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The reactions of the urea cycle.

The color scheme is as follows: enzymes, coenzymes, substrate names, inorganic molecules, Asp and urea's nitrogen that comes from it, NH₄⁺ and urea's nitrogen that comes from it, HCO₃^- and urea's carbon that comes from it

The urea cycle (also known as the ornithine cycle) is a cycle of biochemical reactions occurring in many animals that produces urea from ammonia (NH₃). This cycle was the first metabolic cycle discovered (Krebs and Kurt Henseleit, 1932). In mammals, the urea cycle takes place only in the liver.

Organisms that cannot easily and quickly remove ammonia usually have to convert it to some other substance, like urea or uric acid, which are much less toxic. Insufficiency of the urea cycle occurs in some genetic disorders (inborn errors of metabolism), and in liver failure. The result of liver failure is accumulation of nitrogenous waste, mainly ammonia, which leads to hepatic encephalopathy.

The urea cycle consists of five reactions - two mitochondrial and three cytosolic. The cycle converts two amino groups, one from NH₄⁺ and one from Asp, and a carbon atom from HCO₃^-, to relatively nontoxic excretion product, urea, at the cost of four "high-energy" phosphate bonds (3 ATP hydrolyzed to 2 ADP and one AMP). Orn is the carrier of these carbon and nitrogen atoms.

Reactions of cycle:

Summary reaction:

• 2 NH₃ + CO₂ + 4 ATP + aspartate → urea + fumarate + 4 ADP + 4 P_i

Note that reactions related to the urea cycle also causes the reduction of 2 NADH, so the urea cycle releases slightly more energy than it consumes. These NADH are produced in two ways:

• One NADH molecule is reduced by the enzyme glutamate dehydrogenase in the conversion of glutamate to ammonium and a-ketoglutarate. Recall that glutamate is the non-toxic carrier of amine groups. This provides the ammonium ion used in the initial synthesis of carbamoyl phosphate.
• The fumarate released in the cytosol is converted to malate by cytosolic fumarase. This malate is then converted to oxaloacetate by cytosolic malate dehydrogenase, generating a reduced NADH in the cytosol.

The two NADH produced can provide energy for the formation of 5 ATP, a net production of one high energy phosphate bond for the urea cycle. However, if gluconeogenesis is underway in the cytosol, the latter reducing equivalent is used to drive the reversal of the GAPDH step instead of generating ATP.

An excellent way to memorize the Urea Cycle is to remember the phrase "Ordinarily Careless Crappers Are Also Frivolous About Urination." The first letter of each word corresponds to the order in which reactants are combined to give products or intermediates that break apart as one progresses through the cycle.

Alternate representation of urea cycle. Numbering is different from that presented above. Aqua oval is mitochondrion. CPS1 not displayed.

The synthesis of carbamoyl phosphate and the urea cycle are dependent on the presence of NAcGlu, which allosterically activates CPS1. Synthesis of NAcGlu by NAGS, is stimulated by Arg - allosteric stimulator of NAGS, and Glu - a product in the transamination reactions and one of NAGS's substrates, both of which are elevated when free amino acids are elevated. So, Arg is not only a substrate for the urea cycle reactions but also serves as an activator for the urea cycle.

The remaining enzymes of the cycle are controlled by the concentrations of their substrates. Thus, inherited deficiencies in the cycle enzymes other than ARG1 do not result in significant decrease in urea production (the total lack of any cycle enzyme results in death shortly after birth). Rather, the deficient enzyme's substrate builds up, increasing the rate of the deficient reaction to normal.

The anomalous substrate buildup is not without cost, however. The substrate concentrations become elevated all the way back up the cycle to NH₄⁺, resulting in hyperammonemia (elevated [NH₄⁺]_P).

Although the root cause of NH₄⁺ toxicity is not completely understood, a high [NH₄⁺] puts an enormous strain on the NH₄⁺-clearing system, especially in the brain (symptoms of urea cycle enzyme deficiencies include mental retardation and lethargy). This clearing system involves GLUD1 and GLUL, which decrease the 2OG and Glu pools. The brain is most sensitive to the depletion of these pools. Depletion of 2OG decreases the rate of TCAC, whereas Glu is both a neurotransmitter and a precursor to GABA, another neurotransmitter. [1](p.734)

• Citrullinemia
• Hyperammonemia
• Ornithine translocase deficiency

v • d • e  Urea Cycle Metabolic Pathway

L-citrulline Carbamoyl phosphate L-ornithine Pi L-aspartate Urea + ATP PPi + AMP H2O L-argininosuccinate Fumarate L-arginine

• The chemical logic behind the urea cycle
• Basic Neurochemistry - amino acid disorders