This research work was supported by the CANSEARCH Foundation. The authors would like to acknowledge Ms. Laurence Lesne and Mr. Yoann Sarmiento for technical assistance, especially in conducting the replicating experiments while standardizing the assays with inhibitors. Fruitful discussions and inputs by Mr. Denis Marino, Dr. Simona Mlakar and Dr. Vid Mlakar are greatly acknowledged. We thank Dr.Patricia Huezo-Diaz Curtis for her help with the narration of the video. We thank Dr. Muthukumar for his inputs on in silico predictions. We also thank Mr. Darren Hart for his help in English language proof reading of this manuscript.

1. Preparation of the GST enzyme solution
NOTE: The procedure for preparing the enzyme solution depends upon whether or not the units of enzymatic activity are known before the assay. One enzymatic unit is the amount of enzyme needed to synthesize 1 &#181;mol of product per minute. Enzymatic activity is represented in unit/mL or &#181;mol/min/mL and depends on the dilution of the enzymatic solution. Specific enzymatic activity is represented in unit/mg or &#181;mol/min/mg and depends solely on the purity of the solution. Both these characteristics are determined below. If the enzymatic unit of an isolated GST isoform is unknown, it must be estimated to adjust the enzymatic concentrations for each reaction and provide reproducible results.
<ol>
	<li>If the enzymatic unit of the GST used in the assay is known:
	<ol>
		<li>Prepare a fresh stock solution of the GST enzyme at 0.1 U/mL in water and then proceed with step 2. 
		NOTE: This solution can be stored at -20 &#176;C in aliquots for several months or at -80 &#176;C for longer periods, but the freeze/thaw cycle must be avoided.</li>
	</ol>
	</li>
	<li>If the enzymatic unit of the GST used in the assay is unknown:
	<ol>
		<li>Quantify the enzyme solution&#8217;s protein concentration using a bicinchoninic acid (BCA) protein assay, or any other kit.</li>
		<li>Dilute the protein solution to a final protein concentration of 0.02 mg/mL.</li>
		<li>Add 20 &#181;L of the enzyme solution, 20 &#181;L of GSH 25 mM (molecular weight: 307.32 g/mol), and 150 &#181;L of Dulbecco&#8217;s phosphate-buffered saline (DPBS) to a 96-well plate. For the blank, add 20 &#181;L of water instead of the enzyme solution.</li>
		<li>Add 10 &#181;L of CDNB 50 mM (molecular weight: 202.55 g/mol) substrate to each well.</li>
		<li>On a spectrophotometric microplate reader, set the parameters for reading the wells at 340 nm. It is recommended to measure the absorbance every minute for 10 minutes.</li>
		<li>Insert the plate into the microplate reader, and start the reading according to settings of step 1.2.5.</li>
		<li>Calculate the change in absorbance per minute for the enzymatic samples and the blank. 
		NOTE: Verify that the reaction is linear by plotting absorbance on y-axis and minutes on the x-axis. If the reaction is not linear and reaches a plateau, it means that all the substrate is used and the reaction is too quick. Thus, reduce the amount of enzyme added to the well by diluting the stock solution by two.</li>
		<li>Blank-correct the test samples&#8217; absorbance readings.</li>
		<li>With equation 1, representing the Beer&#8211;Lambert law, calculate the concentration of GS-DNB formed (in &#181;M) by the reaction each minute. 
		Equation 1: 
		<img alt="Equation 1" src="/files/ftp_upload/61347/61347equ01v2.jpg" /> 
		where C is the concentration of the substrate in &#181;M, A340/min is the change in absorbance per minute, as measured in step 1.2.7, &#949; is the molar extinction coefficient for the CDNB conjugate at 340 nm (0.0096 &#181;M-1*cm-1), and l is the length of the light path in the well (in cm). For a 96-well plate filled with 200 &#181;L of enzymatic solution, the path length is around 0.55 cm. This value can vary according to the plate model and should be verified with the manufacturer.</li>
		<li>To determine the amount of product present in one well in &#181;mol/min, multiply the results found using equation 1 by the volume of solution, 2 x 10-4 L.</li>
		<li>Normalize the activity per amount of protein used by dividing the results of step 1.2.9 by 4 x 10-4 mg. The result is the specific enzymatic activity in unit/mg or &#181;mol/min/mg. 
		NOTE: If the dilution was changed in step 1.2.6, because of a non-linear reaction, adjust the protein amount accordingly.</li>
		<li>To find the enzymatic activity, adjust the results to the protein concentration in mg/mL by multiplying the specific enzymatic activity found in step 1.2.10 by 0.002 mg/mL. This will give the enzymatic activity in unit/mL or &#181;mol/min/mL. 
		NOTE: In contrast to the enzymatic activity, this measure will not change depending on the dilution of the protein solution. Same note as step 1.2.10 but for the protein concentration.</li>
		<li>Prepare a stock solution of the GST enzyme at 0.1 unit/mL in water and then proceed with step 2. 
		NOTE: This solution can be stored at -20 &#176;C in aliquots for several months or at -80 &#176;C for longer periods, but the freeze/thaw cycle must be avoided. Control of the enzymatic activity is recommended if the experiments are conducted during an extended period of time as degradation of the protein solution might occur.</li>
	</ol>
	</li>
</ol>
2. Measurement of the Michaelis&#8211;Menten constant of the GST isoform for CDNB
NOTE: The procedure is explained for a CDNB substrate but can be applied to any other substrate, such as GSH. Each concentration of CDNB needs its own blank, as the absorbance at 340 nm will increase according to the CDNB concentration.
<ol>
	<li>Prepare six different concentrations of CDNB, ranging from 10 mM to 100 mM, in ethanol 95% (v/v).</li>
	<li>Prepare the assay solution, with 10 &#181;L of CDNB, 20 &#181;L of GST enzyme, 20 &#181;L of GSH 25 mM, and 150 &#181;L DPBS. For the blank, instead of the CDNB solution, add only 10 &#181;L of ethanol 95%.</li>
	<li>Prepare a blank for each CDNB concentration, with 10 &#181;L of CDNB, 20 &#181;L of water, 20 &#181;L of GSH 25 mM, and 150 &#181;L DPBS.</li>
	<li>Record the absorbance at 340 nm every minute for 10 minutes with a microplate reader.</li>
	<li>Blank-correct the absorbance by subtracting the results from the blank from that of the correct other test wells. According to the measured values, calculate the velocity of the reaction using Equation 2. 
	Equation 2: 
	<img alt="Equation 2" src="/files/ftp_upload/61347/61347equ02v2.jpg" /> 
	where A340/min is the experimentally determined change in absorbance per minute, Vtotal (total volume) equals 0.2 mL, Venzyme (volume of enzyme) is 0.02 mL, and &#949;GS-DNB is the molar extinction coefficient of the GS-DNB conjugate at 340 nm (9.6 mM-1*cm-1). In a 200 &#181;L well of a 96-well plate, the path length is 0.55 cm (depending on the plate type) and the extinction coefficient equals 5.3 mM-1. The velocity can be represented either by &#181;mol/mL/min or mM/min.</li>
	<li>Plot the Michaelis&#8211;Menten graph with the velocity (on the y-axis) against the substrate concentration (on the x-axis).</li>
	<li>Define the maximum velocity (Vmax) of the reaction and the Michaelis&#8211;Menten constant (Km) (i.e., the substrate concentration at half of Vmax). 
	NOTE: Using software such as GraphPad Prism, the enzyme kinetics curve can be fitted using a non-linear regression for the calculation of the Michaelis&#8211;Menten enzyme kinetics parameters, such as Vmax and Km.</li>
	<li>Prepare a CDNB stock solution at 20 times the calculated Km in ethanol 95% (v/v).</li>
</ol>
3. Absorbance of the potential GST inhibitor
NOTE: This step is performed to investigate whether the potential GST inhibitor used in the reaction produces a metabolite that increases absorbance at the wavelength being measured. If it does, the amount of inhibitor used will have an impact on the results and a specific blank should be prepared for each concentration.
<ol>
	<li>Dilute the inhibitor to the required concentrations. 
	NOTE: Prepare three different dilutions, preferably the lowest, middle, and highest concentrations tested during the inhibition assay. The maximum DMSO concentration in the well should be equal to or less than 1% (v/v). We tested the DMSO concentration&#8217;s effect on the assay in our laboratory, and 1% did not significantly change GST activity.</li>
	<li>In a 96-well plate, add 2 &#181;L of the potential GST inhibitor, 20 &#181;L of GSH 25 mM, and 168 &#181;L of DPBS. Use an appropriate control, with no inhibitor, by adding equal volumes of the solvent used for the inhibitor samples.</li>
	<li>Incubate the reaction for 10 minutes, to begin the enzymatic reaction. 
	NOTE: This step can be optimized, by testing different incubation times, with the twin aims of beginning the reaction while avoiding total depletion of the substrate.</li>
	<li>Add 10 &#181;L of CDNB to each well to achieve a final concentration at the Km found in step 2.</li>
	<li>Shake the plate for few seconds.</li>
	<li>Record the absorbance at 340 nm every minute for 10 minutes with a microplate reader.</li>
	<li>Calculate the change in absorbance per minute.</li>
	<li>Verify the change in absorbance compared to both the blank reaction and the negative control reaction with no inhibitor.
	<ol>
		<li>If there is a significant change, use blank for each inhibitor concentration in order to adjust the results. 
		NOTE: This result indicates that the reaction&#8217;s constituents, with no GST enzyme, react spontaneously and produce a metabolite that increases absorbance at 340 nm. To correct for this additional absorbance, a specific blank should be measured for each concentration.</li>
		<li>If there is no significant change in absorbance, use a general blank, containing only the solvent used for the GST inhibitor dilution, for all the concentrations.</li>
	</ol>
	</li>
</ol>
4. Inhibition assay of GST and IC50 assessment
<ol>
	<li>Prepare nine concentrations of the potential GST inhibitor. 
	NOTE: The concentrations can be adapted according to the results. The aim is to define the bottom and top plateaus of the non-linear regression curve. See the discussion section for more details about this step.</li>
	<li>Prepare the assay solution by diluting 20 &#181;L of the GSH solution at 25 mM with 148 &#181;L of DPBS. Adapt the volume according to the number of wells used in the assay.</li>
	<li>In a clear 96-well plate, prepare the enzymatic reaction in a final volume of 190 &#181;L. It is recommended to use a multichannel pipette for these steps.
	<ol>
		<li>For the test wells, add 20 &#181;L of the enzyme solution, 2 &#181;L of the potential GST inhibitor solution and 168 &#181;L of the assay solution.</li>
		<li>For the control, add 20 &#181;L of the enzyme solution, 2 &#181;L of the diluent used for the GST inhibitor and 168 &#181;L of the assay solution.</li>
		<li>For the blank wells, add 20 &#181;L of water, 2 &#181;L of the potential GST inhibitor and 168 &#181;L of the assay solution. 
		NOTE: If the GST inhibitor absorbs the 340 nm wavelength, then a specific blank should be prepared for each concentration tested.</li>
	</ol>
	</li>
	<li>Add 10 &#181;L of the CDNB solution at 20x Km to each well, including the blank. It is recommended to use a multichannel pipette for this step.</li>
	<li>Shake the plate for few seconds.</li>
	<li>Measure the absorbance at 340 nm every minute for 10 minutes using a microplate reader.</li>
	<li>Blank-correct the absorbance by subtracting the results from the test well blanks.</li>
	<li>Normalize the results by dividing the values obtained using the GST inhibitor solution by the control&#8217;s absorbance per minute with no inhibitor.</li>
	<li>Plot the non-linear regression graphs of the logarithmic concentration (x-axis) of the inhibitor against the GST activity (y-axis), and thus determine the IC50. 
	NOTE: GraphPad Prism calculates the IC50 from the non-linear regression plots by predicting the concentration that will show 50% of the enzymatic activity in the control. The prediction is based on the bottom and top plateaus, as well as the curve of the slope formed by the sigmoid graph.</li>
</ol>
5. Assessment of the Kiand the type of inhibition
<ol>
	<li>Prepare four different CDNB concentrations: three higher and one equal to the Km previously found.</li>
	<li>Prepare three different GST inhibitor concentrations, equal to or below the previously found IC50.</li>
	<li>Perform the inhibition assay as described in steps 4.2 to 4.7.</li>
	<li>Calculate the velocity of the reactions using Equation 2.</li>
	<li>Plot the Michaelis&#8211;Menten graphs for each inhibitor concentration and calculate the Vmax and Km of each reaction.</li>
	<li>According to the changes in Vmax and Km when using different concentrations, assess the GST inhibitor&#8217;s mode of inhibition. 
	NOTE: This step is explained in more detail in the results and discussion sections.</li>
	<li>Based on the mode of inhibition, calculate the Ki. 
	NOTE: In GraphPad Prism, different equations will be used to calculate the Ki according to the nature of the inhibition. The equations used are based on the observed Km and Vmax after addition of the inhibitor and compared to the control&#8217;s Km and Vmax.</li>
</ol>

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A guide for medicinal chemists and pharmacologists.</a> Methods of Biochemical Analysis. 46, 1 (2005).</li><li>Kalliokoski, T., Kramer, C., Vulpetti, A., Gedeck, P. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Comparability+of+Mixed+IC50+Data+-+A+Statistical+Analysis.">Comparability of Mixed IC50 Data - A Statistical Analysis.</a> PLoS ONE. 8 (4), (2013).</li><li>Brandt, R. B., Laux, J. E., Yates, S. W. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Calculation+of+inhibitor+Ki+and+inhibitor+type+from+the+concentration+of+inhibitor+for+50%+inhibition+for+Michaelis-Menten+enzymes.">Calculation of inhibitor Ki and inhibitor type from the concentration of inhibitor for 50% inhibition for Michaelis-Menten enzymes.</a> Biochemical Medicine and Metabolic Biology. 37 (3), 344-349 (1987).</li><li>Brooks, H. B., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Basics+of+Enzymatic+Assays+for+HTS.">Basics of Enzymatic Assays for HTS.</a> Eli Lilly &amp; Company and the National Center for Advancing Translational Sciences. , (2012).</li><li>Arakawa, S., et al. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Evaluation+of+hepatic+glutathione+transferase+Mu+1+and+Theta+1+activities+in+humans+and+mice+using+genotype+information.">Evaluation of hepatic glutathione transferase Mu 1 and Theta 1 activities in humans and mice using genotype information.</a> Drug Metabolism and Disposition: The Biological Fate of Chemicals. 40 (3), 497-503 (2012).</li><li>Sherratt, P. J., Pulford, D. J., Harrison, D. J., Green, T., Hayes, J. D. <a target="_blank" href="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Search&doptcmdl=Citation&defaultField=Title+Word&term=Evidence+that+human+class+Theta+glutathione+S-transferase+T1-1+can+catalyse+the+activation+of+dichloromethane,+a+liver+and+lung+carcinogen+in+the+mouse.+Comparison+of+the+tissue+distribution+of+GST+T1-1+with+that+of+classes+Alpha,+Mu+and+Pi+GST+in+human.">Evidence that human class Theta glutathione S-transferase T1-1 can catalyse the activation of dichloromethane, a liver and lung carcinogen in the mouse. Comparison of the tissue distribution of GST T1-1 with that of classes Alpha, Mu and Pi GST in human.</a> The Biochemical Journal. 326 (3), 837-846 (1997).</li></ol>

The authors have nothing to disclose.

We provide a protocol describing each step of a spectrophotometric GST enzyme assay, to screen putative inhibitors (Figure 1, Table 1) and quantify their inhibitory potency. We also emphasized the most crucial criteria to consider for accurate enzyme assays providing reproducible results. Major advantages of the described protocol over other colorimetric methods or mass spectrometry is that this protocol is quick and easy to perform and provide quantitative measurements of the GST activity as well as the inhibition potency of screened molecules.
We present the way of calculating the two most important Michaelis&#8211;Menten parameters of an enzyme inhibitor: the IC50 and the Ki. A potent inhibitor will exert the lowest possible Ki and IC50, indicating that the affinity between the inhibitor and the enzyme is high30. As IC50 is dependent upon the enzyme concentration and assay conditions33, it may be difficult to use this value to compare inhibitors from different experiments or obtained using other assay conditions34. Using the constant of inhibition Ki is a better indicator of the inhibitory potency of potential compounds. Ki can be used to compare two inhibitors with different modes of inhibition, as it relies solely on the affinity between the inhibitor and the enzyme. However, to have a clear idea of the nature of the inhibition one must determine both of the inhibitor&#8217;s parameters30. We measured curcumins&#8217; IC50 and Ki as 31.6 &#177; 3.6 &#181;M and 23.2 &#177; 3.2 &#181;M, respectively, indicating that this compound is a potent GST inhibitor. These results confirmed the in silico predictions, that estimated the Ki values between 27.4 to 78.1 &#181;M for different human GST isoforms and curcumin.
Enzymatic activity or rate of reaction and amount of enzyme&#160; 
As stated above, IC50 is dependent on the enzyme concentration, and conducting an experiment with an unknown level of enzymatic activity might lead to false conclusions33. To control for other factors, which might reduce inhibitory activity, one should consider and measure enzymatic activity for each new batch of GSTs. For instance, degradation of an enzymatic batch, caused by too many freeze/thaw cycles, might decrease the activity and thus lead to a lower IC50 even if the experiment was run under the same conditions. In other words, using 0.01 units of enzyme will not give the same results as using 1 unit. Using too many enzymes might lead to a rapid depletion of the substrate and the reaction will not have a linear shape. This parameter could thus lead to inexact result, as no change in absorbance would be seen after a long incubation time.
Km Value 
To ensure the best conditions for assessing the type of inhibition exhibited by an inhibitor, the substrate concentration must be equal to or below the Michaelis&#8211;Menten constant (Km). Km is represented by the concentration of substrate required to occupy half of the active sites on the enzyme28. For instance, higher substrate concentration can counteract a competitive inhibitor and assessing this type of inhibition will be difficult in such setting. Thus, one of the crucial steps in this methodology is the determination of the enzyme&#8217;s Km for the selected substrate (here CDNB). In some studies, this value was not determined and this could lead to false conclusions about the pattern of inhibition caused by the inhibitor, and, if the mode of inhibition is incorrect, the Ki will be calculated incorrectly as the equation relies on the pattern of inhibition26,28. If a different GST isoform is tested, a new assessment of the Km value is mandatory, as this value is unique for a pair of enzyme and ligand. As we used a concentration of CDNB slightly lower than the Km (0.2 mM), that we defined as 0.26 &#177; 0.08 mM, the predicted competitive mode of inhibition of curcumin on GST was accurately determined.
IC50 
Obtaining a good sigmoidal curve with which to estimate the IC50 requires finding both the bottom and top plateaus. The bottom plateau represents the concentrations of an inhibitor that provide the maximum inhibitory activity. In some cases, a compound might not inhibit the enzyme fully, even at high concentrations, because of such technical issues as solubility. However, tools like GraphPad Prism can fit the bottom plateau quite accurately. The top plateau is made up of concentrations of the inhibitor, which are insufficient to inhibit the enzyme, and therefore the activity is maximal. Both these plateaus are crucial to determining the IC50 as well as concentrations in between, in order to find the slope of the curve&#8212;then the IC50 can be derived from the shape of the sigmoid curve35. Curcumin is poorly soluble in water, thus the maximum concentration used in this assay is limited, to avoid precipitation in the assay solution. Thus, less concentrated solutions, which does not inhibit fully the GST activity, were used. This raised issues for the determination of the bottom plateau. To counter this problem, we predicted bottom values based on the non-linear regression graph, which provided an IC50 of 31.6 &#177; 3.6 &#181;M for curcumin (Figure 3A). For ethacrynic acid, there was no need to predict the values for the bottom plateau as this compound is soluble in the assay solution and the IC50 was measured at 6.6 &#177; 1.1 &#181;M.
This method can be applied to the most expressed GST isoforms in human, namely GSTA1, GSTM1 or GSTP1. However, this protocol is not suited to quantify the activity of the GSTT1 isoform, as CDNB is not a substrate for this subtype.36, 37 Meanwhile, the protocol can be slightly modified to counter this issue. For instance , using 1,2-epoxy-3-(4&#8217;-nitrophenoxy)propane (ENPP) as a substrate for GSTT1 and measure the quantity of conjugate at 360nm instead of 340nm.37
Steps of protocol can be the adapted and applied to test GST activity and inhibitor testing in cell culture experiments. Measurement of the GST activity on cells treated with and without a GST inhibitor will indicate if this compound can be used in such experimental setting. It is especially interesting when the inhibitor is lipophilic. For instance, we presented that curcumin is a potent GST inhibitor using this protocol. Nevertheless, its application to cellular studies may be limited, as the molecule is poorly soluble in water and degrades quickly in medium.31 Another amelioration of this protocol is possible regarding the non-isoform specificity of the substrate CDNB. Using this protocol in cell studies will only give information about the overall GST activity, but not on the activity of precise GST subtype. Adding isoform-specific substrate and/or using specific recombinant GST isoform will permit to test isoform specific GST inhibitors.
To conclude, we describe a complete procedure to test GST inhibitors that have potential to be used in combination with electrophilic chemotherapy. We emphasized the crucial steps of a GST enzyme and inhibition assay, to test potential interesting molecule and determine their efficiency as inhibitor with quantitative values, the IC50 and the Ki. This method can be applied to any putative compound and performed on the most expressed human GST isoforms (GSTA1, GSTM1 and GSTP1), or slightly adapted to perform cell culture studies with GST inhibitors or measure the activity of other interesting GST isoform of choice.
<table border="1" fo:keep-together.within-page="1" fo:keep-with-next.within-page="always" fo:text-align="center">
	<tbody>
		<tr>
			<td>Reagents</td>
			<td>Name</td>
			<td>Concentration in the assay solution</td>
			<td>Other</td>
		</tr>
		<tr>
			<td>Substrate</td>
			<td>CDNB</td>
			<td>Measured Km (mM)</td>
			<td>Diluted in 95% ethanol. The final ethanol concentration should be &#8804; 5% (v/v)</td>
		</tr>
		<tr>
			<td rowspan="2">Conjugating substrate</td>
			<td rowspan="2">GSH</td>
			<td rowspan="2">2.5 mM</td>
			<td>Diluted in water.</td>
		</tr>
		<tr>
			<td>The concentration must saturate the solution.</td>
		</tr>
		<tr>
			<td>Buffer</td>
			<td>PBS</td>
			<td>-</td>
			<td>pH = 7.1</td>
		</tr>
		<tr>
			<td>Enzyme</td>
			<td>Pool of GST isoforms or pure isoform</td>
			<td>0.01 unit/mL, determined experimentally.</td>
			<td>Diluted in water.</td>
		</tr>
		<tr>
			<td rowspan="2">GST inhibitor</td>
			<td rowspan="2">Potential compound of choice</td>
			<td>IC50: 3 concentrations that maximally inhibit, 3 that minimally inhibit, and 3 in between.</td>
			<td rowspan="2">Diluted in DMSO and then in water, to have a final concentration of DMSO &#8804; 1% (v/v)</td>
		</tr>
		<tr>
			<td>Ki: 3 concentrations around the IC50.</td>
		</tr>
		<tr>
			<td colspan="4" style="text-align:center;">Parameters</td>
		</tr>
		<tr>
			<td colspan="4" style="text-align:center;">Room temperature (25&#176;C)</td>
		</tr>
		<tr>
			<td colspan="4" style="text-align:center;">pH = 7.1</td>
		</tr>
		<tr>
			<td colspan="4" style="text-align:center;">DMSO &#8804; 1% (v/v)</td>
		</tr>
		<tr>
			<td colspan="4" style="text-align:center;">Ethanol &#8804; 5% (v/v)</td>
		</tr>
	</tbody>
</table>
Table 1: Summary of the reagents and parameters to consider during a GST inhibition assay.

Cytosolic glutathione S-transferase enzymes (GSTs, EC 2.5.1.18) catalyze the conjugation of glutathione (GSH) into various electrophilic compounds, such as chemotherapeutic agents, to detoxify and eliminate them easily from the body1. Seven isoforms of cytosolic GST have been identified as alpha, mu, pi, sigma, omega, theta, and zeta. GSTs are mainly expressed in the liver, testes, lungs, and gastrointestinal tract2. The GST alpha 1 (GSTA1) isoform is highly expressed in hepatocytes. The body heterogeneously expresses other subtypes, including GST pi 1 (GSTP1) predominantly in the brain, heart, and lungs, and GST mu 1 (GSTM1) in the liver and testes3. Although there is high sequence homology between GST isoforms, each exhibits substrate specificity and is implicated in drug metabolism and cancer in different ways, according to its differential expression4,5.
Electrophilic compounds either enter the body exogenously or are produced endogenously. Pesticides, prostaglandins, carcinogens, and chemotherapeutic drugs are some of the potential substrates for glutathione conjugation reactions6. For example, any electron-deficient reactive compound formed within a cell is likely to become an electrophilic substrate. Alkylating agents such as chlorambucil or melphalan are eliminated as conjugates of GSH catalyzed by GSTs, and increased levels of these enzymes have been correlated with resistance to these compounds6,7.
Another important role of cytosolic GSTs is regulating the activity of mitogen-activated protein kinases (MAPK) such as MAPK8 (also known as c-Jun N-terminal kinase, or JNK1) and MAP3K5 (also known as apoptosis signal-regulating kinase 1, or ASK1)8. Some isoforms in their monomeric conformation will bind to these proteins and thus block the phosphorylation cascade. Under normal conditions, the GSTP1 isoform will sequester MAPK8 (the activator of the c-Jun protein). Combining the c-Jun with the c-Fos protein forms the activator protein 1 (AP-1) transcription factor, which is responsible for transcribing pro-apoptotic genes. In stressed cells, the complex formed by GSTP1 and MAPK8 dissociates, c-Jun is activated, and the genes leading to apoptosis start to be expressed9. Greater expression of this GST isoform might therefore block the pathway, leading to increased cell viability, more cellular proliferation, and lower cellular sensitivity to chemotherapy. Similar scenarios may occur with paralogs of GSTP1, for example, GSTM1, which interacts with MAP3K510.
The roles played by GSTs in drug metabolism and in the sequestration of MAPKs led to the hypothesis that a greater expression of GSTs might be a sign of a tumoral resistance mechanism to chemotherapeutic treatment6,11. For example, GSTP1 is overexpressed in numerous cancers and its presence has been correlated with a poor prognosis and an increased incidence of relapse8. Polymorphism in these genes has also shown differential drug exposure and survival rates for patients presenting various diseases, reinforcing the idea that these enzymes are crucial to mechanisms of drug resistance. For instance, individuals with the GSTM1 null genotype are associated with lower drug clearance and better survival12,13. There are several potential means of countering this overexpression, such as the use of GSH analogues, prodrugs that are activated by conjugation with GSTs, or direct GST inhibitors14,15.
All these methods are currently under investigation, and a few compounds have begun clinical trials for their potential usage among patients. However, to the best of our knowledge, there are no compounds in use as GST inhibitors in clinical settings15. Indeed, a lack of specificity for certain isoforms or the depletion of GSH in normal cells, which may lead to toxicities caused by the accumulation of reactive oxygen species (ROS) in organ systems, are just some of the drawbacks which reduce the potential of GST inhibitors14,15. The risk that these compounds might exert other pharmacodynamic effects on the body are also limiting their usage. Ethacrynic acid, for instance, is the most widely studied GST inhibitor in laboratory environments, but because it is primarily used as a strong diuretic, this property limits its use in combination with other drugs in clinical settings. Curcumin is another natural compound successfully screened as a GST inhibitor. This molecule is a polyphenol ether extracted from the Curcuma longa species of turmeric. It has shown promising results as a possible treatment option against cancer by inducing the apoptosis of various kind of tumor cell lines16,17. The compound can regulate diverse cellular pathways, such as the tyrosine kinase18 or the GST pathway. Studies with pure proteins have shown its inhibition potency on GSTA1, GSTM1 and GSTP119,20. However, conflicting results were observed in cancer cells, where greater intracellular GST activity was measured when cells were treated with curcumin21. Thus, it is important to investigate half-maximal inhibitory concentration (IC50) and the constant of inhibition (Ki) of any putative GST inhibitor using a clearly described protocol with proper controls before planning any further cellular experiments.
Screening and testing potential new GST inhibitors is therefore of significant clinical interest, and any new compound found must be safe and efficient for use in combination with electrophilic drugs. Focusing research on isoform-specific inhibitors might enable GST inhibition in tumor tissues exhibiting specific patterns of GST expression, thus allowing the development of an effective combination therapy. Finding inhibitors with differential modes of inhibition might also be of interest. For instance, a competitive inhibitor that uses GSH as a substrate can induce its depletion. This reduction of the GSH concentration in cells was shown to induce oxidative stress in neurons, leading to apoptosis. Another common mode of inhibition&#8212;uncompetitive inhibition&#8212;cannot be reversed even if the substrate is present in high concentrations.
The rate of enzymatic activity is represented by the Michaelis-Menten constant (Km) and the maximum velocity (Vmax), which can be determined by plotting a Michaelis-Menten graph, with the substrate concentration against the velocity of the reaction23. Km is the concentration of substrate required to occupy half the enzymatic active sites, meaning that a high Km represent less affinity. Vmax represents the maximum velocity of the reaction, reached when all the active sites are occupied by the substrate. Km is equal to half Vmax. There are three most common modes of inhibition: competitive, uncompetitive, and noncompetitive. In case of competitive inhibition, the inhibitor binds to the active site of the enzyme and competes with the substrate. Hence, Vmax does not change after addition of the inhibitor, but Km increases, as more substrate is needed to counter the inhibition. Uncompetitive inhibition occurs only when the substrate forms a complex with the enzyme. In this case, as the level of inhibition depends on the substrate and enzyme concentration, Vmax and Km decrease when the inhibitor is added to the reaction. The last mode of inhibition is non-competitive and is a mix of the two other inhibition patterns. The inhibitor can bind to the active site of the enzyme whether the enzyme is bound to its substrate or not. Here Vmax decreases after addition of the inhibitor, but Km does not change24.
A spectrophotometric assay that measured the GST activity was first developed by Habig et al. in 1974 using 1-chloro-2,4-dinitrobenzene (CDNB) as the substrate for the reaction22. Conjugation between GSH and CDNB forms GS-DNB, which exhibits a maximum light absorbance at the wavelength of 340 nm, recordable with a spectrophotometer. Most of the technique explained below is derived from Habig et al., including information on the best settings and important optimization points for an inhibitory assay. The technique can be applied to screening potential GST inhibitors, whether chosen by rational drug selection using computational predictions or by literature review. How to adapt the protocol to newly synthesized GST proteins or specific isoforms is also discussed. For instance, testing the inhibitory potency of GST isoforms exhibiting a clinically relevant polymorphism or of single-nucleotide polymorphisms (SNPs) could be potential uses for this protocol, targeting patient-specific GSTs.
This protocol provides a quick, feasible, and effective method for the screening of potential GST inhibitors in vitro before any other functional studies. The steps needed to evaluate the most commonly measured characteristics of an enzymatic inhibitor are described: the inhibitory concentration 50 (IC50) that is concentration of inhibitor required to decrease the enzymatic activity by half; and the constant of inhibition (Ki) that represents the equilibrium constant of the dissociation between the inhibitor and the enzyme, characteristic of the affinity between these two molecules. These two values are measured by non-linear regression and using equations specific for each mode of inhibition, respectively. We also demonstrate the assessment of this pattern of inhibition, using Michaelis-Menten plots to determine the change of Vmax and Km after addition of the inhibitor23,25,26.

<table>
	<tbody>
		<tr>
			<td>1-Chloro-2,4-dinitrobenzene (CDNB)</td>
			<td>Sigma-Aldrich</td>
			<td>237329</td>
			<td>Substrate used for the GST enzymatic assay</td>
		</tr>
		<tr>
			<td>Corning UV-Transparent Microplates</td>
			<td>Sigma-Aldrich</td>
			<td>CLS3635</td>
			<td>Transparent plate to perform the enzymatic assay. 
			When using 200 ul, the pathlength is 0.552 cm for this plate.</td>
		</tr>
		<tr>
			<td>Curcumin</td>
			<td>Sigma-Aldrich</td>
			<td>8511</td>
			<td>Used for the results section, to test the inhibition potency of curcumin</td>
		</tr>
		<tr>
			<td>Dimethyl sulfoxide (DMSO)</td>
			<td>Sigma-Aldrich</td>
			<td>D2650</td>
			<td>To prepare the stock of the putative inhibitor</td>
		</tr>
		<tr>
			<td>DPBS</td>
			<td>Sigma-Aldrich</td>
			<td>D8537</td>
			<td>Buffer for the enzymatic reaction</td>
		</tr>
		<tr>
			<td>Ethanol 95%</td>
			<td>Fisher scientific</td>
			<td>10542382</td>
			<td>To dilute the CDNB</td>
		</tr>
		<tr>
			<td>Glutathione S-Transferase from equine liver</td>
			<td>Sigma-Aldrich</td>
			<td>G6511</td>
			<td>Used for the results section, to test the inhibition potency of curcumin</td>
		</tr>
		<tr>
			<td>L-glutathione reduced (GSH)</td>
			<td>Sigma-Aldrich</td>
			<td>G4251</td>
			<td>Co-substrate for the GST enzymatic assay</td>
		</tr>
		<tr>
			<td>Pierce BCA Protein Assay Kit</td>
			<td>ThermoFisher</td>
			<td>23225</td>
			<td>To quantify the amount of protein present in the enzymatic solution</td>
		</tr>
		<tr>
			<td>Spectramax iD3</td>
			<td>Molecular devices</td>
			<td></td>
			<td>To do spectrophotometric measurments</td>
		</tr>
	</tbody>
</table>

spectrophotometric screening for potential inhibitors of cytosolic glutathione s-transferases

Glutathione S-transferases (GSTs) are metabolic enzymes responsible for the elimination of endogenous or exogenous electrophilic compounds by glutathione (GSH) conjugation. In addition, GSTs are regulators of mitogen-activated protein kinases (MAPKs) involved in apoptotic pathways. Overexpression of GSTs is correlated with decreased therapeutic efficacy among patients undergoing chemotherapy with electrophilic alkylating agents. Using GST inhibitors may be a potential solution to reverse this tendency and augment treatment potency. Achieving this goal requires the discovery of such compounds, with an accurate, quick, and easy enzyme assay. A spectrophotometric protocol using 1-chloro-2,4-dinitrobenzene (CDNB) as the substrate is the most employed method in the literature. However, already described GST inhibition experiments do not provide a protocol detailing each stage of an optimal inhibition assay, such as the measurement of the Michaelis-Menten constant (Km) for CDNB or indication of the employed enzyme concentration, crucial parameters to assess the inhibition potency of a tested compound. Hence, with this protocol, we describe each step of an optimized spectrophotometric GST enzyme assay, to screen libraries of potential inhibitors. We explain the calculation of both the half-maximal inhibitory concentration (IC50) and the constant of inhibition (Ki)&#8212;two characteristics used to measure the potency of an enzyme inhibitor. The method described can be implemented using a pool of GSTs extracted from cells or pure recombinant human GSTs, namely GST alpha 1 (GSTA1), GST mu 1 (GSTM1) or GST pi 1 (GSTP1). However, this protocol cannot be applied to GST theta 1 (GSTT1), as CDNB is not a substrate for this isoform. This method was used to test the inhibition potency of curcumin using GSTs from equine liver. Curcumin is a molecule exhibiting anti-cancer properties and showed affinity towards GST isoforms after in silico docking predictions. We demonstrated that curcumin is a potent competitive GST inhibitor, with an IC50 of 31.6 &#177; 3.6 &#181;M and a Ki of 23.2 &#177; 3.2 &#181;M. Curcumin has potential to be combined with electrophilic chemotherapy medication to improve its efficacy.

Michaelis-Menten constant (Km) of CDNB with GST from equine liver 
Curcumin is a safe natural compound even after ingestion at higher doses27 that showed anticancer properties16. The inhibitory potency of this molecule has been demonstrated on human recombinant GSTs19,20. By using the described protocol, we evaluated curcumin&#8217;s effect on GST activity using a pool of GST isoforms from equine liver. According to the supplier, the specific activity of this mix of proteins is 25 U/mg. A stock solution of 0.1 U/mL was prepared by dissolving the lyophilized powder in the appropriate amount of water. Ethacrynic acid was used in parallel as a positive control as this compound is the most widely used GST inhibitor in studies. Steps in setting up a GST activity assay and testing of inhibitors is outlined in Figure 1.
The Km has to be defined for each enzyme substrate reaction because using the substrate concentration equivalent to Km would ensure no bias regarding the determination of the mode of inhibition28. Six different concentrations of CDNB, ranging from 0.5 mM to 5 mM, were tested to measure this parameter, using a fixed concentration of 2.5 mM GSH.
The reaction&#8217;s final volume was 200 &#181;L, in a 96-well plate. A specific blank was used for each experiment, using the same concentration of CDNB as the test well because spontaneous conjugation of CDNB and GSH could occur and might increase absorbance. A final enzyme concentration of 0.01 unit/mL was used for all the reactions, by adding 20 &#181;L of the stock solution to the assay mix. Absorbance at 340 nm was recorded every minute for 10 minutes. The velocity (in mM/min) of the reaction was calculated using Equation 2. A Michaelis&#8211;Menten graph was plotted of the substrate concentration (mM) against the velocity (&#181;M/min) (Figure 2), and the Km of the reaction was calculated. The experiment was repeated until at least three sets of data showed similar results. The Km of CDNB with GST from equine liver was measured as 0.26 &#177; 0.08 mM. A concentration of 0.2 mM of CDNB was used for each inhibitory assay using this batch of GSTs.
No spontaneous formation of a metabolite that absorbed at 340 nm was measured during experiments using curcumin incubated alone with GSH and CDNB. The same blank was used for every inhibitor concentration in each experiment.
Curcumin&#8217;s inhibitory potency on GSTs 
Curcumin&#8217;s inhibitory potency was predicted using an in silico docking simulation with software (e.g., AutoDock Vina version 1.1.2).29 The free binding energy between different GST isoforms (namely GSTA1, GSTM1 and GSTP1) and curcumin was predicted (data not shown). Then, the constant of inhibition Ki was calculated using Equation 3.
Equation 3: 
<img alt="Equation 3" src="/files/ftp_upload/61347/61347equ03v2.jpg" /> 
where &#8710;G is the free binding energy found using the in silico analysis, R is the gas constant of 1.987 cal*K-1*mol-1, and T is the temperature during the experiment, in this case in Kelvin (298 K).
Based on the free binding energy results returned by the AutoDock Vina, curcumin is a potent GST inhibitor of human GSTA1, GSTM1 and GSTP1, with Ki values of 78.1 &#181;M, 78.1 &#181;M and 27.4 &#181;M respectively. The first inhibitory assays were conducted using these computational Ki estimations, and the concentrations were adjusted according to the results, if necessary.
First, the IC50 was estimated. This characteristic is the concentration of inhibitor that reduces an enzyme&#8217;s reaction rate by 50%. It is therefore dependent on the enzyme concentration30. Nine final concentrations of the inhibitor were prepared, ranging from 0.39 &#181;M to 100 &#181;M with each concentration double that of the previous one. The assay solution was composed of 20 &#181;L of GSH 2.5 mM, 20 &#181;L of GST from equine liver at 0.01 U/mL final, 2 &#181;L of the curcumin solution, and 148 &#181;L of PBS. The control was composed of the same solution with the diluent used for curcumin. This mixture was incubated for 15 minutes to begin the enzyme assay and to avoid degradation of the curcumin in the assay solution, as this compound is unstable in buffer solutions31. Next, 10 &#181;L of CDNB solution at 4 mM was added to each well, for a final concentration of 0.2 mM CDNB. Absorbance at 340 nm was recorded every minute for 10 minutes, to calculate changes in absorbance per minute. To calculate the IC50, each sample incubated with curcumin was normalized to the control, to give the percentage of activity. These results were analyzed using the plotting software by calculating the non-linear regression of the logarithmic concentration of the inhibitor versus the inhibition. The IC50 found for curcumin on GST from equine liver was 31.6 &#177; 3.6 &#181;M (Figure 3A).
The same experiment was conducted in parallel using ethacrynic acid as a positive control, with concentrations ranging from 0.39 to 100 &#181;M, as with curcumin. The IC50 was found to be 6.6 &#177; 1.1 &#181;M (Figure 3B).
The next step was to assess curcumin&#8217;s mode of inhibition on these transferases. Four different concentrations of curcumin were tested: 0, 7.5, 15, and 30 &#181;M, along with four different concentrations of CDNB: 0.2, 0.4, 1, and 1.5 mM. The protocol was the same as for the previous experiment. Each condition&#8217;s velocity was calculated using Equation 2. A curve was plotted for each inhibitor concentration, with the velocity (in &#181;M/min) against the substrate concentration (mM) (Figure 3C). The Vmax and Km were determined based on each plot with GraphPad Prism. The potential inhibitor&#8217;s mode of inhibition was assessed according to the changes in these two parameters and the assays&#8217; different condition.24 As Vmax did not significantly change between conditions but Km increased with the different inhibitor concentrations, curcumin&#8217;s inhibition of GSTs is competitive. This pattern of inhibition occurs when the inhibitor competes with the substrate for the active site of the enzyme. To measure the Ki of a competitive inhibitor, GraphPad uses Equation 4 and Equation 5 as described by Copeland et al.32. 
Equation 4: 
<img alt="Equation 4" src="/files/ftp_upload/61347/61347equ04v2.jpg" /> 
Equation 5: 
<img alt="Equation 5" src="/files/ftp_upload/61347/61347equ05v2.jpg" /> 
where Km obs is the observed Michaelis&#8211;Menten constant, Km is the Michaelis&#8211;Menten constant of the control, [I] is the inhibitor concentration, Ki is the constant of inhibition, Y is the velocity, and X is the substrate concentration.
The calculations are based on the same experiments as the assessment of the mode of inhibition. The Ki estimated for curcumin&#8217;s inhibition of GST from equine liver was 23.2 &#177; 3.2 &#181;M.
<img alt="Figure 1" class="xfigimg" src="/files/ftp_upload/61347/61347fig01.jpg" /> 
Figure 1: Flowchart describing the steps of the GST enzymatic and inhibition assays.&#160;Details about the procedure are presented in the protocol section. <a href="https://www.jove.com/files/ftp_upload/61347/61347fig01large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 2" class="xfigimg" src="/files/ftp_upload/61347/61347fig02.jpg" /> 
Figure 2: Michaelis-Menten plot of GST enzyme activity.&#160;Increased concentration of the substrate CDNB were used with a fixed concentration of GSH (2.5 mM) to determine the GST activity from a pool of GST from equine liver. Km value for CDNB was determined as 0.26 &#177; 0.08 mM according to the curve of the graph. Each data point on the plot represents the mean of four different experimental runs with SD. <a href="https://www.jove.com/files/ftp_upload/61347/61347fig02large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>
<img alt="Figure 3" class="xfigimg" src="/files/ftp_upload/61347/61347fig03.jpg" /> 
Figure 3: Effect of curcumin and ethacrynic acid on GST enzyme activity.&#160;(A-B) Addition of increasing concentrations of either curcumin (A) or the positive control ethacrynic acid (B), whilst keeping the same GST (0.01 U/mL), GSH (2.5 mM) and CDNB (0.2 mM) final concentrations were used to calculate the IC50 of both compounds for GST from equine liver with a non-linear regression. IC50 was determined as 31.6 &#177; 3.6 &#181;M for curcumin and 6.6 &#177; 1.1 &#181;M for ethacrynic acid. (C) Michaelis&#8211;Menten plot of different concentrations of curcumin, tested against varying concentrations of CDNB substrate indicating a competitive mode of inhibition. With no inhibitor, Vmax and Km were measured as 132.7 &#177; 4.6 &#181;M and 0.5 &#177; 0.08 &#181;M, respectively. With 30 &#181;M of curcumin, Vmax and Km were 130.4 &#177; 13.1 &#181;M and 1.08 &#177; 0.39 &#181;M. Data points in all graphs (A-C) represent the means of three different experimental runs with SD. <a href="https://www.jove.com/files/ftp_upload/61347/61347fig03large.jpg" target="_blank">Please click here to view a larger version of this figure.</a>

Watch this Scientific Journal Video about Spectrophotometric Screening for Potential Inhibitors of Cytosolic Glutathione S-Transferases at JoVE.com

Spectrophotometric Screening for Potential Inhibitors of Cytosolic Glutathione S-Transferases

Sitosolion Glutatyon S-Transferazlarının Potansiyel Inhibitörleri için Spektrofotometrik Tarama

Glutathione S-transferases (GSTs) are detoxification enzymes involved in the metabolism of numerous chemotherapeutic drugs. Overexpression of GSTs is correlated with cancer chemotherapy resistance. One way to counter this phenotype is to use inhibitors. This protocol describes a method using a spectrophotometric assay to screen for potential GST inhibitors.

Glutathione S-transferases (GSTs) are metabolic enzymes responsible for the elimination of endogenous or exogenous electrophilic compounds by glutathione ...

spectrophotometric-screening-for-potential-inhibitors-cytosolic

Research

JoVE Journal

Biochemistry

14.2K Görüntüleme.  University of Geneva. Glutatyon S-transferazları, GST'ler, hücre içi elektrofilik bileşikleri bozan ve apoptoz iskende yer alan MAP kinazlarla etkileşime giren metabolik enzimlerdir. GST ifade bu iki rol ilaç direnci ile ilişkili olduğu için, bu sorunu karşı koymak için bir çözüm enzimatik inhibitörleri kullanmaktır. Bu protokolle, bu tür molekülleri test etmenin bir yolunu sağlıyoruz.Bu yöntem, enzim-bileşiğin etkileşimini incelemek için hızlı ve kolay bir yöntem kullanmak iste...

Video: Spectrophotometric Screening for Potential Inhibitors of Cytosolic Glutathione S-Transferases

Method for Identifying Small Molecule Inhibitors of the Protein-protein Interaction Between HCN1 and TRIP8b

Hyperpolarization-activated cyclic nucleotide-gated (HCN) channels are expressed ubiquitously throughout the brain, where they function to regulate the excitability of neurons. The subcellular distribution of these channels in pyramidal neurons of hippocampal area CA1 is regulated by tetratricopeptide repeat-containing Rab8b interacting protein (TRIP8b), an auxiliary subunit. Genetic knockout of HCN pore forming subunits or TRIP8b, both lead to an increase in antidepressant-like behavior, suggesting that limiting the function of HCN channels may be useful as a treatment for Major Depressive Disorder (MDD). Despite significant therapeutic interest, HCN channels are also expressed in the heart, where they regulate rhythmicity. To circumvent off-target issues associated with blocking cardiac HCN channels, our lab has recently proposed targeting the protein-protein interaction between HCN and TRIP8b in order to specifically disrupt HCN channel function in the brain. TRIP8b binds to HCN pore forming subunits at two distinct interaction sites, although here the focus is on the interaction between the tetratricopeptide repeat (TPR) domains of TRIP8b and the C terminal tail of HCN1. In this protocol, an expanded description of a method for purifying TRIP8b and executing a high throughput screen to identify small molecule inhibitors of the interaction between HCN and TRIP8b, is described. The method for high throughput screening utilizes a Fluorescence Polarization (FP) -based assay to monitor the binding of a large TRIP8b fragment to a fluorophore-tagged eleven amino acid peptide corresponding to the HCN1 C terminal tail. This method allows &#39;hit&#39; compounds to be identified based on the change in the polarization of emitted light. Validation assays are then performed to ensure that &#39;hit&#39; compounds are not artifactual.

The interaction between HCN channels and their auxiliary subunit has been identified as a therapeutic target in Major Depressive Disorder. Here, a fluorescence polarization-based method for identifying small molecule inhibitors of this protein-protein interaction, is presented.

Yöntem HCN1 ve TRIP8b arasında protein-protein etkileşimi küçük molekül önleyicilerinin tespit edilmesi için

Hyperpolarization-activated cyclic nucleotide-gated (HCN) channels are expressed ubiquitously throughout the brain, where they function to regulate the ...

Biyokimya

Spectrophotometric Determination of Phycobiliprotein Content in Cyanobacterium Synechocystis

This is a simple protocol for the quantitative determination of phycobiliprotein content in the model cyanobacterium Synechocystis. Phycobiliproteins are the most important components of phycobilisomes, the major light-harvesting antennae in cyanobacteria and several algae taxa. The phycobilisomes of Synechocystis contain two phycobiliproteins: phycocyanin and allophycocyanin. This protocol describes a simple, efficient, and reliable method for the quantitative determination of both phycocyanin and allophycocyanin in this model cyanobacterium. We compared several methods of phycobiliprotein extraction and spectrophotometric quantification. The extraction procedure as described in this protocol was also successfully applied to other cyanobacteria strains such as Cyanothece sp., Synechococcuselongatus, Spirulina sp., Arthrospira sp., and Nostoc sp., as well as to red algae Porphyridium cruentum. However, the extinction coefficients of specific phycobiliproteins from various taxa can differ and it is, therefore, recommended to validate the spectrophotometric quantification method for every single strain individually. The protocol requires little time and can be performed in any standard life science laboratory since it requires only standard equipment.

Spectrophotometric Determination of Phycobiliprotein Content in Cyanobacterium Synechocystis

Here, we present a protocol to quantitatively determine phycobiliprotein content in the cyanobacterium Synechocystis using a spectrophotometric method. The extraction procedure was also successfully applied to other cyanobacteria and algae strains; however, due to variations in pigment absorption spectra, it is necessary to test the spectrophotometric equations for each strain individually.

Cyanobacterium Synechocystis Phycobiliprotein içeriğinde spektrofotometrik tayini

This is a simple protocol for the quantitative determination of phycobiliprotein content in the model cyanobacterium Synechocystis. Phycobiliproteins are ...

Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules

Single-molecule localization microscopy probes the position and motions of individual molecules in living cells with tens of nanometer spatial and millisecond temporal resolution. These capabilities make single-molecule localization microscopy ideally suited to study molecular level biological functions in physiologically relevant environments. Here, we demonstrate an integrated protocol for both acquisition and processing/analysis of single-molecule tracking data to extract the different diffusive states a protein of interest may exhibit. This information can be used to quantify molecular complex formation in living cells. We provide a detailed description of a camera-based 3D single-molecule localization experiment, as well as the subsequent data processing steps that yield the trajectories of individual molecules. These trajectories are then analyzed using a numerical analysis framework to extract the prevalent diffusive states of the fluorescently labeled molecules and the relative abundance of these states. The analysis framework is based on stochastic simulations of intracellular Brownian diffusion trajectories that are spatially confined by an arbitrary cell geometry. Based on the simulated trajectories, raw single-molecule images are generated and analyzed in the same way as experimental images. In this way, experimental precision and accuracy limitations, which are difficult to calibrate experimentally, are explicitly incorporated into the analysis workflow. The diffusion coefficient and relative population fractions of the prevalent diffusive states are determined by fitting the distributions of experimental values using linear combinations of simulated distributions. We demonstrate the utility of our protocol by resolving the diffusive states of a protein that exhibits different diffusive states upon forming homo- and hetero-oligomeric complexes in the cytosol of a bacterial pathogen.

3D single-molecule localization microscopy is utilized to probe the spatial positions and motion trajectories of fluorescently labeled proteins in living bacterial cells. The experimental and data analysis protocol described herein determines the prevalent diffusive behaviors of cytosolic proteins based on pooled single-molecule trajectories.

Tek Moleküllü İzleme Mikroskobu - Sitosolik Moleküllerin Diffüz Durumlarını Belirlemede Bir Araç

Single-molecule localization microscopy probes the position and motions of individual molecules in living cells with tens of nanometer spatial and ...

Kinetic Screening of Nuclease Activity using Nucleic Acid Probes

Nucleases are a class of enzymes that break down nucleic acids by catalyzing the hydrolysis of the phosphodiester bonds that link the ribose sugars. Nucleases display a variety of vital physiological roles in prokaryotic and eukaryotic organisms, ranging from maintaining genome stability to providing protection against pathogens. Altered nuclease activity has been associated with several pathological conditions including bacterial infections and cancer. To this end, nuclease activity has shown great potential to be exploited as a specific biomarker. However, a robust and reproducible screening method based on this activity remains highly desirable.
Herein, we introduce a method that enables screening for nuclease activity using nucleic acid probes as substrates, with the scope of differentiating between pathological and healthy conditions. This method offers the possibility of designing new probe libraries, with increasing specificity, in an iterative manner. Thus, multiple rounds of screening are necessary to refine the probes&#39; design with enhanced features, taking advantage of the availability of chemically modified nucleic acids. The considerable potential of the proposed technology lies in its flexibility, high reproducibility, and versatility for the screening of nuclease activity associated with disease conditions. It is expected that this technology will allow the development of promising diagnostic tools with a great potential in the clinic.

Altered nuclease activity has been associated with different human conditions, underlying its potential as a biomarker. The modular and easy to implement screening methodology presented in this paper allows the selection of specific nucleic acid probes for harnessing nuclease activity as a biomarker of disease.

Nükleik Asit Probları Kullanılarak Nükleaz Aktivitesinin Kinetik Taraması

Nucleases are a class of enzymes that break down nucleic acids by catalyzing the hydrolysis of the phosphodiester bonds that link the ribose sugars. ...

A Semi-High-Throughput Adaptation of the NADH-Coupled ATPase Assay for Screening Small Molecule Inhibitors

ATPase enzymes utilize the free energy stored in adenosine triphosphate to catalyze a wide variety of endergonic biochemical processes in vivo that would not occur spontaneously. These proteins are crucial for essentially all aspects of cellular life, including metabolism, cell division, responses to environmental changes and movement. The protocol presented here describes a nicotinamide adenine dinucleotide (NADH)-coupled ATPase assay that has been adapted to semi-high throughput screening of small molecule ATPase inhibitors. The assay has been applied to cardiac and skeletal muscle myosin II's, two actin-based molecular motor ATPases, as a proof of principle. The hydrolysis of ATP is coupled to the oxidation of NADH by enzymatic reactions in the assay. First, the ADP generated by the ATPase is regenerated to ATP by pyruvate kinase (PK). PK catalyzes the transition of phosphoenolpyruvate (PEP) to pyruvate in parallel. Subsequently, pyruvate is reduced to lactate by lactate dehydrogenase (LDH), which catalyzes the oxidation of NADH in parallel. Thus, the decrease in ATP concentration is directly correlated to the decrease in NADH concentration, which is followed by change to the intrinsic fluorescence of NADH. As long as PEP is available in the reaction system, the ADP concentration remains very low, avoiding inhibition of the ATPase enzyme by its own product. Moreover, the ATP concentration remains nearly constant, yielding linear time courses. The fluorescence is monitored continuously, which allows for easy estimation of the quality of data and helps to filter out potential artifacts (e.g., arising from compound precipitation or thermal changes).

A nicotinamide adenine dinucleotide (NADH)-coupled ATPase assay has been adapted to semihigh throughput screening of small molecule myosin inhibitors. This kinetic assay is run in a 384-well microplate format with total reaction volumes of only 20 &#181;L per well. The platform should be applicable to virtually any ADP producing enzyme.

Küçük Molekül Inhibitörlerinin Taranması için NADH-Coupled ATPase Tsay'ın Yarı-Yüksek İş-İşLenme Adaptasyonu

ATPase enzymes utilize the free energy stored in adenosine triphosphate to catalyze a wide variety of endergonic biochemical processes in vivo that would ...

Screening for Thermotoga maritima Membrane-Bound Pyrophosphatase Inhibitors

Membrane-bound pyrophosphatases (mPPases) are dimeric enzymes that occur in bacteria, archaea, plants, and protist parasites. These proteins cleave pyrophosphate into two orthophosphate molecules, which is coupled with proton and/or sodium ion pumping across the membrane. Since no homologous proteins occur in animals and humans, mPPases are good candidates in the design of potential drug targets. Here we present a detailed protocol to screen for mPPase inhibitors utilizing the molybdenum blue reaction in a 96 well plate system. We use mPPase from the thermophilic bacterium Thermotoga maritima (TmPPase) as a model enzyme. This protocol is simple and inexpensive, producing a consistent and robust result. It takes only about one hour to complete the activity assay protocol from the start of the assay until the absorbance measurement. Since the blue color produced in this assay is stable for a long period of time, subsequent assay(s) can be performed immediately after the previous batch, and the absorbance can be measured later for all batches at once. The drawback of this protocol is that it is done manually and thus can be exhausting as well as require good skills of pipetting and time keeping. Furthermore, the arsenite-citrate solution used in this assay contains sodium arsenite, which is toxic and should be handled with necessary precautions.

Screening for Thermotoga maritima Membrane-Bound Pyrophosphatase Inhibitors

Here we present a screening method for membrane-bound pyrophosphatase (from Thermotoga maritima) inhibitors based on the molybdenum blue reaction in a 96 well plate format.

Thermotoga maritima Membran Bağlı Pirofosfataz Inhibitörleri için tarama

Membrane-bound pyrophosphatases (mPPases) are dimeric enzymes that occur in bacteria, archaea, plants, and protist parasites. These proteins cleave ...

Spectrophotometric Methods for the Study of Eukaryotic Glycogen Metabolism

Glycogen is synthesized as a storage form of glucose by a wide array of organisms, ranging from bacteria to animals. The molecule comprises linear chains of &#945;1,4-linked glucose residues with branches introduced through the addition of &#945;1,6-linkages. Understanding how the synthesis and degradation of glycogen are regulated and how glycogen attains its characteristic branched structure requires the study of the enzymes of glycogen storage. However, the methods most commonly used to study these enzyme activities typically employ reagents or techniques that are not available to all investigators. Here, we discuss a battery of procedures that are technically simple, cost-effective, and yet still capable of providing valuable insight into the control of glycogen storage. The techniques require access to a spectrophotometer, operating in the range of 330 to 800 nm, and are described assuming that the users will employ disposable, plastic cuvettes. However, the procedures are readily scalable and can be modified for use in a microplate reader, allowing highly parallel analysis.

Techniques to measure the activity of key enzymes of glycogen metabolism are presented, using a simple spectrophotometer operating in the visible range.

Ökaryotik Glikojen Metabolizmasının İncelenmesi için Spektrofotometrik Yöntemler

Glycogen is synthesized as a storage form of glucose by a wide array of organisms, ranging from bacteria to animals. The molecule comprises linear chains ...

Purification of Endogenous Drosophila Transient Receptor Potential Channels

Drosophila phototransduction is one of the fastest known G protein-coupled signaling pathways. To ensure the specificity and efficiency of this cascade, the calcium (Ca2+)-permeable cation channel, transient receptor potential (TRP), binds tightly to the scaffold protein, inactivation-no-after-potential D (INAD), and forms a large signaling protein complex with eye-specific protein kinase C (ePKC) and phospholipase C&#946;/No receptor potential A (PLC&#946;/NORPA). However, the biochemical properties of the Drosophila TRP channel remain unclear. Based on the assembling mechanism of INAD protein complex, a modified affinity purification plus competition strategy was developed to purify the endogenous TRP channel. First, the purified histidine (His)-tagged NORPA 863-1095 fragment was bound to Ni-beads and used as bait to pull down the endogenous INAD protein complex from Drosophila head homogenates. Then, excessive purified glutathione S-transferase (GST)-tagged TRP 1261-1275 fragment was added to the Ni-beads to compete with the TRP channel. Finally, the TRP channel in the supernatant was separated from the excessive TRP 1261-1275 peptide by size-exclusion chromatography. This method makes it possible to study the gating mechanism of the Drosophila TRP channel from both biochemical and structural angles. The electrophysiology properties of purified Drosophila TRP channels can also be measured in the future.

Purification of Endogenous Drosophila Transient Receptor Potential Channels

Based on the assembling mechanism of the INAD protein complex, in this protocol, a modified affinity purification plus competition strategy was developed to purify the endogenous Drosophila TRP channel.

Endojen Drosophila Geçici Reseptör Potansiyel Kanallarının Saflaştırılması

Drosophila phototransduction is one of the fastest known G protein-coupled signaling pathways. To ensure the specificity and efficiency of this cascade, ...

Malachite Green Assay for the Discovery of Heat-Shock Protein 90 Inhibitors

Heat shock protein 90 (Hsp90) is a promising anticancer target because of its chaperoning effect on multiple oncogenic proteins. The activity of Hsp90 is dependent on its ability to hydrolyze adenosine triphosphate (ATP) to adenosine diphosphate (ADP) and free phosphate. The ATPase activity of Hsp90 is linked to its chaperoning function; ATP binds to the N-terminal domain of the Hsp90, and disrupting its binding was found to be the most successful strategy in suppressing Hsp90 function. The ATPase activity can be measured by a colorimetric malachite green assay, which determines the amount of free phosphate formed by ATP hydrolysis. Here, a procedure for determining the ATPase activity of yeast Hsp90 by using the malachite green phosphate assay kit is described. Further, detailed instructions for the discovery of Hsp90 inhibitors by taking geldanamycin as an authentic inhibitor is provided. Finally, the application of this assay protocol through the high-throughput screening (HTS) of inhibitor molecules against yeast Hsp90 is discussed.

The malachite green assay protocol is a simple and cost-effective method to discover heat shock protein 90 (Hsp90) suppressors, as well as other inhibitor compounds against ATP-dependent enzymes.

Isı şoku proteini 90 inhibitörlerinin keşfi için malakit yeşil testi

Heat shock protein 90 (Hsp90) is a promising anticancer target because of its chaperoning effect on multiple oncogenic proteins. The activity of Hsp90 is ...

GSH / GSSG Ölçümü - Antioksidan Araştırmaları için Rafine Bir OPA Testi

Rapid Quantification of Oxidized and Reduced Forms of Glutathione Using Ortho -phthalaldehyde in Cultured Mammalian Cells In Vitro

Glutathione has long been considered a key biomarker for determining the antioxidant response of the cell. Hence, it is a primary marker for reactive oxygen species studies. The method utilizes Ortho-phthalaldehyde (OPA) to quantify the cellular concentration of glutathione(s). OPA conjugates with reduced glutathione (GSH) via sulfhydryl binding to subsequently form an isoindole, resulting in a highly fluorescent conjugate. To attain an accurate result of both oxidized glutathione (GSSG) and GSH, a combination of masking agents and reducing agents, which have been implemented in this protocol, are required. Treatments may also impact cellular viability. Hence, normalization via protein assay is presented in this multiparametric assay. The assay demonstrates a pseudo-linear detection range of 0.234 - 30&#181;M (R2=0.9932&#177;0.007 (N=12)) specific to GSH. The proposed assay also allows for the determination of oxidized glutathione with the addition of the masking agent N-ethylmaleimide to bind reduced glutathione, and the reducing agent tris(2-carboxyethyl) phosphine is introduced to cleave the disulfide bond in GSSG to produce two molecules of GSH. The assay is used in combination with a validated bicinchoninic acid assay for protein quantification and an adenylate kinase assay for cytotoxicity assessment.

Yazar Gündemi: Oksidatif Stres Araştırmaları için Tiyol Kantitasyonu ve Biyobelirteç Tespitinde Yenilik 

Quantification of both oxidized and reduced forms of glutathione (GSSG and GSH, respectively) has been achieved through the use of Ortho-phthalaldehyde (OPA). OPA becomes highly fluorescent once conjugated to GSH but is unable to conjugate GSSG until reduced. Here, we describe a multiparametric assay to quantify both using protein quantification for normalization.

İn Vitro Kültürlenmiş Memeli Hücrelerinde Orto-ftalaldehit Kullanılarak Oksitlenmiş ve İndirgenmiş Glutatyon Formlarının Hızlı Miktar Tayini

Glutathione has long been considered a key biomarker for determining the antioxidant response of the cell. Hence, it is a primary marker for reactive ...