Title: Pharmacy 610
1Pharmacy 610
- Challenges in Peptide Protein Formulation
Delivery - David Wishart
- david.wishart_at_ualberta.ca
- Rm. 2123 DPC
2Outline (Part I)
- Protein Structure (Review)
- Protein Energetics (without H2O)
- Protein Energetics (with H2O)
- Water Structure
- The Hydrophobic Effect
- Hydrogen Bonding and the Hydrogen Bond Myth
3Proteins
- Polypeptides composed of covalently linked amino
acids - Polypeptides with lt40 amino acids are called
peptides - Polypeptides with gt40 amino acids are called
proteins - Function of a protein determined by its
non-covalent 3D structure
4Amino Acids
5Glycine and Proline
H
C
C
COOH
H2N
COOH
HN
H
H
P
G
6Aliphatic Amino Acids
CH3
CH3
CH3
CH3
V
I
C
C
COOH
H2N
COOH
H2N
H
H
CH3
CH3
CH3
A
L
C
COOH
H2N
C
COOH
H2N
H
H
7Aromatic Amino Acids
N
N
N
W
H
C
C
COOH
H2N
COOH
H2N
OH
H
H
Y
F
C
C
COOH
H2N
COOH
H2N
H
H
8Charged Amino Acids
H
-
COO
N
NH3
D
R
C
NH
COOH
H2N
C
H
NH3
COOH
H2N
-
COO
H
E
K
C
C
COOH
H2N
COOH
H2N
H
H
9Polar Amino Acids
OH
CH3
CONH2
N
T
C
C
COOH
H2N
COOH
H2N
H
H
CONH2
OH
Q
S
C
C
COOH
H2N
COOH
H2N
H
H
10Sulfo-Amino Acids
CH3
S
SH
C
C
COOH
H2N
COOH
H2N
H
H
M
C
11Polypeptides
12Levels of Protein Structure
13Protein Structure
14Protein Energetics (without water)
15Newtonian Approximation
- Proteins can be treated as hard spheres with
spring-like bonds and partial charges
16Standard Energy Function
E
Kr(ri - rj)2 Kq(qi - qj)2 Kf(1-cos(nfj))2
qiqj/4perij Aij/r6 - Bij/r12 Cij/r10 -
Dij/r12
Bond length Bond bending Bond torsion Coulomb van
der Waals H-bond
17Energy Terms
r
f
q
Kr(ri - rj)2
Kq(qi - qj)2
Kf(1-cos(nfj))2
Stretching Bending
Torsional
18Energy Terms
r
r
r
qiqj/4perij
Aij/r6 - Bij/r12
Cij/r10 - Dij/r12
Coulomb van der Waals H-bond
19Standard Energy Function
E
Kr(ri - rj)2 Kq(qi - qj)2 Kf(1-cos(nfj))2
qiqj/4perij Aij/r6 - Bij/r12 Cij/r10 -
Dij/r12
Kr 600 kcal/Mol/A2 Kq 60 kcal/Mol/rad2 Kf 1
kcal/Mol/rad2 5 kcal/Mol 0.1 kcal/Mol 1-3
kcal/Mol
20An Energy Surface
High Energy
Low Energy
Overhead View Side View
21A More Realistic Protein Energy Surface
The Folding Funnel
22Standard Energy Functions
- Standard energy functions are incapable of
explaining many of the key stabilizing features
or proteins - Furthermore, these functions are incapable of
distinguishing completely incorrect protein folds
from completely correct folds - SOMETHING IS MISSING..
23Protein Energetics (with water)
24Water
25Water Structure
- Water has four near- tetrahedrally arranged,
sp3-hybridized electron pairs - Two are associated with the hydrogen atoms
(positive charges) - Two are lone pairs from the oxygen atom (negative
charges)
26Water Structure
- Liquid water will form transient, short-lived
supramolecular structures or hydrogen bond
networks - Small clusters of four water molecules may come
together to form what are called bicyclo-octamers
27Water Structure
- These bicyclo-octamers may cluster with each
other to form highly symmetric 280-molecule
icosahedral water clusters that are able to
interlink and tessellate throughout space
28Water Structure is Responsible For...
- Unusually high boiling point (100 oC vs. -10 oC
for NH3) - Unusually high melting point for ice (0 oC vs
-160 oC for liquid O2) - a density maximum while liquid
- High surface tension (73 erg/cm2 vs 25 erg/cm2
for EtOH) - Negative volume of melting (ice shrinks on
melting) - High dielectric constant (78.5)
29Water Structure
- Can be perturbed by the presence of anions or
cations which will form hydration shells and
alter the preferred network of H bonds - Can be perturbed by the presence of hydrophobic
organic molecules which create clathrate cages
or cavities in water (i.e. break H bonds)
30The Hoffmeister Series
- Developed by Hoffmeister in 1888 from the ranking
of various ions toward their ability to
precipitate a mixture of hen egg white proteins
31Ions in Water
- Ions break up the natural hydrogen bonding
structure of H2O (equivalent to heating or
pressurizing) - Net effect is reduced viscosity
- Chaotropes or denaturants disrupt H2O structure
(weak H2O interactions) - Kosmotropes or stabilizers enhance H2O structure
(strong H2O interactions)
32Sulfate Hydration Shell
Kosmotrope
Symmetrical dodecahedral arrangement of 16 water
molecules
33Protein Stability
- Optimum stabilization of peptides and proteins by
salt requires a mixture of a kosmotropic anion
with a chaotropic cation.
34Water Structure
- Can be perturbed by the presence of anions or
cations which will form hydration shells and
alter the preferred network of H bonds - Can be perturbed by the presence of hydrophobic
organic molecules which create clathrate cages
or cavities in water (i.e. break H bonds)
35Clathrate Cages
Choline Fragments in Water Cages
36Outline (Part I)
- Protein Structure (Review)
- Protein Energetics (without H2O)
- Protein Energetics (with H2O)
- Water Structure
- The Hydrophobic Effect
- Hydrogen Bonding and the Hydrogen Bond Myth
37The Hydrophobic Effect
- Phenomenological effect describing the
insolubility of non-polar atoms and molecules in
water (separation of oil and water) - Arises from the energetic cost of disrupting
water structure (breaking hydrogen bonds to form
clathrates) - Often called an entropic effect
38The Hydrophobic Effect
Water Cavity Formation
Filling With Solute
DG -TDS DH
39Cavity Formation
DGdis -TDS 15cal/mol A2
40Cavity Formation
- Water is an elastic solvent or liquid
- Energy of forming a cavity is equal to the
surface tension (g) of the solvent multiplied by
the change in surface area (DA) to accommodate
the solute
DG gDA
41Cavity Formation
- The cost of creating cavities in water is the
reason that round oil droplets form when
oil/vinegar dressing is shaken -- spheres allow
the maximum volume to be housed in the minimum
surface area - This explains why proteins are essentially
densely packed spheres
42Protein Packing
Loose Packing Dense Packing Protein
Proteins are Densely Packed
43Radius Radius of Gyration
- RAD 3.875 x NUMRES 0.333 (Folded)
- RADG 0.41 x (110 x NUMRES) 0.5 (Unfolded)
Radius Radius of Gyration
44Effective Surface Tension
- While the surface tension in water is supposed to
be constant (at constant T, P or salt
concentration) we can speak of effective
surface tension for specific types of solutes or
atoms
g(C/S) 16 cal/mol Å2
g(N) -50 cal/mol Å2
g(N/O) -6 cal/mol Å2
g(O-) -24 cal/mol Å2
45The Hydrophobic Effect and Surface Tension
- This microscopic surface tension approach allows
one to calculate the Free Energy of dissolving a
complex molecule (composed of polar and nonpolar
atoms) into water - It can also be used to calculate the
stabilization energy of proteins (at room
temperature)
46Protein Polar and Nonpolar Surface Area
Nonpolar (C/S) Polar (N or N) Polar (O or O-)
47Accessible Surface Area
Reentrant Surface
Accessible Surface
Solvent Probe
Van der Waals Surface
48Accessible Surface Area
Reentrant Surface
Accessible Surface
Solvent Probe
Van der Waals Surface
49Accessible Surface Area (ASA)
- If proteins were perfect spheres then ASA V0.66
- Approximate ASA ASA 7.11 x MW
0.718 - ASA of unfolded protein ASA(U) S AAi x ASAi
- Buried Surface Area BASA ASA(U) - ASA
50Buried Surface Area (BASA) Fractional Burial
(FB)
- For an average protein
- ASA (NP) 0.35 x BASA
- ASA (P) 0.61 x BASA
- ASA (Q) 0.04 x BASA
- BASA can be estimated from a proteins amino acid
composition BASA S AAi x FBi
51Free Energy of Folding
- Using these values or measurements derived from
programs to calculate surface areas of molecules
it is possible to calculate the energy required
to fold (or unfold) a protein
Unfolded Folded
DG(N) -2440 kcal DG(C) 3245 kcal DG(O)
-1245 kcal
DG(N) -3245 kcal DG(C) 5280 kcal DG(O)
-2455 kcal
DG -20 kcal/M
52The Hydrophobic Effect
- Unlike the situation seen when protein structures
and energetics were modelled without water we can
see it is possible to roughly calculate protein
stabilization energies if water is properly
accounted for - The hydrophobic effect is often sufficient to
distinguish incorrect structures from correct
structures
53Protein Energetics
- When solvent effects are included we can see the
the energy of stabilization for proteins is
essentially a small difference between many large
terms - A small error in any one of these large terms
will lead to erroneous predictions -- this is
what makes it so difficult to calculate
energies for proteins and protein complexes
54Hydrophobic Effect and Temperature
- The free energy on going from the native (N)
state to the denatured (D) state is given by - Polar and nonpolar molecules respond differently
to temperature changes
55Thermal Effects
- Proteins can be denatured by either heat or by
cold - Most proteins are denatured at temperatures gt 50
oC - Some proteins are denatured at temperatures lt 5
oC - The optimum temperature for protein stability is
20-40 oC
56Electrostatic Effects
-
-
-
-
Water Cavity Formation
Filling With Solute
DG -TDS DH
57Born Free Energy
e2
radius a charge q
e1
e1
DG q2(1/e1 - 1/e2) ?40Z2/a kcal/mol
2a
58Born Free Energy
- The burial of charged or partially charged
molecules in a low dielectric region (interior of
a micelle, inside a protein) is energetically
unfavorable - The movement of a charged molecule from a low
dielectric region to a high dielectric region
(surface of a protein) is energetically favorable
59What About H-bonds?
60 61 Hydrogen Bonds In Proteins Form Dipoles
62Onsager (dipole) Free Energy
e2
radius a charge q dipole dis r
e1
e1
DG q2r (2e2 - 2e1)
(2e2 e1)
e1a3
63Onsager (dipole) Free Energy
- Substitution of standard dielectric values for
water (e2 80) and for the interior of a protein
(e1 4) yields a positive free energy - Formation of hydrogen bonds inside proteins in
unfavorable!!! - Hydrogen bonds are a consequence of protein
folding -- not a cause
64Folded Proteins...
- Maximize number of hydrogen bonds
- Maximize buried nonpolar ASA
- Maximize exposed polar ASA
- Minimize interstitial cavities or spaces
65Folded Proteins...
- Minimize number of bad contacts
- Minimize number of buried charges
- Minimize radius of gyration
- Minimize covalent and noncovalent (van der Waals
and coulombic) energies
66Conclusions (Part I)
- Proteins are unusually large molecules held
together by weak non-covalent forces - The most important of these forces is the
hydrophobic effect - The delicate balance between strong opposing
forces means that proteins can be difficult to
handle and formulate
67Outline (Part II)
- Protein Pharmaceuticals
- The Problem with Proteins
- Protein Drug Storage
- Protein Drug Formulation
- Protein Drug Delivery
- Novel and Emerging Methods
68Protein Pharmaceuticals
- gt100 FDA approved protein drugs
(http//www.bio.org/aboutbio/drugs.html) - gt80 are recombinant proteins
- Protein pharmaceutical sales currently approach
35 billion/yr - By 2004 they are expected to reach 43 billion/yr
69Classes of Protein Pharmacueticals
- Vaccines (peptides, parts of proteins, killed
bacteria) - Peptides (oxytocin, pitocin)
- Blood products (Factor X, Factor VIII, gamma
globulin, serum albumin) - Recombinant therapeutic proteins (herceptin,
humulin, alferon, etc.)
70Vaccines
- Diptheria (Corynebacterium diphtheriae) -
diptheria toxin - Tetanus (Clostridium tetani) - tetanus toxin
- Whooping cough (Bordetella pertussis) - acullelar
extract
Tetanus Toxin HC Fragment
71Protein Pharmaceuticals
- Insulin (diabetes)
- Interferon b (relapsing MS)
- Interferon g (granulomatous)
- TPA (heart attack)
72Protein Pharmaceuticals
- Actimmune (If g)
- Activase (TPA)
- BeneFix (F IX)
- Betaseron (If b)
- Humulin
- Novolin
- Pegademase (AD)
- Epogen
- Regranex (PDGF)
- Novoseven (F VIIa)
- Intron-A
- Neupogen
- Pulmozyme
- Infergen
73The Problem with Proteins
- Very large and unstable molecules
- Structure is held together by weak noncovalent
forces - Easily destroyed by relatively mild storage
conditions - Easily destroyed/eliminated by the body
- Hard to obtain in large quantities
74The Problem with Proteins(in vivo - in the body)
- Elimination by B and T cells
- Proteolysis by endo/exo peptidases
- Small proteins (lt30 kD) filtered out by the
kidneys very quickly - Unwanted allergic reactions may develop (even
toxicity) - Loss due to insolubility/adsorption
75(No Transcript)
76The Problem with Proteins(in vitro - in the
bottle)
Noncovalent Covalent
- Denaturation
- Aggregation
- Precipitation
- Adsorption
- Deamidation
- Oxidation
- Disulfide exchange
- Proteolysis
77Noncovalent Processes
Denaturation Adsorption
78Noncovalent Processes
Aggregation Precipitation
79Noncovalent Processes
- Almost all non-covalent processes or protein
pharmaceutical inactivation arise because of
hydrophobic interactions -- either between the
protein and the bottle or between the protein
and other proteins - Recall the hydrophobic effect and the Hoffmeister
series
80Monitoring Denaturation and/or Aggregation
81Monitoring Denaturation and/or Aggregation
82Covalent Processes
- Deamidation - conversion of Asn-Gly sequences to
a-Asp-Gly or b-Asp-Gly - Oxidation - conversion RSR to RSOR, RSO2R or
RSO3R (Met Cys) - Disulfide exchange - RS- RS-SR goes to
RS-SR RS- (Cys) - Proteolysis - Asp-Pro, Trypsin (at Lys) or
Chymotrypsin (at Phe/Tyr)
83Deamidation
84Proteolysis
Serine Protease Catalytic Triad
85Monitoring Covalent Modifications In Proteins
86Monitoring Covalent Modifications In Proteins
87How to Deal with These Problems?
Storage
Formulation
Delivery
Pharmaceutics
88Storage - Refrigeration
- Low temperature reduces microbial growth and
metabolism - Low temperature reduces thermal or spontaneous
denaturation - Low temperature reduces adsorption
- Freezing is best for long-term storage
- Freeze/Thaw can denature proteins
89Storage - Packaging
- Smooth glass walls best to reduce adsorption or
precipitation - Avoid polystyrene or containers with silanyl or
plasticizer coatings - Dark, opaque walls reduce hn oxidation
- Air-tight containers or argon atmosphere reduces
air oxidation
90Storage - Additives
- Addition of stabilizing salts or ions (Zn for
insulin) - Addition of polyols (glycerol and/or polyethylene
glycol) to solubilize - Addition of sugars or dextran to displace water
or reduce microbe growth - Use of surfactants (CHAPS) to reduce adsorption
and aggregation
91Storage - Freeze Drying
- Only cost-effective means to prepare solid,
chemically active protein - Best for long term storage
- Removes a considerable amount of water from
protein lattice, so much so, that some proteins
are actually deactivated
92Freeze Drying
- Freeze liquid sample in container
- Place under strong vacuum
- Solvent sublimates leaving only solid or
nonvolatile compounds - Reduces moisture content to lt0.1
93Sublimation vs. Melting
94Protein Pharmaceutics
Storage
Formulation
Delivery
95The Problem with Proteins(in vivo)
- Elimination by B and T cells
- Proteolysis by endo/exo peptidases
- Small proteins (lt30 kD) filtered out by the
kidneys very quickly - Unwanted allergic reactions may develop (even
toxicity) - Loss due to insolubility/adsorption
96Protein Formulation
- Protein sequence modification (site directed
mutagenisis) - PEGylation
- Proteinylation
- Microsphere/Nanosphere encapsulation
- Formulating with permeabilizers
97Site Directed Mutagenesis
E343H
98Site Directed Mutagenesis
- Allows amino acid substitutions at specific sites
in a protein - i.e. substituting a Met to a Leu will reduce
likelihood of oxidation - Strategic placement of cysteines to produce
disulfides to increase Tm - Protein engineering (size, shape, etc.)
99PEGylation
CH-CH-CH-CH-CH-CH-CH-CH-CH-CH
OH OH OH
OH OH OH OH OH OH OH
100PEGylation
- PEG is a non-toxic, hydrophilic, FDA approved,
uncharged polymer - Increases in vivo half life (4-400X)
- Decreases immunogenicity
- Increases protease resistance
- Increases solubility stability
- Reduces depot loss at injection sites
101Proteinylation
Protein Drug ScFv (antibody)
102Proteinylation
- Attachment of additional or secondary
(nonimmunogenic) proteins for in vivo protection - Increases in vivo half life (10X)
- Cross-linking with Serum Albumin
- Cross-linking or connecting by protein
engineering with antibody fragments
103Microsphere Encapsulation
100 mm
104Encapsulation
- Process involves encapsulating protein or peptide
drugs in small porous particles for protection
from insults and for sustained release - Two types of microspheres
- nonbiodegradable
- biodegradable
105Types of Microspheres
- Nonbiodegradable
- ceramic particles
- polyethylene co-vinyl acetate
- polymethacrylic acid/PEG
- Biodegradable (preferred)
- gelatin
- polylactic-co-glycolic acid (PLGA)
106Microsphere Release
- Hydrophilic (i.e. gelatin)
- best for burst release
- Hydrophobic (i.e. PLGA)
- good sustained release (esp. vaccines)
- tends to denature proteins
- Hybrid (amphipathic)
- good sustained release
- keeps proteins native/active
107Release Mechanisms
108Peptide Micelles
109Peptide Micelles
- Small, viral sized (10-50 nm) particles
- Similar to lipid micelles
- Composed of peptide core (hydrophobic part) and
PEG shell (hydrophilic part) - Peptide core composition allows peptide/protein
solubilization - Also good for small molecules
110Peptide Synthesis
111Peptide-PEG monomers
Hydrophobic block
Hydrophilic block
Peptide
PEG
CH-CH-CH-CH-CH-CH-CH-CH-CH-CH
OH OH OH
OH OH OH OH OH OH OH
112Peptide Micelles
113Targeted Micelles
114Nanoparticles for Vaccine Delivery to Dendritic
Cells
- Dendritic Cells -sentries
- of the body
- Eat pathogens and present
- their antigens to T cells
- Secret cytokines to direct
- immune responses
115Nanoparticles for Vaccine Delivery
- Mimic pathogen surface characteristics
- Antigen for controlled delivery within Dendritic
Cells - Selective activation of cytokine genes in
Dendritic Cells - Applications in Therapeutic Vaccines (e.g.,
cancer, AIDS, HBV, HCV)
116Polymeric Nanoparticle Uptake by Human DCs
Confocal Image
117Permeabilizers (Adjuvants)
- Salicylates (aspirin)
- Fatty acids
- Metal chelators (EDTA)
- Anything that is known to punch holes into the
intestine or lumen
118Protein Formulation
- Protein sequence modification (site directed
mutagenisis) - PEGylation
- Proteinylation
- Microsphere/Nanosphere encapsulation
- Formulating with permeabilizers
119Protein Pharmaceutics
Storage
Formulation
Delivery
120(No Transcript)
121Routes of Delivery
- Parenteral (injection)
- Oral or nasal delivery
- Patch or transdermal route
- Other routes
- Pulmonary
- Rectal/Vaginal
- Ocular
122Parenteral Delivery
- Intravenous
- Intramuscular
- Subcutaneous
- Intradermal
123Parenteral Delivery
- Route of delivery for 95 of proteins
- Allows rapid and complete absorption
- Allows smaller dose size (less waste)
- Avoids first pass metabolism
- Avoids protein unfriendly zones
- Problems with overdosing, necrosis
- Local tissue reactions/hypersensitivity
- Everyone hates getting a needle
124Oral Insulin
125Oral Insulin
- Bucchal aerosol delivery system developed by
Generex - Insulin is absorbed through thin tissue layers in
mouth and throat - Insulin is formulated with a variety of additives
and stabilizers to prevent denaturation on
aerosolization and to stabilize aerosol particles
126Oral Delivery by Microsphere
pH 2 pH 7
127pH Sensitive Microspheres
- Gel/Microsphere system with polymethacrylic acid
PEG - In stomach (pH 2) pores in the polymer shrink and
prevent protein release - In neutral pH (found in small intestine) the
pores swell and release protein - Process of shrinking and swelling is called
complexation (smart materials)
128Patch Delivery
129Mucoadhesive Patch
- Adheres to specific region of GI tract
- Ethylcellulose film protects drugs from
proteolytic degradation - Composed of 4 layers
- Ethylcellulose backing
- Drug container (cellulose, citric acid)
- Mucoadhesive glue (polyacrylic acid/PEG)
- pH Surface layer (HP-55/Eudragit)
130Patch Delivery
131GI-MAPS Layers
- pH sensitive surface layer determines the
adhesive site in the GI tract - Gel-forming mucoadhesive layer adheres to GI
mucosa and permits controlled release - may also
contain adjuvants - Drug containing layer holds powders, dispersions,
liquids, gels, microspheres, - Backing layer prevents attack from proteases and
prevents luminal dispersion
132Transdermal Patches
133Transdermal Patches
- Proteins imbedded in a simple matrix with
appropriate additives - Patch is coated with small needles that penetrate
the dermal layer - Proteins diffuse directly into the blood stream
via capillaries - Less painful form of parenteral drug delivery
134The Future
- Greater use of Nanotechnology in biopharmaceutics
(nanopharm) - Using cells as Protein Factories or as
targetable Nanosensors Nanorobots - Artificial or Synthetic Cells as drug delivery
agents
135Smat Pills (Nano-Robots)
Unlikely Likely
136Micromachined Biocapsules
Artificial Islet Cells - Tejal Desai (UI)
137Micromachining
- Uses photolithography or electron beam etching to
carved small (5 nm) holes into metal (titanium)
plates - Porous plates are placed over small metal boxes
containing islet cells - Insulin (2 nm) leaks out through diffiusion, but
antibodies are too big (10 nm) to get in
138Biocapsules
139Summary
- Protein pharmaceuticals are (and will be) the
most rapidly growing sector in the pharmaceutical
repertoire - Most cures for difficult diseases (Alzheimers,
cancer, MS, auto-immune diseases, etc.) will
probably be found through protein drugs
140Summary
- BUT Proteins are difficult to work with
- Most protein delivery is via injection
- Newer methods are appearing
- Oral delivery using smart materials is looking
promising - By 2010 many protein drugs will be taken orally
141Protein Prodrugs
142Ricin
Ribotoxin (A chain)
Lectin (B chain)
143Ricin Toxin (A chain)
144Ricin Activiation
- Ricin is not catalytically active until it is
proteolytically cleaved. This splits the
polypeptide into the A chain and the B chain
still linked by a single disulfide bond. Inside
the cell this disulfide bond is reduced and leads
to the generation of a free A chain
145Ricin Uptake
- (1-3) Ricin taken up by endocytosis via coated
pits and vesicles - (4-6) Ricin moved intracellularly and some
excreted - 7 Ricin released into cytosol