JAGGERS EXAM 3 Flashcards
triose phosphate isomerase
converts DHAP to GAP
central core of 8 B strands surrounded by 8 a helices (aB barrel)
active site: Glu 165 and His 95, form enediol intermediate
kinetically perfect enzyme
stage 1 of glycolysis
trapping and priming of glucose
glucose > G6P > F6P > F16BP > DHAP & GAP (2 3C fragments, interconvert with TPI, worth using ATP instead of having a 2C and a 4C)
stage 2 glycolysis
GAP > 13BPG > 3PG > 2PG > phosphoenol-pyruvate > pyruvate
GAP to 13BPG
oxidation
dehydration via GAP dehydrogenase
2 rxns COUPLED to occur
formation of thioester intermediate (high energy) which captures energy released from oxidation to drive dehydration
how is redox maintained in glycolysis?
NAD+ lost from GAP > 13BPG is replenished when pyruvate is converted into ethanol
pyruvate to ethanol
1) decarboxylation of pyruvate to acetaldehyde
2) reduction of acetaldehyde to ethanol –> regenerates NAD+ for glycolysis
glucose > 2 ethanol + 2 ATP + 2 CO2
lactic acid fermentation
pyruvate is produced faster than it can be oxidized in CAC, but NAD+ must be recycled
glucose > 2 lactate + 2 ATP
fructose 1-phosphate pathway
fructose > F1P > glyceraldehyde + DHAP > GAP (enters at GAP)
1 fructose = 2 ATP
galactose processing in glycolysis
galactose > galactose 1P
galactose 1P + UDP-glucose > G1P + UDP-gal
G1P to G6P by phosphoglucomutase (enters glycolysis at G6P)
UDP-gal > UDP-glu via epimerase
regulation of glycolysis in muscle
high ATP inhibits phosphofructokinase by binding to regulatory sites
G6P inhibits hexokinase
pyruvate kinase is inhibited by ATP and activated by F16BP
fructose 2,6 BP in the liver
excess F6P forms F2,6BP via PFK2
F26BP is an activator of phosphofructokinase, accelerates glycolysis
PFK2 activity regulated by phosphorylation
glucokinase and hexokinase activity
glucokinase is an enzyme in the liver that produces G6P for glycogen synthesis
glucose has lower affinity for glucokinase than hexokinase
glucose inhibits hexokinase but not glucokinase, when glucose is abundant hexokinase is inhibited and glucokinase activity occurs
forms of pyruvate kinase
L-form in liver, M-form in muscle and brain
only L-form subject to regulation by phosphorylation
when blood glucose is low, its more urgently needed in muscle and brain
glycolysis regulation in the liver (3)
pyruvate kinase regulated by phosphorylation
glucokinase activity based on affinity of hexokinase
PFK activated by F26BP
when blood glucose levels are low, pyruvate kinase…
is mostly in M-form (muscle and brain), L-form is inhibited by glucagon
what are the major non-carb precursors?
lactate
amino acids
glycerol
gluconeogenesis
noncarb precursors (AAs, lactate, glycerol) are converted to pyruvate > glucose
pyruvate > oxaloacetate > PEP > 2 PG > 3PG > 13BPG > GAP > F16BP > F6P
lactase dehydrogenase reaction
L-lactate to pyruvate (and vice versa), promoted by low glucose and therefore low pyruvate
low glucose causes L-lactate to make pyruvate
what determines glycolysis vs glucogenesis occuring?
high energy levels > glycolysis inhibited, glucogenesis promoted
in liver, determined by blood glucose level
why is acetyl CoA an activated carrier
hydrolysis is highly exergonic due to thioester linkage
pyruvate to acetyl CoA net reaction
pyruvate + CoA-SH + NAD+ –> acetyl CoA + CO2 + NADH + H+
pyruvate to acetyl CoA mechanism
TPP coenzyme becomes a carbanion (highly acidic, pKa 10)
carbanion attacks pyruvate carbonyl
joined complex decarboxylates and releases CO2, forming hydroxyethyl-TPP
hydroxyethyl-TPP and lipoamide form TPP carbanion and acetyllipoamide (thioester bond)
acetyllipoamide + CoA > acetyl CoA + dihydrolipoamide (which is then oxidized to form NADH)
transacetylase
enzyme for pyruvate to acetyl CoA
has 3 distinct active sites (E1, E2, E3)
lipoamide group in E2 extends away and can swing around
1) lipoamide collects acetyl group from E1
2) transfers acetyl to CoA to form acetyl CoA in E2
3) E3 to get reoxidized
citrate synthase reaction
acetyl CoA + oxaloacetate forms Citroyl CoA
CoA cleaved by hydrolysis, citroyl leaves
energy from thioester is used to synthesize a larger molecule
citrate synthase
catalyzes acetyl CoA and oxaloacetate to form citrate, uses induced fit
binding of oxaloacetate causes CC to form acetyl CoA active site, prevents wasteful hydrolysis because citroyl CoA is made before hydrolysis
how do amino acids enter glycolysis?
turned into oxaloacetate > PEP
how does glycerol enter glycolysis?
converted to G3P > DHAP
how does lactate enter glycolysis?
turns into pyruvate via lactase dehydrogenase reaction
what hormone activates glycolysis and inhibits gluconeogenesis?
insulin
what hormone inhibits glycolysis and activates gluconeogenesis?
glucagon
what is special about 1,3-BPG?
high energy compound
can make ADP into ATP
The formation of what intermediate allows the oxidation of GAP to 1,3-BPG, and the addition of a phosphate, to be coupled by GAP dehydrogenase?
thioester intermediate
cleavage of thioester bond provides energy needed for the formation of high phosphoryl transfer compound
What intermediate is galactose converted to in order to feed into glycolysis? What other molecule is necessary for this process?
G-6P, UDP glucose
Describe how the carbons from glucose get fed into the Citric Acid Cycle
glycolysis: glucose to pyruvate
pyruvate dehydrogenase: pyruvate to acetyl CoA
CAC: acetyl CoA + oxaloacatete > citrate
Describe the negative regulation of alpha-ketoglutarate dehydrogenase and isocitrate dehydrogenase
in the Citric Acid Cycle
both experience negative feedback
alpha-ketoglutarate dehydrogenase: inhibited by succinyl CoA and NADH
isocitrate dehydrogenase: NADH
3 enzymes for the 3 irreversible steps of glycolysis
hexokinase: glucose > G6P
phosphofructokinase: F6P > F16BP
pyruvate kinase: PEP > pyruvate
pyruvate dehydrogenase complex, 5 cofactors
converts pyruvate to acetyl CoA
3 enzyme components (E1, E2, E3)
5 cofactors: TPP, lipoamide, CoA, FAD, NAD+
CO2 released
aconitase
isomerizes citrate to isocitrate, moves hydroxyl group
isocitrate dehydrogenase
isocitrate > oxalosuccinate > a-Ketogluterate
a-ketoglutarate dehydrogenase
a-ketoglutarate > succinyl CoA
mechanistically similar to pyruvate dehydrogenase complex
pyruvate dehydrogenase - 3 enzymatic active sites
lipoamide group (E2) can swing around and interact with E1 to collect acetyl group, transfers acetyl to CoA, E3 to get reoxidized
succinyl CoA synthetase
succinyl CoA to succinate
generates GTP
only CAC step that produces a high-phosphoryl-transfer potential
citric acid cycle
CIKSSFMO
why is FAD the electron acceptor when succinate is converted to fumerate?
the free-energy change is not sufficient to reduce NAD to NADH
3 reactions of succinate to oxaloacete
oxidation, hydration, oxidation
which reaction in the CAC has a large positive free energy charge? how is it driven?
malate to oxaloacetate, driven bc NADH is consumed and it is produced from the reaction
CAC net reaction
Acetyl CoA + 3 NAD+ + FAD + ADP + Pi + 2 H20 > 2 CO2 + 3 NADH + FADH2 + ATP + 3 H+ + CoA—SH
regulation of pyruvate dehydrogenase complex (PDH)
(1) feedback inhibition: inhibited by pyruvate and acetyl CoA (accumulation)
(2) covalent modification of E1: phosphatase turns PDH on in response to insulin/muscle contractions/epinephrine, kinase turns PDH off
Isocitrate dehydrogenase regulation
stimulated by ADP, inhibited by ATP and NADH
a-ketoglutarate dehydrogenase
inhibited by energy charge (ATP, NADH) and reaction products (succinyl CoA and NADH)
If oxaloacetate is pulled from the cycle by a cell’s demand for
biosynthesis, how is it replenished so that energy demand is also accommodated?
Oxaloacetate can be synthesized directly from pyruvate
complex I of ETC
Goal: transfer e- from NADH (from CAC) to CoQ
NADH reduces FMN > FMNH2 > [Fe-S] > Q > QH2 leaves to Q pool
4 H+ pumped from matrix to IM space
1 NADH + 5H(matrix) + Q = QH2 + 4H(IM space)
where do the protons to reduce Q to QH2 come from?
FADH2 from CAC in matrix (complex II) or NADH + H+ (complex I)
NADH-Q oxidoreductase
transfer electrons in NADH to CoQ
complex II of ETC
Goal: feed the Q pool
feeds the Q pool (H+), FADH2 from CAC reduces Q to QH2
complex III of ETC
Goal: Q cycle
1) QH2 enters complex III and gives 2 e-: 1 to cyt c, other to distal Q > semiquinone
2) another QH2 enters complex II and gives 2 e-: 1 to cyt c, other to complete reduction of semiquinone > QH2
during reduction of distal Q, H+ pulled from matrix
how many net cyt c reduced per QH2
2 reduced cyt c per QH2