Exam 1 Material Flashcards
Any substance that brings about a change in biologic function through its chemical actions
Drug
To modulate the biological activity of a receptor, a drug needs to
move to the location of the receptor and bind to it
A similar structure motif that drugs bind to when they bind to the same target, set of features similar between a group of molecules
Pharmacophore
Examples of pharmacophore
Fentanyl, naloxone, morphine
Structure activity relationship
Structure determines activity, can determine binding and membrane permeability
Properties determined from structure
Stereochemistry, solubility, ionization, hydrophobicity, size
Properties that affect biological activities
Permeability, target binding, metabolism, excretion
Drug property affected by pH
ionization
Ionizable groups
Arylcarboxylic acid, arylamine, aromatic amine, alkyl carboxylic acid, alkyl amine, phenol, guanidine
Henderson hasselbach equation
pH=pKa+log [A]/[HA]
pH < pKa
protonated
pH > pKa
deprotonated
At pH 6.4 what is the ratio of drug in acid form to base form? pKa is 4.4
6.4=4.4+Log A/HA
=2 move 2 zeros
1:100
deprotonated, more base than acid
Modes of drug permeation into body
Intercellular junctions
Lipid cell membranes
Transporters
Endocytosis
Exocytosis
Hydrophilic groups
Alcohol, carboxylic acid, amine, ketone, amide, ester
Hydrophobic
Methyl, chloro, phenyl, hexyl, cyclohexyl
Less OH means more
hydrophobic
H bond donors
OH, NH
H bond acceptors
O, N
Lipinski’s rule of 5
Describes orally active drugs
No more than 5 H bonds
No more than 10 H acceptors
Molecule mass less than 500
LogP under 5
Predict effect of a structural change in a drug on its solubility in water
Lose OH, may no longer be soluble/orally active
LogP <0 favors ?
Water
LogP = 0 ?
Equal distribution
LogP > 0
Favors 1 octanol
bigger logP means
More hydrophobic
Explain why the relationship of drug effectiveness vs LogP is parabolic
Lipophilicity improves drug permeation but too much may hinder crossing
Calculate ClogP
Sum of Pi values
lower number means more acidic
Estimate LogD
LogD = LogP - (pH-pKa)
When pH is bigger than pKa it is first in equation
When are drugs most absorbed?
Where they are mostly neutral
Location with pH of 5-7
jejunum and duodenum
Location with pH 6-8
Illium
Location with pH 1-3
stomach
Can a quaternary amine be absorbed?
No, tubocurarine fine to eat not orally available
What makes electronic effects weaker
going through multiple bonds
Positive sigma value
Electron withdrawing, more acidic, lower pKa
Negative sigma value
electron donating, less acidic, higher pka
Meta position
diagonal
Para position
across
Ortho position
next to
Resonance effect
Ortho and para positions
Through pi bonds
Inductive effect
Ortho and para positions
Through sigma bonds
Only inductive effect
Meta position
electron donating
Negative sigma value, increase pKa, decrease acidity
Electron withdrawing
Have unshared electron pair, ortho para directing
Fluorine characteristic
Metabolism resistant
Isoteres
similar shapes and electronic effects
H and F
Stereoisomers
Mirror images, 1+ chiral centers, same properties except for optimal rotation
R/S
Absolute configuration, 3D arrangement, primary method
d/l
Optimal rotation, experimentally determined, dependent on solution conditions
D/L
Relative configuration to glyceraldehyde, only for amino acids and sugars
S notation
Counter clockwise
R notation
clockwise
The more potent
the more interactions with receptors needed
List factors other than receptor binding that result in different biological properties of drug enantiomers
Permeation by transporters
Nonspecific binding to serum proteins
Metabolism
Issues of racemic drugs
Separation is difficult and costly
inactive is physiologically inert
Enantiomers
non superimposable mirror images
Diastereomers
not mirror images
Geometric isomers
have double bonds cis z and trans e
KD value at 1
100% occupied
KD value at 0
0% occupied
DeltaGD=-RTlnKD
R = gas constant 8.314
T = temp in kelvin
Change in KD from deltaGD
Reduce KD 10 fold, add 1.4 to G
Hydrophobic interactions
Between nonpolar groups in water
Electrostatic interactions
+ and - , long distances
Hydrogen bonding
O and N with H in middle
Aromatic ring interactions
Faces electron rich
Edges electron deficient
Pi stacking, T stacking
Atorvastatin and HMG-CoA reductase
Hydrophobic interaction
QSAR
Mathematical, correlation between structure and activities
Derived by statistical regression
Receptor info not needed
QSAR structural descriptors
Logp, LogD, MW, pKa
QSAR structural descriptors
Logp, LogD, MW, pKa
pi values, sigma values, size
Lead identification approaches
natural products, anti-metabolites, structure based drug design, high throughput screen, in silico drug screening
Lead optimization approaches
Structure based drug design, QSAR, isoteric replacement, prodrug
Antimetabolites
analogs of endogenous metabolites
resemble and essential metabolite and competes with the metabolite in physiological reactions
Structure based drug design
design drug based on 3D structure, zanamivir
Bio isotere use
Improve pharmacokinetics, selectivity, reduce side effects, simplify synthesis process, avoid patient issues
Prodrugs
Inactive or carrier form of a drug that is transformed in vivo, prolong/shorter duration of action, get drug to site, formulation process, decrease toxicity