linking, rings, polarity etc
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Proteins
7. Amino Acids
• The Building Blocks of proteins Contains an
amino group and an acid group Nature
synthesizes about 20 common AA All but one
(proline) fit this formula:
AA Proline:
H
COOH
N
H
proline
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R
C
COOH
NH 2
Proteins
8. Amino Acids
• Amino Acids (AA)
The twenty common are Called alpha amino
acids
One and three letter codes given to 20 common
AA
All but glycine (where R=H)
H
exist as a pair of enantiomers
R C COOH
• nature usually produces the
L amino acid
NH 2
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Proteins
9. Amino Acids
• Amino Acids (AA)
Sometimes classified
as AA with:
• nonpolar R groups
• polar but neutral R groups
• acidic R groups
• basic R groups
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Proteins
16. Zwitterions
• Zwitterion = compound where both a
positive charge and a negative charge
exist on the same molecule
• AA are ionic compounds
• They are internal salts
• In solution their form changes
depending on the pH
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Proteins
AA’s
17. Zwitterions
pH = 1-5
pH = 10-14
more acidic
more basic
excess H+
excess OH-
H
R
C
H
H
COOH
NH 3
+
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R
C
COO-
R
NH 3 +
C
COO-
NH 2
Proteins
AA’s
18. Zwitterions
pH = 1-5
pH = 10-14
more basic
more acidic
excess H+
H
R
C
COOH
NH 3 +
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at pI
(isoelectric
point)
charge = 0
H
R
C
excess OHH
R
COO-
NH 3
C
COO-
NH 2
+
Proteins
AA’s
19. pI
• The pI is the “isoelectric point”
• The pI is the pH where
NO charge is on the AA:
(Not necessarily
at a neutral pH)
at pI
charge = 0
H
R
C
COO-
NH 3 +
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Proteins
20. Cysteine
• The AA Cysteine exists as a dimer:
H
2
HS
CH 2 C
[O]
COOH
[H]
NH 2
cysteine
H
HCOO
C
H
CH 2 S S
NH 2
CH 2 C
COOH
NH 2
cystine
a disulfide linkage
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Proteins
AA’s
21. Peptides
• AA are also called peptides
• They can be combined to form...
H
H 2N
O
CH 3 O
CH C OH + H 2 N CH C OH
glycine
alanine
-H 2 O
AA’s
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Proteins
22. Peptides
• A dipeptide.
H
H 2N
O
CH C OH
CH 3 O
+ H 2N
glycine
CH
-H 2 O
C OH
alanine
H
H 2N
O
CH C
CH 3 O
NH CH
a peptide bond
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Proteins
C OH
23. Peptides
• Known as a “dipeptide”
H
H 2N
amine
end
O
CH
C
CH 3 O
NH CH
a peptide bond
C OH
acid
end
glycylalanine (Gly-Ala), a dipeptide
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Proteins
24. Peptides
• Addition of peptides (head to tail)
Formation of:
• dipeptides
• tripeptides
• tetrapeptides
• pentapeptides
• polypeptides
• Proteins
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Proteins
AA’s
25. Proteins
• Proteins usually contain about 30+ AA
• AA known as residues One letter
abbreviations G, A, V, L
Three letter abbreviations
• Gly, Ala, Val, Leu
• N terminal AA (amine end) on LEFT
• C terminal AA (carboxyl end) on RIGHT
glycylalanine
Gly-Ala G-A
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Proteins
AA’s
27. Solubility
• Polypeptides or Proteins
If there is a charge on a polypeptide, it
is more soluble in aqueous solution
If there is No charge (neutral at pI), it
is Least soluble in solution
H
R
C
H
COOH
charged
R
NH 3 +
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C
COO-
NH 2
Proteins
28. Protein Structure
• Primary Structure
1o
Linear sequence of AA
• Secondary Structure
2o
Repeating patterns ( helix, pleated sheet)
• Tertiary Structure
3o
Overall conformation of protein
• Quaternary Structure
4o
Multichained protein structure
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Proteins
29. Protein Structure
• Primary Structure
Linear sequence of AA
R
R
R
1o
R
R
R
N
CH C
N
CH C
N
CH C
N
CH C
N
CH C
N
CH C
H
O
H
O
H
O
H
O
H
O
H
O
AA 1
AA 2
AA 3
AA 4
AA 5
With any 6 AA residues,
the number of possible combinations is
6 x 6 x 6 x 6 x 6 x 6 = 46656
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Proteins
AA 6
AA’s
30. Protein Structure
• Primary Structure
R
R
R
R
R
R
N CH C
N CH C
N CH C
N CH C
N CH C
N CH C
H
H
H
H
H
H
O
AA 1
O
AA 2
AA 3
O
O
AA 4
O
AA 5
O
AA 6
With any 6 of the 20 common AA residues,
the number of possible combinations is
20 x 20 x 20 x 20 x 20 x 20 = 64,000,000
(and this is not nearly large enough to be a protein!)
AA’s
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Proteins
31. Protein Structure
• Primary Structure
A typical protein could have 60 AA residues.
This would have 2060 possible primary
sequences.
2060 = 1078
This results in more possibilities for this
small protein than there are atoms in the
universe!
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Proteins
32. Protein Structure
• Primary Structure
Sometimes small
changes in the 1o
structure do not alter
the biological
function, sometimes
they do.
AA’s
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Proteins
33. Changes and Effect
of AA change
• Cattle and hog insulin is used for
humans but is different
• Sickle cell anemia – only one change in
an amino acid –
changes the hemoglobin
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Proteins
34. Protein Structure
• Secondary Structure
Repeating patterns
within a region
Common patterns
helix
pleated sheet
Originally proposed by
• Linus Pauling
• Robert Corey
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AA’s
Proteins
35. Protein Structure
• Secondary Structure
Helix Single protein
chain Shape maintained
by intramolecular H
bonding between -C=O
and H-NHelical shape helix is
clockwise
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AA’s
Proteins
36. Protein Structure
• Secondary Structure
pleated sheet Several
protein chains Shape
maintained by
intramolecular H bonding
and other attractive forces
between chains Chains run
anti-parallel
and make U turns at ends
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AA’s
Proteins
37. Protein Structure
• Secondary Structure
• Random Coils
Few proteins have
exclusively helix or
pleated sheet
Many have nonrepeating
sections called:
Random Coils
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AA’s
Proteins
38. Collagen Protein Structure
• Secondary Structure
• Triple Helix of Collagen
Structural protein of
connective tissues
• bone, cartilage, tendon
• aorta, skin
About 30% of human body’s
protein Triple helix units =
tropocollagen
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Proteins
AA’s
39. Tertiary Structure
The Three dimensional arrangement of every
atom in the molecule Includes not just the
peptide backbone but the side chains as well
These interactions are responsible for the overall
folding of the protein
This folding defies its function
and it’s reactivity
AA’s
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Proteins
40. Tertiary Structure
The Tertiary structure is formed by the
following interactions:
Covalent Bonds
Hydrogen Bonding
Salt Bridges
Hydrophobic Interactions
AA’s
Metal Ion Coordination
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Proteins
41. Tertiary Structure
Covalent Bonding
• The most common covalent
bond in forming the tertiary
structure is the disufide bond
• It is formed from the disulfide
Interaction of cysteine
H
2
HS
CH 2 C
H
[O]
HCOO
COOH
[H]
NH 2
cysteine
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H
C CH 2 S S
NH 2
CH 2 C
COOH
NH 2
cystine
Proteins
42. Tertiary Structure
Hydrogen Bonding
• Anytime you have a hydrogen
connected to a F O of N – you
can get hydrogen bonding
• These interactions can occur on
the side chain, backbone or
both
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Proteins
43. Tertiary Structure
Salt Bridge
• Salt bridges are due to charged portions
of the protein.
• Opposite charges will attract and
Form ionic bonds
• Some examples are the
NH3+ and COO- areas of the
protein
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Proteins
44. Tertiary Structure
hydrophobic interactions
• Because the nonopolar groups will turn
away from the water and the polar
groups toward it, hydrophobic
interactions take place.
• These interactions are strong
enough to help define the
overall structure of a protein
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Proteins
45. Tertiary Structure
Metal Ion Coordination
• Two side chains with the same charge
would normally repel each other
• However, if a metal is placed between
them, they will coordinate to the metal
and be connected together.
• These metal coordinations are
Important in tertiary structure
formation
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Proteins
47. Quaternary Structure
Highest level of organization
Determines how
subunit fit together
Example Hemoglobin
(4 sub chains)
• 2 chains 141 AA
• 2 chains 146 AA
- Example - Collagen
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Proteins
50. Denaturation
• Any physical or chemical agent that destroys
the conformation of a protein is said to
“denature” it
Examples:
• Heat (boil an egg) to gelatin
• Addition of 6M Urea (breaks H bonds)
• Detergents (surface-active agents)
• Reducing agents (break -S-S- bonds)
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Proteins
51. Denaturation
• Denaturation
Examples:
• Acids/Bases/Salts (affect salt bridges)
• Heavy metal ions (Hg2+, Pb2+)
Some denaturation is reversible
• Urea (6M) then add to H2O
Some is irreversible
• Hard boiling an egg
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Proteins