polysaccharides glycosides nucleic acids shikimate pathway aromatic compounds lignans aromatic amino...
TRANSCRIPT
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PolysaccharidesGlycosidesNucleic Acids
Shikimate pathwayAromatic CompoundsLignans
aromatic amino acidsaliphatic amino acids
CH3COSCoA
CH3COSCoA
(photosynthesis)
phosphoenol pyruvate
pyruvate
acetylCoA CH3COSCoA
-O2CCH2COSCoA
CH3COSCoA
Polyketides, Fatty Acids Prostaglandins, Macrocyclic Antibiotics
Shikimate
CH3COCH2COSCoA
mevalonate
Isoprenoids (terpenes,steroids, carotenoids)
AlkaloidsPeptidesPenicillinsCyclic Peptides
CITRICACIDCYCLE
(3)
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(3) Mevalonate Terpenes, Steroids
-- made from 5-carbon units
-pinene (C10) cholesterol (missing 3 C’s)
phytane (C20)
(3) Isoprene pathway: Terpenes
- C6 compound that loses CO2
to form C5 units
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Isoprene Biosynthesis
DMAP IPP
- Result: two isomeric 5-carbon molecules, IPP + DMAP
- Pyrophosphates: high-energy group powers biosynthetic rxns.. “nature’s leaving group”
decarboxylates to yield IPP
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Biosynthesis of Monoterpenes (C10)
rearranged to form sesquiterpenes (C15)
Geranyl pyrophosphate (C10)
Farnesyl pyrophosphate (C15)
Prenyl transferase +
DMAP IPP
-OR-
Cyclase enzymes
cyclic monoterpenes (C10)
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Biosynthesis of Monoterpenes (C10)
(1) DMAP ionizes to form electrophilic carbocation
(2) Nucleophilic attack by IPP forms geranyl-PP
(3) Stereospecific loss of HR, forming double bond
(4) Geranyl-PP ionizes, rearranges to form a carbocation intermediate
- Cyclic monoterpenes then form via enzyme-catalyzed stereospecific rearrangements, functionalizations
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thujone
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(+)-carvone = caraway seed(-)-carvone = spearmint
(+)-limonene = oranges(-)- limonene = lemons
Most cyclic monoterpenes have a distinctive odor - basis of perfume & flavor industries
Stereoisomers have different characteristic smells - demonstrates that smell receptors are 3D proteins, i.e. chiral environments that can distinguish enantiomers
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Biosynthesis of Sesquiterpenes (C15)
rearranged to form sesquiterpenes (C15)
Geranyl pyrophosphate (C10)
Farnesyl pyrophosphate (C15)
Prenyl transferase +
DMAP IPP
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Biosynthesis of Sesquiterpenes (C15)
rearranged to form sesquiterpenes (C15)
Geranyl pyrophosphate (C10)
Farnesyl pyrophosphate (C15)
Prenyl transferase +
DMAP IPP
- if you introduce a labeled carbon in the precursor, you can see where it ends up in the final natural product
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Biosynthesis of Sesquiterpenes (C15)
rearranged to form sesquiterpenes (C15)
Geranyl pyrophosphate (C10)
Farnesyl pyrophosphate (C15)
Prenyl transferase +
DMAP IPP
- if you introduce a labeled carbon in the precursor, you can see where it ends up in the final natural product
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Labeling studies in Biosynthesis 1
Using isotopically enriched precursors, it is possible to trace the incorporation of building blocks into complex metabolites
- follow the label and see which atoms in the natural product end up labeled
Originally done with radioactive labels (14C, 3H)
- feed cells a precursor with one 14C
- use chemical degradation to break natural product apart, see which pieces contain the radioactivity
- drawback: sloppy, usually not possible to completely determine biosynthetic route
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Labeling studies in Biosynthesis 2Now done by NMR using non-radioactive isotope 13C
- common carbon isotope 12C is invisible to NMR
- rare 13C has nuclear spin I = n/2, so is detectable by NMR
- feed cells a precursor with one position 13C labeled; then see which positions show exaggerated peaks in the carbon NMR spectrum
since only 1% of carbons are naturally 13C, the positions that incorporate the label will give much higher peaks
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13C NMR spectrum of compound 2, after feeding sea slug with [2-13C] mevalonate - increased size of peaks shows label incorporation
Kubanek et al. JOC 1997
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- allowed researchers to infer biosynthetic pathway for these related C-23 and C-21 terpenes
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Trichodiene
- Precursor (mevalonate) can be labeled at a particular atom with a stable isotope (13C); fate of label then traced in final product
Biosynthesis of Trichodiene (C15)
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Trichodiene
- Biosynthesis proceeds via carbocation intermediates, migration of 2 methyl groups and a hydrogen
Biosynthesis of Trichodiene (C15)
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Trichothecenes
Trichodiene is a key precursor of fungal metabolites called trichothecenes, a major human health problem
- fungal toxins are called mycotoxins - often present in moldy grain consumed by cattle or people
Winter 1942: thousands of Russians died after eating grains left in the field over winter, due to the war; grain was infected with the trichothecene-producing fungus
1981: USA accused Russia of spraying fungal spores in Vietnam, resulting in foliage contaminated with trichothecenes (false)
Trichodiene
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Diterpene (C20) Biosynthesis
Farnesyl pyrophosphate (C15)
+
Gerenylgerenyl-PP (C20) carbocationintermediate
Diterpenes
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Gibberellin Biosynthesis
CH3 oxidized, then lost as CO2
Gibberellin A3, a potent C19 plant hormone
- found in most plants (though originally isolated from a fungus)
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DMAP IPP
Squalene (from shark oil)
C30 compound: 2 farnesyl’s joined tail-to-tail
Geranyl pyrophosphate (C10)
Farnesyl pyrophosphate (C15)
Triterpene (C30) Biosynthesis
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Triterpene (C30) Biosynthesis
Squalene
other C30 triterpenes
cholesterol (C27)
sex hormones
vitamin D
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Cholesterol Biosynthesis
- lose 3 methyl groups
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Vitamin D Biosynthesis
- cholesterol from liver is transported to skin
- photochemically converted into vitamin D- vitamin allows uptake
of essential calcium
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Notes on Terpenes(1) Oxidation reactions are carried out by the enzyme cytochrome P450
- activate oxygen to introduce -OH, carboxyl groups- allow removal of C’s through decarboxylation
(2) Triterpenes form flexible rings (chair, boat conformations) with many chiral centers {rings usually not aromatic}
- provides a huge number of potential 3D structures- high degree of biological activity
(3) Pathways can be elucidated using labeled precursors, such as mevalonate with a 13C at position 2
- carbon NMR experiments reveal where the label ends up in the completed molecule
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Higher terpenes (C40)
Lycopene
2 x geranyl geranyl-PP
- major antioxidant pigment in tomatoes
-carotene- major accessory pigment in photosynthesis
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The highest terpenes (Cbig #)~ 1 % of plants can synthesize cis-polyisoprenoids, like rubber
H3C
Commercially used rubber plants can convert nearly 100% of their mevalonate into rubber
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PolysaccharidesGlycosidesNucleic Acids
Shikimate pathwayAromatic CompoundsLignans
aromatic amino acidsaliphatic amino acids
CH3COSCoA
CH3COSCoA
(photosynthesis)
phosphoenol pyruvate
pyruvate
acetylCoA CH3COSCoA
-O2CCH2COSCoA
CH3COSCoA
Polyketides, Fatty Acids Prostaglandins, Macrocyclic Antibiotics
Shikimate
CH3COCH2COSCoA
mevalonate
Isoprenoids (terpenes,steroids, carotenoids)
AlkaloidsPeptidesPenicillinsCyclic Peptides
CITRICACIDCYCLE
(4)
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(4) Acetate Polyketides
H3C SCoA
O
Erythromycin A (antibacterial)
Avermectin B1
(antihelminthic)
(4) Polyketide Biosynthesis
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(4) Acetate Polyketides:
(1) aromatic compounds, usually with meta placement of -OH’s
(2) non-aromatic macrolides H3C SCoA
O
Avermectin B1
(antihelminthic)
(4) Polyketide Biosynthesis
6-methyl salicylate
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Polyketide BiosynthesisCompounds constructed by addition of successive 2-carbon units
Ketone may or may not be later reduced
Options in final structure:
H3C C
O
H3C C
OH
HH3C C
-or- -or-
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Polyketide BiosynthesisImportant natural producers of polyketide metabolites:
- fungi (= molds)
- bacteria, particularly of the family Actinomycetes
- sea slugs
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Polyketide BiosynthesisActual pathway starts with an acetyl-coA, but then successively uses malonyl coA, which loses CO2 thus adding C2 units
- analogous to how mevalonate loses CO2 to add C5 units in terpenoid biosynthesis
1 acetate, 3 malonyl coA’s
4 carbons are labeled in the final product
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The Lactone Mellein[1,2-13C]-acetate
From the fungus Aspergillus
Growing polyketide chains are held bound to the biosynthetic enzyme, passed from one active site to the next
Different active sites carry out the various cyclizations + reductions
The final site is a thioesterase, which cleaves the connection, setting the compound loose
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Griseofulvin Biosynthesis
Start with 14 carbons in linear precursor…
…End with 17 ?
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Griseofulvin Biosynthesis
Post-cyclization modifications: (1) addition of methoxy groups (2) halogenation
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Actinorhodin Biosynthesis
actinorhodin
Antibiotic from bacterium Streptomyces coelicolor
kalafungin(an antibiotic intermediate)
methylated afterwards
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Aflatoxin
Isolated in 1960 after thousands of turkeys died of liver failure from eating moldy peanut meal; culprit was Aspergillus mold
Now evidence that in parts of the world where peanuts are a dietary staple, much liver disease is due to persistent aflatoxin consumption
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Erythromycin
Synthesized using propionate, C3 units, instead of 2-carbon acetate units (hence all those methyl groups)
Antibiotic from bacterium Streptomyces erythreus
6-deoxy-erythononlide B
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Erythromycin
2 sugars added last, not part of the polypropionate pathway
cladinose
desosamine
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Erythromycin
Biosynthetic genes for erythromycin have been cloned: - made by 3 large, polyfunctional proteins called modular polyketide synthases
- proteins have a series of similar active sites that carry out each successive step in the biosynthesis (hence “modular”)
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Mixed Biosynthesis: Vitamin K
Synthesis performed by enteric bacteria in large intestinePart of vitamin is from shikimate pathway, part isoprene
isoprene unit
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Rules for identifying pathways(1) Is there nitrogen? Yes... alkaloid
(2) Count carbons a) multiple of 5.... terpene
C10 = monoterpene C15 = sesquiterpene C20 = diterpene
b) another even number... probably polyketide
c) multiple of 3... polypropionate (w/ lots of methyls)
especially if the rings are not aromatic
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Rules for identifying pathwaysHints for carbon-counting:
1) non-skeleton carbons don’t count - Those attached through oxygen (esters, ethers) are usually (but not always) added after the main pathway
- For example, in R-OMe, the methoxy carbon would not be included in your count (secondary modification)
2) sugars do not count; they are often tacked onto shikimate, polyketide metabolites after the synthesis is complete
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Rules for identifying pathways(3) Aromatic...
a) hydroxyl groups are meta... polyketide
b) otherwise... shikimate
You can’t always differentiate these 2 pathways without doing labeling experiments