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=='''Glutamate Dehydrogenase'''==
=='''Glutamate Dehydrogenase'''==


[[Image:traces.jpg|frame|left|Figure 1. Image of Glutamate Dehydrogenase]]


'''Glutamate Dehydrogenase''' (GDH) is a homohexameric enzyme found in most microbes and eukaryotes that catalyses the reversible oxidative deamination of L-glutamate to α-ketoglutarate, and vice versa using NAD+ and/or NADP+ as cofactos. Located in the mitochondria, GDH plays a key role in urea synthesis, nitrogen and glutamate (Glu) metabolism, and the energy homeostasis. In humans, GDH is expressed at high levels in the liver, brain, pancreas and kidney. Acting as an oxidoreductase (Enzyme Class I) , GDH catalyzes the reversible NAD (P)+-linked oxidative deamination of L-glutamate into alpha ketoglutarate and ammonia in two steps. The first step involves a Schiff base intermediate being formed between ammonia and alpha ketoglutarate.  This Schiff base intermediate establishes the alpha carbon atom in glutamate’s stereochemistry.  The second step involves the Schiff base intermediate being protonated, which is done by the transfer of a hydride ion from NADPH resulting in L-glutamate.  In it's mechanism, GDH is unique because it is able to utilize both NAD+ and NADP+ <ref>Stryer (Ed.). Biochemistry (5th Ed.) 2002. W.H. Freeman and Company, New York.</ref>.  NADP+ is utilized in the forward reaction of alpha ketogluterate and free ammonia, which are converted to L-glutamate via a hydride transfer from NADPH to glutamate (15).  NAD+ is utilized in the reverse reaction, which involves L-glutamate being converted to alpha ketoglutarate and free ammonia via an oxidative deamination reaction <ref>PMID:9405044</ref>.  The extensive production of ammonia by peripheral tissue or glutamate dehydrogenase is not allowed because of the highly toxic effects of circulating ammonia in cells.  As a result, the ammonia produced in the reverse reaction of GDH is excreted as NH4+ in the urine, by first going through the urea cycle.
 
'''Glutamate Dehydrogenase''' (GDH) is a homohexameric enzyme found in most microbes and eukaryotes that catalyses the reversible oxidative deamination of L-glutamate to α-ketoglutarate, and vice versa using NAD+ and/or NADP+ as cofactors. Located in the mitochondria,[[Image:traces.jpg|frame|left|Figure 1. Image of Glutamate Dehydrogenase]] GDH represents a key enzymatic link between catabolic and biosynthetic pathways
that plays a key role in urea synthesis, nitrogen and glutamate (Glu) metabolism, and the energy homeostasis. In humans, GDH is expressed at high levels in the liver, brain, pancreas and kidney. Acting as an oxidoreductase (Enzyme Class I) , GDH catalyzes the reversible NAD (P)+-linked oxidative deamination of L-glutamate into alpha ketoglutarate and ammonia in two steps. The first step involves a Schiff base intermediate being formed between ammonia and alpha ketoglutarate.  This Schiff base intermediate establishes the alpha carbon atom in glutamate’s stereochemistry.  The second step involves the Schiff base intermediate being protonated, which is done by the transfer of a hydride ion from NADPH resulting in L-glutamate.  In it's mechanism, GDH is unique because it is able to utilize both NAD+ and NADP+ <ref>Stryer (Ed.). Biochemistry (5th Ed.) 2002. W.H. Freeman and Company, New York.</ref>.  NADP+ is utilized in the forward reaction of alpha ketogluterate and free ammonia, which are converted to L-glutamate via a hydride transfer from NADPH to glutamate (15).  NAD+ is utilized in the reverse reaction, which involves L-glutamate being converted to alpha ketoglutarate and free ammonia via an oxidative deamination reaction <ref>PMID:9405044</ref>.  The extensive production of ammonia by peripheral tissue or glutamate dehydrogenase is not allowed because of the highly toxic effects of circulating ammonia in cells.  As a result, the ammonia produced in the reverse reaction of GDH is excreted as NH4+ in the urine, by first going through the urea cycle.
 
==General Information==
 
'''Symbol''': GDH
 
'''Organism''': Most microbes and eukaryotes
 
'''Classification''': Oxidoreductase
 
'''Structure''': Homohexamer
* Eighteen helices
* Thirteen beta sheets
 
'''Length''': 505 residues
 
'''Chains''': A, B, C, D, E, F
 
'''Molecular Weight''': 55.638 KDa
 
'''Cofactors''': NADP and NAD+
 
'''Source''': Natural Source, Mitochondria


==Glutamate Dehydrogenase Structure==
==Glutamate Dehydrogenase Structure==


GDH is a homohexamer of 505 residues with a molecular weight of 55.638 KDa <ref>http://www.rcsb.org/pdb</ref>. The overall <scene name='56/564037/Secondary_structures/1'>secondary structures</scene> of GDH is composed of eighteen <font color="#ff0080">'''alpha helices'''</font> and thirteen <font color="#d0a000">'''beta strands'''</font>, which are both parallel and anti-parallel and flanked by a layer of alpha helices <ref>http://www.rcsb.org/pdb</ref>.  
GDH is a homohexamer of 505 residues with a molecular weight of 55.638 KDa <ref>http://www.rcsb.org/pdb</ref>. The overall <scene name='56/564037/Secondary_structures/1'>secondary structures</scene> of GDH is composed of eighteen <font color="#ff0080">'''alpha helices'''</font> and thirteen <font color="#d0a000">'''beta strands'''</font>, which are both parallel and anti-parallel and flanked by a layer of alpha helices set in a 3-axis fold <ref>http://www.rcsb.org/pdb</ref>.  
The monomer unit of GDH is essentially two trimers of six identical subunits containing <scene name='56/564037/Domains/1'>two distinct domains</scene>—the Glutamate (Glu) binding domain at the N terminus and the NAD binding doman—and a 48-residue antenna-like projection that extends from the top of each NAD binding domain, separated by a large active site cleft <ref>PMID:11258921</ref>. This 48-residue antenna consists of an ascending helix and a descending random coil strand that contains a small α-helix toward the C-terminal end of the strand. Domain I,also called the C-domain, is made up of residues 4-181 and 400-421, and is responsible for directing the assembly of the subunits into a hexamer.  Domain II, also called the N-domain, makes up the glutamate-binding domain, and is composed of mainly beta sheets involving residues 182-399. <ref>PMID:16285734</ref>. <ref>PMID:11258921</ref>.   
The monomer unit of GDH is essentially two trimers of six identical subunits containing <scene name='56/564037/Domains/1'>two distinct domains</scene>—the Glutamate (Glu) binding domain at the N terminus and the NAD binding doman—and a 48-residue antenna-like projection that extends from the top of each NAD binding domain, separated by a large active site cleft <ref>PMID:11258921</ref>. This 48-residue antenna consists of an ascending helix and a descending random coil strand that contains a small α-helix toward the C-terminal end of the strand. Domain I,also called the C-domain, is made up of residues 4-181 and 400-421, and is responsible for directing the assembly of the subunits into a hexamer.  Domain II, also called the N-domain, makes up the glutamate-binding domain, and is composed of mainly beta sheets involving residues 182-399. <ref>PMID:16285734</ref>. <ref>PMID:11258921</ref>.   


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[[Image:closed.jpg|frame|right|Figure 3. When GDH is bound to Glutamate (blue) it's cleft is closed. ]]
[[Image:ActiveSite.jpg|frame|right|Figure 3. When GDH is not bound to Glutamate it's cleft is open (left). However, when GDH is bound to Glutamate it's cleft is closed (right). ]]


Located on top of the glutamate binding domain, these NAD+ binding domains rotate down upon the substrate and coenzyme to initiate catalysis.  The 48-residue antenna that extends from the top of the NAD+ binding domain undergoes conformational changes as the cleft of the active site opens and closes <ref>PMID:12653548</ref>. When GDH is not bound by glutamate its cleft is open, however, when GDH is bound to glutamate it is closed. This position difference between the two domains allows the cleft to be closed, which brings the C4 of the nicotinamide ring and the alpha carbon of the glutamate substrate into the appropriate orientation for a hydride transfer to occur. Residues 200-206, 375-379, and 421-423 are critical for the control of the hinges that open or close the cleft between the two domains <ref>PMID:9405044</ref>. The residues that form this hinge, which allow the cleft to open or close are both near and far from the active site.  The <scene name='56/564037/Active_site_final/1'>active site</scene> of GDH is composed of residues: 209-210, 213, 217, 261, 265, 289, 292, 450.  
Located on top of the glutamate binding domain, these NAD+ binding domains rotate down upon the substrate and coenzyme to initiate catalysis.  The 48-residue antenna that extends from the top of the NAD+ binding domain undergoes conformational changes as the cleft of the active site opens and closes <ref>PMID:12653548</ref>. When GDH is not bound by glutamate its cleft is open, however, when GDH is bound to glutamate it is closed. This position difference between the two domains allows the cleft to be closed, which brings the C4 of the nicotinamide ring and the alpha carbon of the glutamate substrate into the appropriate orientation for a hydride transfer to occur. Residues 200-206, 375-379, and 421-423 are critical for the control of the hinges that open or close the cleft between the two domains <ref>PMID:9405044</ref>. The residues that form this hinge, which allow the cleft to open or close are both near and far from the active site.  The <scene name='56/564037/Active_site_final/1'>active site</scene> of GDH is composed of residues: 209-210, 213, 217, 261, 265, 289, 292, 450.  
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'''GTP:'''
'''GTP:'''
*GTP is a potent inhibitor for the reaction and binds at the base of the antenna, wedged in between the NAD binding domain and the pivot helix. This binding site is only available for GTP binding when the catalytic cleft is closed. Therefore, after GTP binds to the 'closed' conformation it is more difficult for the 'mouth' to open and release either NAD+ and NADP+ as coenzyme <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.  
*<scene name='56/564037/Gtp/1'>GTP</scene> is a potent inhibitor (red) for the reaction of GDH (yellow) that binds at the base of the antenna, wedged in between the NAD binding domain and the pivot helix. This binding site is only available for GTP binding when the catalytic cleft is closed. Therefore, after GTP binds to the 'closed' conformation it is more difficult for the 'mouth' to open and release either NAD+ and NADP+ as coenzyme <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.  


'''GDP:'''
'''GDP:'''
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*In the reductive amination reaction, ADP is a potent activator at low pH and low substrate concentration. At pH 6.0, high concentrations of α-ketoglutarate and NADH, inhibit the reaction. This substrate inhibition is alleviated by ADP. Therefore, while GTP and glutamate bind synergistically with NADH to inhibit GDH, ADP activates the reaction by decreasing the affinity of the active site. However, under conditions where the enzyme is not saturated (e.g. low substrate concentrations), this loss in binding affinity causes inhibition. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
*In the reductive amination reaction, ADP is a potent activator at low pH and low substrate concentration. At pH 6.0, high concentrations of α-ketoglutarate and NADH, inhibit the reaction. This substrate inhibition is alleviated by ADP. Therefore, while GTP and glutamate bind synergistically with NADH to inhibit GDH, ADP activates the reaction by decreasing the affinity of the active site. However, under conditions where the enzyme is not saturated (e.g. low substrate concentrations), this loss in binding affinity causes inhibition. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.


*Inhibition by high [ADP] is due to competition between ADP and the adenosine moiety of the coenzyme at the active site 1 <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
*Inhibition by high [<scene name='56/564037/Adp/1'>ADP</scene>] (Turquoise) is due to competition between ADP and the adenosine moiety of the coenzyme at the active site 1 <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
'''NADH:'''
'''NADH:'''
*NADH, is another major allosteric inhibitor of GDH. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
*NADH, is another major allosteric inhibitor of GDH. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
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==Implicatons==
==Implicatons==


[[Image:Implications.jpg|frame|left|Figure 5. This schematic shows how the loss GTP inhibition can cause the hyperstimulated secretion of insulin (top) and the elevated serum levels of ammonium (bottom). In the pancreas, the loss of GTP inhibition increases the flux of glutamate to the Krebs cycle, leading to elevated ATP levels and secretion of insulin. In the liver, not only does accelerated catabolism increase the levels of ammonium, but the lower levels of glutamate also decrease the production of N-acetylglutamate.]] Hyperosmolar hyperglycemic state (HHS) was one of the first diseases that clearly linked GDH regulation to insulin and ammonia homeostasis. Recent studies demonstrate that the activation of GDH was tightly correlated with increased glutaminolysis and release of insulin. HHS syndrome is caused by the loss of GTP regulation of GDH. Children with HHS have increased β-cell responsiveness to leucine and susceptibility to hypoglycemia following high protein meals. This is due to uncontrolled catabolism of amino acids yielding high ATP levels that stimulate insulin secretion and high serum levels of ammonium. The elevation of serum ammonia levels induces an altered regulation of GDH, leading to increased ammonia production from glutamate oxidation. In addition to that, it can cause impaired urea synthesis by carbmoylphosphate synthetase (CPS) due to reduced formation of N-actyl-glutamate (activator) from glutamate (figure 4). This genetic lesion disrupts the regulator linkage between glycolysis and amino acid catabolism. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.
[[Image:Implications.jpg|frame|left|Figure 5. This schematic shows how the loss GTP inhibition can cause the hyperstimulated secretion of insulin (top) and the elevated serum levels of ammonium (bottom). In the pancreas, the loss of GTP inhibition increases the flux of glutamate to the Krebs cycle, leading to elevated ATP levels and secretion of insulin. In the liver, not only does accelerated catabolism increase the levels of ammonium, but the lower levels of glutamate also decrease the production of N-acetylglutamate.]] '''Hyperosmolar hyperglycemic state''' (HHS), a complication of diabetes 2, in which high blood sugars can cause severe dehydration, coma, or death, was one of the first diseases that clearly linked GDH regulation to insulin and ammonia homeostasis. Recent studies have demonstrated that the activation of GDH it tightly correlated with increased glutaminolysis and release of insulin. HHS syndrome is caused by the loss of GTP regulation of GDH. Children with HHS have increased β-cell responsiveness and susceptibility to hypoglycemia following high protein meals due to uncontrolled catabolism of amino acids yielding high ATP levels that stimulate insulin secretion and high serum levels of ammonium. This elevation of serum ammonia levels induces an altered regulation of GDH, leading to increased ammonia production from glutamate oxidation. In addition to that, it can cause impaired urea synthesis by carbmoylphosphate synthetase (CPS) due to reduced formation of N-actyl-glutamate (activator) from glutamate (figure 4). This genetic lesion disrupts the regulator linkage between glycolysis and amino acid catabolism. <ref>D'Mello, J. P. F.. "Glutamate Dehydrogenase." Amino Acids in Human Nutrition and Health. 2012. 1-23. Print</ref>.


==Applications==
==Applications==
GDH can be measured in a medical laboratory to evaluate the liver function. Elevated blood serum GDH levels indicate liver damage and GDH plays an important role in the differential diagnosis of liver disease, especially in combination with aminotransferases. GDH is localised in mitochondria, therefore practically none is liberated in generalised inflammatory diseases of the liver such as viral hepatitides. Liver diseases in which necrosis of hepatocytes is the predominant event, such as toxic liver damage or hypoxic liver disease, are characterised by high serum GDH levels. GDH is important for distinguishing between acute viral hepatitis and acute toxic liver necrosis or acute hypoxic liver disease, particularly in the case of liver damage with very high aminotransferases. In clinical trials, GDH can serve as a measurement for the safety of a drug.
 
GDH can be measured in a medical laboratory to evaluate liver function. GDH plays an important role in the differential diagnosis of liver disease, especially in combination with aminotransferases, a type of enzyme that catalyzes a reaction between an amino acid and an α-keto acid. Liver diseases in which necrosis of hepatocytes is the predominant event, such as toxic liver damage or hypoxic liver disease, are characterised by high serum GDH levels. GDH is important for distinguishing between acute viral hepatitis and acute toxic liver necrosis or acute hypoxic liver disease, particularly in the case of liver damage with very high aminotransferases.  
 
In clinical trials, GDH can serve as a measurement for the safety of a drug.


==Isozymes==
==Isozymes==