Isolation and Characterization of Leishmanial Adenine Aminohydrolase as a Drug target

Author(s):  
Firdous Butt ◽  
Masoom Yasinzai ◽  
Shaukat Iqbal Malik ◽  
Anum Munir

Background:: Search for new drug targets is becoming imperative these days given that marketed chemotherapeutic drugs have lost their efficacy against harmful agents because of adaptability to climatic changes and co-evolving vectors to new hosts. In the wake of such challenge prominence of biochemical studies is increasing by way of exploring selective enzymes and investigating their structural and functional properties through biochemical kinetic parameter Km for the application of IC50 using designed drugs. Recently discovered Adenine Aminohydrolase [EC 3.5.4.2) in Leishmania has been found to be absent in mammalian purine salvage pathway and thus considered as a promising drug target against infectious agents. Objective:: The objective of this study is to isolate and characterize AAH by learning its kinetic mode of action using preferred substrate Adenine and additives estimated through expected product formation Hypoxanthine. Bioassays designed to measure exact Enzyme kinetic parameter Km value through establishing hyperbolic curve of enzyme reaction with the use of exact values of cellular quantities for IC50 application under experimental conditions devised by presteady state approach for SSA validity. Methods:: Following saturation kinetic, the plot of hyperbolic equilibrium curve developed using initial rates of product formation as a function of [Si] through forward shift under circumstance dG0 the system allows product and reactant favored reactions in relation to[Ef]1≈[E=KM] until complete saturation and estimates Km and Vmax of enzyme system under applied conditions. M-M equation used to assess experimental initial rate data for estimation of Km on excel using Solver and nonlinear least square coefficient correlation “R2”using logarithmic equation for nonlinear curve assessment. Results:: UV/Vis spectrophotometer selectively analyzed reacting components confirming Enzyme characteristic reaction constant Km equal toi15.0 ± 2 μ mol acquired from the Hyperbolic curve developed through use of exact [Si] ranges at selected parameter Km and Vmax. The curve assessed by Michaelis Menten equation provide Km value=14.99 μmol and non-linear least square coefficient correlation “R2” value equal to 0.9895,.along with that optimized lysis buffer formulation. In the docked complexes, the interactive amino acids identified were MSE441, ALA 364, GLN363, MSE518, VAL362, GLY517, ASP538, ALA445, TYR521, and TYR444. 2D interactions revealed hydrophobic and alkyl interactions at non-competitive binding site of the enzyme and therefore recommended as a potential inhibitors against 3ICS protein. Conclusion:: This study encourages biochemical analysis of the novel enzymes with the use of presteady state rationale in association with the computational tools as an effective way of designing drugs in short time against selective enzymes to meet the current challenge efficiently.

2017 ◽  
Vol 23 (3) ◽  
pp. 647-660 ◽  
Author(s):  
János L. Lábár ◽  
Partha P. Das

AbstractDiffuse rings from amorphous materials sit on a steep background resulting in a monotonically decreasing intensity over scattering vector length, frequently with no clear local maximum that could be used to determine the center of the ring. The novelty of the method reported here is that it successful processes such weak patterns. It is based on separating the angular dependence of the positions of the maxima on the azimuthal angle in the measured two-dimensional pattern for a manually preselected peak. Both pattern center and elliptical distortion are simultaneously refined from this angular dependence. Both steps are based on nonlinear least square fitting, using the Levenberg–Marquardt method. It can be successfully applied to any amorphous patterns provided they were recorded with experimental conditions that facilitate dividing them into sectors with acceptable statistics. Patterns with the center shifted to the camera corner (recording a quadrant of a ring) can also be reliably evaluated, keeping precalibrated values of the elliptical distortion fixed during the fit. Finally, the limited number of counts in any pattern is overcome by cumulating many patterns (from equivalent areas) into a single pattern. Eliminating false effects is facilitated by masking out unwanted parts of any recorded pattern from processing.


Endocrinology ◽  
1998 ◽  
Vol 139 (8) ◽  
pp. 3542-3553 ◽  
Author(s):  
Ching-Ping Tseng ◽  
Brent D. Ely ◽  
Yingming Li ◽  
Rey-Chen Pong ◽  
Jer-Tsong Hsieh

Abstract Androgen is a mitogen as well as a morphogen for prostatic epithelium. However, the detailed mechanisms of these distinct androgenic actions have not yet been delineated. Therefore, we employed differential display PCR to unveil any potential genes that may be involved in these processes. In this study, we report the isolation and characterization of two alternative splicing forms (p82 and p59) of C9 complementary DNA, the rat homolog of the human deletion of ovarian carcinoma 2 (DOC-2) gene and mouse p96 phosphoprotein, from rat ventral prostate (VP). We found that C9 was up-regulated in rat VP after castration, suggesting that C9 may be regulated by androgen receptor directly or indirectly during prostate degeneration. A similar regulatory pattern was also observed in both the seminal vesicle and dorsolateral prostate, but not in the coagulating gland or other androgen-independent organs. Immunohistochemical analysis of rat VP demonstrated that C9 is detected in the basal epithelia and surrounding stromal cells after prolonged castration. Ribonuclease protection assay and Western blot analysis revealed that p59 is the predominant C9 isoform in rat VP. To unveil the function of C9 in cell growth, we transfected p59 complementary DNA into the C4-2 cells, a derivative of the LNCaP prostatic carcinoma cell line. The p59 stable transfectants exhibited a slower growth rate and an increase in the cell fraction in the G1 phase under our experimental conditions. These data indicate that C9-p59 has growth inhibitory activity for prostatic epithelial cells. Taken together, our results suggest that C9 is up-regulated during prostate degeneration process and may play an active role in the proliferation and differentiation of prostatic epithelium.


2005 ◽  
Vol 79 (21) ◽  
pp. 13199-13208 ◽  
Author(s):  
Zhen-Yong Keck ◽  
Ta-Kai Li ◽  
Jinming Xia ◽  
Birke Bartosch ◽  
François-Loïc Cosset ◽  
...  

ABSTRACT Hepatitis C (HCV) E2 glycoprotein is involved in virus attachment and entry, and its structural organization is largely unknown. Characterization of a panel of human monoclonal antibodies (HMAbs) to HCV by competition studies has led to an immunogenic organization model of E2 with three domains designated A, B, and C and epitopes in each domain having similar structural and functional properties. Domain A contains nonneutralizing epitopes, and domains B and C contain neutralizing epitopes. The isolation and characterization of three new HMAbs within domain A for a total of six provide support for this model. All six domain A HMAbs do not neutralize HCV retroviral pseudotype particle (HCVpp) infection on Huh-7 cells, and all six HMAbs have similar binding affinity and maximum binding, B max, a relative indicator of epitope density, as other neutralizing HMAbs, suggesting that neutralization is epitope specific and not by binding to any surface epitope. The dose-dependent neutralizing activity of CBH-7, an HMAb to a domain C epitope in spatial proximity to domain A, and of CBH-5, a domain B HMAb to a more distant epitope, were tested in the presence and absence of each domain A HMAb. No enhancement or reduction in CBH-7 or CBH-5 neutralizing activity was observed, indicating that the potential induction of nonneutralizing antibodies should not be a central issue for HCV vaccine design. To assess whether domain A is involved in the structural changes as part of a pH-dependent virus envelope fusion process, changes in antibody binding patterns to normal pH and acid pH-treated HCVpp were measured. Antibody binding affinity of HMAbs to HCVpp was not affected by low pH. However, the B max values for low-pH-treated HCVpp with antibodies to domain A increased 46%, for domain C (CBH-7) they increased 23%, and for domain B (CBH-5) there was a decrease of 12%. Collectively, the organization and function of HCV E2 antigenic domains are roughly analogous to the large envelope glycoprotein E organizational structure for other flaviviruses with three distinct structural and functional domains.


2000 ◽  
Vol 352 (2) ◽  
pp. 533-538 ◽  
Author(s):  
Mariarita BERTOLDI ◽  
Carla BORRI VOLTATTORNI

Analysis of the reaction of dopa decarboxylase (DDC) with L-dopa reveals that loss of decarboxylase activity with time is observed at enzyme concentrations approximately equal to the binding constant, Kd, of the enzyme for pyridoxal 5ƀ-phosphate (PLP). Instead, at enzyme concentrations higher than Kd the course of product formation proceeds linearly until complete consumption of the substrate. Evidence is provided that under both experimental conditions no pyridoxamine 5ƀ-phosphate (PMP) is formed during the reaction and that dissociation of coenzyme occurs at low enzyme concentration, leading to the formation of a PLP-L-dopa Pictet–Spengler cyclic adduct. Taken together, these results indicate that decarboxylation-dependent transamination does not accompany the decarboxylation of L-dopa proposed previously [O'Leary and Baughn (1977) J. Biol. Chem. 252, 7168–7173]. Nevertheless, when the reaction of DDC with L-dopa is studied under anaerobic conditions at an enzyme concentration higher than Kd, we observe that (1) the enzyme is gradually inactivated and inactivation is associated with PMP formation and (2) the initial velocity of decarboxylation is approximately half of that in the presence of O2. Similar behaviour is observed by comparing the reaction with L-5-hydroxytryptophan occurring in aerobiosis or in anaerobiosis. Therefore the reaction of DDC with L-aromatic amino acids seems to be under O2 control. In contrast, the reactivity of the enzyme with D-aromatic amino acids does not change in the presence or absence of O2. These and other results, together with previous results on the effect exerted by O2 on reaction specificity of DDC towards aromatic amines [Bertoldi, Frigeri, Paci and Borri Voltattorni (1999) J. Biol. Chem. 274, 5514–5521], suggest a productive effect of O2 on an intermediate complex of the reaction of the enzyme with L-aromatic amino acids or aromatic amines.


2017 ◽  
Author(s):  
Martanto

Website E-Learning saat ini sudah banyak digunakan pada dunia pendidikan, baik sekolah tingkat atas hingga perguruan tinggi. STMIK IKMI Cirebon telah menggunakan website E-Learning yang diberi nama Indigoes namun pemanfaatannya masih belum maksimal karena tampilan Indigoes yang sangat sederhana. User experience pengguna Indigoes dapat digunakan untuk perancangan user interface Indigoes yang baru sesuai dengan keinginan pengguna. Kansei engineering adalah sebuah metode perancangan yang menggunakan perasaan pengguna dalam membuat desain produk baru dan penelitian ini menerapkan metode Kansei Engineering Type I untuk merancang user interface Indigoes yang baru.Penelitian ini menggunakan Kansei Word untuk mendeteksi emosi atau perasaan pengguna Indigoes. Jumlah Kansei word yang digunakan sebanyak 23 kata yang mewakili perasaan pengguna terkait dengan desain user interface Indigoes yang baru. Alternatif desain yang digunakan sebanyak 5 buah. Penelitian ini melibatkan 30 partisipan dengan perincian 15 orang adalah mahasiswa dan 15 orang mahasiswi dari jurusan Komputerisasi Akuntasi dan Manajemen Informatika. Hasil kuisioner dari partisipan kemudian diolah menggunakan analisis statistik multivarit yaitu Cronbach’s Alpha, Coefficient Correlation Analysis (CCA), Principal Component Analysis (PCA), Factor Analysis (FA) dan analisis Partial Least Square (PLS).


2020 ◽  
Vol 17 (2) ◽  
pp. 67
Author(s):  
Arief Ginanjar ◽  
Awan Setiawan

Ketika menggunakan Kansei Engineering dalam mencari kandidat terbaik untuk menentukan model perancangan antarmuka website, peneliti menggunakan metode analisis Partial Least Square (PLS) yang dilakukan secara berulang hingga ditemukan elemen terbaik yang dapat diimplementasikan. PLS sebagai alat bantu untuk menentukan nilai terbaik antara elemen website. Output perbandingan yang dihasilkan akan dikelompokkan berdasarkan Kansei Word sebagaimana yang telah ditentukan dalam rencana awal implementasi Kansei Engineering, output perbandingan PLS iterasi pertama mempunyai kemungkinan mendapatkan nilai usulan terbaik jika digabung dengan melakukan iterasi kedua terhadap asimilasi dua atau tiga elemen yang mempunyai nilai tertinggi. Metodologi yang digunakan mengacu kepada Kansei Engineering Type I dengan melalui pengolahan data menggunakan Cronbach’s Alpha untuk menguji kelayakan responden, kemudian untuk mengetahui hubungan Kansei Words dapat menggunakan Coefficient Correlation Analysis (CCA), sedangkan hubungan antara Kansei Words dengan spesimen dapat menggunakan Principal Component Analysis (PCA), sedangkan mencari pengaruh Kansei Words paling kuat dapat menggunakan Factor Analysis (FA) dan analisis Partial Least Square (PLS) namun harus dilakukan iterasi proses PLS hingga variabel rekomendasi model perancangan antarmuka yang dihasilkan menjadi lebih bervariatif.


1980 ◽  
Vol 44 (02) ◽  
pp. 049-051 ◽  
Author(s):  
G Rajtar ◽  
M Livio ◽  
J Merino ◽  
G de Gaetano

SummaryMalondialdehyde (MDA) is a stable product of arachidonic acid metabolism, catalyzed by the enzyme cyclo-oxygenase. The experimental conditions for measuring the kinetics of MDA formation in rat citrated platelet-rich plasma were defined. Platelets were stimulated with either arachidonic acid, the substrate of MDA, or thrombin, an enzyme which induces release of free arachidonic acid from platelet membrane phospholipids. MDA formation was almost linear for a limited period of time (between 0 and 2 min with arachidonic acid and between 1 and 3 min with thrombin) and was concentration-dependent with saturation kinetics.The hyperbolic curves obtained could be recast in linear plots (according to Woolf transformation S/V versus S) when arachidonic acid was used. With thrombin, in contrast, the highest concentration at which no MDA production could be detected (3 NIH u/ml) had to be subtracted from each concentration of the enzyme used to obtain Woolf plots. The apparent Km value of arachidonic acid was 0.49 ± 0.09 mM and Vmax was 1.44 ± 0.06 nmoles MDA/1.4 × 109 platelets/min. The corresponding values in experiments with thrombin were 6.5 ± 1.5 NIH u/ml and 0.233 ± 0.012 nmoles MDA/1.4 × 109 platelets/min.


1987 ◽  
Vol 4 (1-2) ◽  
pp. 141-148
Author(s):  
J. Pospisil ◽  
V. Patzelova

This work describes the first application of the desorption of nitrogen under dynamic conditions to characterize the texture of a natural zeolite. These dynamic conditions are very similar to those in actual sorption and catalytic processes. It was found that, under the experimental conditions described, nitrogen is desorbed from narrow-pore zeolites with a kinetic parameter comparable with the diameter of the nitrogen molecule in two separate steps that can be both qualitatively and quantitatively assigned to the amorphous and microporous fractions of the test zeolite.


2020 ◽  
Vol 8 (11) ◽  
pp. 1750
Author(s):  
Chun Li ◽  
Xiaoming Yuan ◽  
Na Li ◽  
Juan Wang ◽  
Shubo Yu ◽  
...  

Bacillus phage φ29 and its relatives have been considered as one of the most important model organisms for DNA replication, transcription, morphogenesis, DNA packaging studies, and nanotechnology applications. Here, we isolated and characterized a new member of the φ29-like phage, named Bacillus cereus phage vB_BceP-DLc1. This phage, with a unique inserted gene cluster, has the largest genome among known φ29-like phages. DLc1 can use the surface carbohydrate structures of the host cell as receptors and only infects the most related B. cereus strains, showing high host-specificity. The adsorption rate constant and life cycle of DLc1 under experimental conditions were also determined. Not only stable under temperatures below 55 °C and pH range from 5 to 11, the new phage also showed tolerance to high concentrations of NaCl, 75% ethanol, chloroform, and mechanical vortex, which is preferable for practical use in the food and pharmaceutical industries.


2013 ◽  
Vol 11 (2) ◽  
pp. 641-656 ◽  
Author(s):  
Jesus Moreira ◽  
Benito Serrano-Rosales ◽  
Patricio J. Valades-Pelayo ◽  
Hugo de Lasa

Abstract This study reports the kinetic parameter estimation in the photocatalytic degradation of phenol over different TiO2 catalysts by using the Genetic Algorithm (GA) and nonlinear regression. Reaction networks are based on a previously reported unified kinetic model (UKM) of the Langmuir–Hinshelwood type. Nonlinear least-squares fitting and GA are used to find the values for the kinetic constants. The computed parameters were found to predict experimental data for phenol photodegradation at different levels of concentrations. It is shown that both methods render close values for the kinetic constants. This suggests that UKM approach gives the global minimum and as a result, this method provides good and objective parameter estimates with low to moderate cross-correlation among kinetic constants and acceptable 95% Confidence Intervals (CIs). Global optimization by using GA requires extensive computer times of up to 5 minutes. Least square fitting provides the same results with computer times of seconds only. It is then concluded that the UKM approach effectively avoids overparameterization by finding the global optimum when optimizing the kinetic constants.


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