Your browser doesn't support javascript.
loading
: 20 | 50 | 100
1 - 17 de 17
1.
J Mol Model ; 29(6): 170, 2023 May 06.
Article En | MEDLINE | ID: mdl-37148380

CONTEXT: Langmuir adsorption of gas molecules of NO, NO2, and NH3 on the graphitic GaN and GaP sheets has been accomplished using density functional theory. The changes of charge density have shown a more important charge transfer for GaN compared to GaP which acts both as the electron donor while gas molecules act as the stronger electron acceptors through adsorption on the graphitic-like GaN surface. The adsorption of NO and NO2 molecules introduced spin polarization in the PL-GaN sheet, indicating that it can be employed as a magnetic gas sensor for NO and NO2 sensing. METHODS: The partial electron density states based on "PDOS" graphs have explained that the NO and NO2 states in both of GaN and GaP nanosheets, respectively, have more of the conduction band between - 5 and - 10 eV, while expanded contribution of phosphorus states is close to gallium states, but nitrogen and oxygen states have minor contributions. GaN and GaP nanosheets represent having enough capability for adsorbing gases of NO, NO2, and NH3 through charge transfer from nitrogen atom and oxygen atom to the gallium element owing to intra-atomic and interatomic interactions. Ga sites in GaN and GaP nanosheets have higher interaction energy from Van der Waals' forces with gas molecules.

2.
J Mol Model ; 29(4): 119, 2023 Mar 29.
Article En | MEDLINE | ID: mdl-36988725

CONTEXT: In this research, CO2 and NO2 adsorption on doped nanographene (NG) sheets with transition metals (Fe, Ni, Zn) and (Mn, Co, Cu), respectively, have been applied for scavenging of these toxic gases as the environmental pollutants. The values of changes of atomic charge density have illustrated a more significant charge transfer for Ni-doped C-NG through CO2 adsorption and a more remarkable charge transfer for Co-doped C-NG through NO2 adsorption. The data of NMR spectroscopy has depicted several fluctuations around the graph of Zn-doped on the nanographene surface. The thermodynamic results from IR spectroscopy have indicated that [Formula: see text] values are almost similar for doped metal transitions of Mn, Co, and Cu on the C-NG nanosheet, while [Formula: see text] has the largest gap of Gibbs free energy adsorption with dipole moment. METHODS: The Langmuir adsorption model with a three-layered ONIOM using CAM-B3LYP functional accompanying LANL2DZ, EPR-III and 6-31 + G (d,p) basis sets due to Gaussian 16 revision C.01 program on the complexes of CO2 → (Fe, Ni, Zn) and NO2 → (Mn, Co, Cu) doped on the C-NG has been accomplished. Then, NMR and IR spectroscopy, nuclear quadrupole resonance, and natural bond orbital analysis have been accomplished for evaluating chemical shielding tensors, thermodynamic properties, electric potential, and occupancy fluctuation through bond orbitals, respectively. In addition, frontier orbitals of LUMO, HOMO, and also a series of chemical reactivity parameters have been calculated. Finally, time-dependent-DFT method due to UV-VIS spectrums has been accomplished to discern the low-lying excited states of CO2 and NO2 adsorption on the (Fe, Ni, Zn) and (Mn, Co, Cu), respectively, doped C-NG sheet.

3.
Micromachines (Basel) ; 14(2)2023 Jan 18.
Article En | MEDLINE | ID: mdl-36837941

Twenty-eight samples of {[(1-x-y) LiCo0.3Cu0.7](Al and Mg doped)]O2}, xLi2MnO3, and yLiCoO2 composites were synthesized using the sol-gel method. Stoichiometric weights of LiNO3, Mn(Ac)2⋅4H2O, Co(Ac)2⋅4H2O, Al(NO3)3.H2o, Mg(NO3)2⋅6H2O, and Cu(NO3)2.H2O for the preparation of these samples were applied. From this work, we confirmed the high performance of two samples, namely, Sample 18, including Al doped with structure "Li1.5Cu0.117Co0.366Al0.017Mn0.5O2" and Sample 17, including Mg doped with structure "Li1.667Cu0.1Mg0.017Co0.217Mn0.667O2", compared with other compositions. Evidently, the used weight of cobalt in these two samples were lower compared with LiCoO2, resulting in advantages in the viewpoint of cost and toxicity problems. Charge and discharge characteristics of the mentioned cathode materials were investigated by performing cycle tests in the range of 2.2-4.5 V. These types of systems can help to reduce the disadvantages of cobalt arising from its high cost and toxic properties. Our results confirmed that the performance of such systems is similar to that of pure LiCoO2 cathode material, or greater in some cases. The biggest disadvantages of LiCoO2 are its cost and toxic properties, typically making it cost around five times more to manufacture than when using copper.

4.
Phys Chem Chem Phys ; 25(4): 2821-2829, 2023 Jan 27.
Article En | MEDLINE | ID: mdl-36606418

A novel nanocomposite is synthesized by covalently modifying reduced graphene oxide (rGO) with Fe3O4@SiO2 nanoparticles. Fe3O4 was synthesized using a co-precipitation method, and SiO2 was then coated onto the Fe3O4via a sol-gel method. Graphene oxide was synthesized using the Hummers' method. Furthermore, a hydrothermal method was applied to create the Fe3O4@SiO2-GO composite, and a simple reduction was used to obtain three-dimensional (3D) Fe3O4@SiO2-rGO core-shell spheres. XRD, FTIR, FE-SEM, VSM, BET, TGA, and Raman analyses were used to characterize the prepared nanocomposites. X-Ray diffraction (XRD) and Raman spectra reveal that the nanostructures consist of highly crystallized cubic Fe3O4, amorphous SiO2, and rGO sheets stacked in a disordered fashion. Field emission scanning electron microscopy (FE-SEM) characterization indicates that the form of the Fe3O4@SiO2 core-shell structures is spherical, with an average size of about 25 nm. Magnetic hysteresis loops reveal the super-paramagnetic behavior of the samples at room temperature. All of the results obtained confirm the synthesis of high-quality nanocomposites, which can be a good candidate for use as a catalyst in multi-component reactions.

5.
Molecules ; 27(23)2022 Dec 02.
Article En | MEDLINE | ID: mdl-36500575

Lithium-ion batteries are known for their high efficiency for storing electrical energy, especially for hybrid vehicles. In this research, the development of mixture composites in the cathode electrode of LIBs has been discussed and designed based on ternary solid solutions. We have given a novel synthesis and method preparation of cathode electrode materials to reduce costs while increasing the efficiency and simultaneity for the future of these technologies. The major problem in the LIBs is related to LiCoO2 as a popular cathode material that, although it has a high efficiency, is expensive and very toxic. Therefore, the usage of a lower weight of cobalt compared to the LiCoO2 cathode material is economically advantageous for this research. Several samples of the (1-x-y) LiCo1/3Ti1/3Fe1/3PO4 xLi2MnPO4 and yLiFePO4 system were synthesized via sol-gel experiments. Various stoichiometric amounts of the LiNO3, Li2MnPO4, Mn (Ac)2. 4H2O, Co (Ac)2.4H2O, Ti(NO3)2.6H2O and LiFePO4 have been used for several compositions of chrome, manganese, cobalt and titanium in 28 samples of (1-x-y) LiCo1/3Ti1/3Fe1/3PO4. By using thermal characterization, five samples have been selected due to their conditions in viewpoints of capacity and cyclability as well as activation energy, which is one of the major factors. These composites exhibited fairly consistent charge/discharge curves during the electrochemical testing. From the viewpoint of the physical and chemical properties, among these samples, the Li1.501Co0.389Ti0.055Fe0.055Mn0.501PO4 structure has a high efficiency compared to other compositions.


Lithium , Titanium , Lithium/chemistry , Recycling/methods , Electrodes , Ions , Cobalt
6.
J Mol Model ; 28(1): 11, 2021 Dec 20.
Article En | MEDLINE | ID: mdl-34928451

The interaction between drugs and single-walled carbon nanotubes is proving to be of fundamental interest for drug system of delivery and nano-bio-sensing. In this study, the interaction of pristine CNT with carbazochrome, an anti-hemorrhagic or hemostatic agent, was investigated with M06-2X functional and 6-31G* basis set. All probable positions of related adsorption for these kind drugs were thought-out to find out which one is energetically suitable. Based on the achieved data, the stronger interactions appeared the oxygen atom of C = O group and nitrogen atom of imine groups. The topology analysis of QTAIM (quantum theory of atoms in a molecule) method was accomplished to understand the properties of interactions between the CNT and carbazochrome. Frontier molecular orbital energies of all systems, global index including stiffness, softness, chemical Gibbs energies, and electrophilicity parameters, as well as some other important physical data such as dipole moment, polarizability, anisotropy polarisibility, and hyperpolaribility were calculated, evaluated, and then compared together. The essence of the formed bonding model progress along the reaction roots was further validated using electron localization function (ELF) calculations. The highest values of adsorption energies were determined in the range of 18.24 up to 22.12 kcal mol-1 for these kind systems. The acceptable recovery time of 849 s was obtained for the desorption of carbazochrome from the CNT surface under UV-light. The final results exhibit that carbazochrome can serve as a promising carrier and also as sensitive sensors in any kind of practical application.


Adrenochrome/analogs & derivatives , Drug Carriers/chemistry , Drug Delivery Systems , Hemostatics/chemistry , Models, Molecular , Nanotubes, Carbon/chemistry , Adrenochrome/administration & dosage , Adrenochrome/chemistry , Algorithms , Density Functional Theory , Hemostatics/administration & dosage , Quantum Theory
7.
Article Es | LILACS-Express | LILACS | ID: biblio-1354921

Objetivo: La dopamina y la serotonina son los dos importantes transmisores biológicos que tienen actividades hormonales y son responsables de la felicidad y el bienestar. El objetivo de este artículo fue estudiar teóricamente las características estructurales de la dopamina y la serotonina en el complejo de nanotubos de carbono de pared simple como neurotransmisor. Material y métodos: Se estudió la estructura de la unión de dopamina y serotonina con SWCNT con cuatro diámetros diferentes (7.0, 7.5, 7.7, 10.0 nm) utilizando mecánica molecular (MM) y mecánica cuántica (QM). Las energías notables, incluida la energía potencial, la energía total y la energía cinética en el tiempo de simulación en pasos de 10 ns en dos temperaturas (298, 310 grados kelvin), fueron investigadas por el método de Monte Carlo con fuerza opls archivada. También se han cumplido los datos del tensor de blindaje de RMN según el nivel de teoría B3LYP con 6-31 G (d) como conjunto de base y método semi empírico. Resultados: Se realizaron cálculos teóricos para estudiar los datos de desplazamiento químico de RMN, incluido el tensor de blindaje magnético (σ, ppm), la asimetría de blindaje (η), la anisotropía de blindaje magnético (σaniso), la isotropía de blindaje magnético (σiso), la desviación de un tensor (Κ) y anisotropía de desplazamiento químico (Δσ) y span (Ω) en varios ángulos de rotación alrededor de una rotación específica, propiedades físicas y químicas de los núcleos atómicos. Se revelaron cálculos semi empíricos como energía total, energía de enlace, energía atómica aislada, energía electrónica, interacción núcleo-núcleo y calor de formación en Am1. Conclusión: En el método Monte Carlo se deduce que nuestros dos fármacos específicos y su nanotubo de pequeño diámetro son los más estables que los demás. El diámetro más grande lleva la estabilidad de la combinación a un valor más bajo.


Objetive:Dopamine and Serotonin are the two important biological transmitters that have hormonal activities and responsible for happiness and felling well. The aim of this article was to study theoretically the structure features of Dopamine and Serotonin in the complex of single-walled carbon nanotube as a neurotransmitter. The structure of Dopamine and Serotonin binding with Material and Methods:SWCNTwith four different diameters (7.0,7.5,7.7,10.0 nm) was studied by using molecular mechanic (MM) and quantum mechanic (QM). The remarkable energies including potential energy, total energy and kinetic energy in time of simulation 10 ns steps in two temperatures (298, 310 kelvin degree) were investigated by Monte Carlo method with opls force filed. NMR shielding tensor data by B3LYPlevel of theory with 6-31 G(d) as a basis set and semi empirical method have been also fulfilled.Results: Theoretical computations were performed to study NMR chemical shift data including magnetic shielding tensor (σ, ppm), shielding asymmetry (η), magnetic shielding anisotropy (σaniso), magnetic shielding isotropy (σiso) , skew of a tensor (Κ) and chemical shift anisotropy (Δσ) and span (Ω) at various rotation angles around a specific rotation, physical and chemical properties of atomic nuclei. Semi empirical calculations such as total energy, binding energy, isolated atomic energy, electronic energy, core­core interaction and heat of formation in AM1 were revealed. It is figured out Conclusion:in Monte Carlo method our two specific drug and its nanotube with small diameter are the most stable one than the others. The larger diameter leads the combination stability into lower value

8.
Blood Coagul Fibrinolysis ; 31(3): 179-185, 2020 Apr.
Article En | MEDLINE | ID: mdl-32271313

: Platelet aggregation inhibition and interfering with clot formation are essential tools for antithrombotic therapy and there is a need for discovering new antithrombotic agents. In this study, we synthesized a series of benzylidenepiperidine-3-carbohydrazide derivatives (1f-11f), bearing various selected substituents on both the piperidine ring nitrogen and the hydrazide nitrogen. The synthesized compounds were characterized by FTIR, HNMR spectroscopic techniques, CHN/O elemental analysis and electrospray ionization mass spectra. All new 1-benzyl-N'-benzylidenepiperidine-3-carbohydrazides were evaluated for their antiplatelet aggregation activities (against platelet aggregation induced by AA, ADP and collagen separately) and anticoagulant activities [protrombin time (PT) and partial thromboplastin time (PTT)]. Antiplatelet aggregation activity of the new derivatives was measured using human plasma on an APACT 4004 aggregometer. All the compounds were mainly effective on ADP pathway of platelet aggregation compared with collagen and AA pathways. The most potent compound on platelet aggregation induced by ADP is compound 2f with 87% aggregation inhibition activity at 0.5 mmol/l concentration. The synthesized compounds were further investigated for their anticoagulant action via the two PT and PTT models. They all showed higher PT and PTT values compared with the blank control sample. The most potent compounds are 5f, 6f, 7f and 1f. All compounds were obtained in good yield and further evaluated for their antiplatelet and anticoagulant activity.


Fibrinolytic Agents/therapeutic use , Platelet Aggregation Inhibitors/therapeutic use , Fibrinolytic Agents/pharmacology , Humans , Platelet Aggregation Inhibitors/pharmacology
9.
Molecules ; 20(12): 21636-57, 2015 Dec 03.
Article En | MEDLINE | ID: mdl-26633353

In this study, the three forms of B2N((-, 0, +))-radical, anion and cation-have been compared in terms of electric potential and atomic charges, ESP, rather than the well-known cut of the potential energy surface (PES). We have realized that the double minimum of the BNB radical is related to the lack of the correct permutational symmetry of the wave function and charge distribution. The symmetry breaking (SB) for B2N((0, +)) exhibits energy barrier in the region of (5-150) cm(-1). The SB barrier goes through a dynamic change with no centrosymmetric form which depends on the wave function or charge distribution. In spite of A ˜ 2 Σ g + exited state, the B ˜ 2 ∏ g excited configuration contributes to the ground state ( B ˜ 2 ∏ g - X ˜ 2 Σ u + ) for forming radicals. The SB did not occur for the anion form (B2N((-))) in any electrostatic potential and charges distribution. Finally, we have modified the Columbic term of the Schrödinger equation to define the parameters "αα' and ßß'" in order to investigate the SBs subject.


Boron Compounds/chemistry , Electric Conductivity , Electrons , Models, Theoretical , Static Electricity , Thermodynamics
10.
Biophys Chem ; 207: 114-27, 2015 Dec.
Article En | MEDLINE | ID: mdl-26529673

Cell membrane has a unique feature of storing biological energies in a physiologically relevant environment. This study illustrates a capacitor model of biological cell membrane including DPPC structures. The electron density profile models, electron localization function (ELF) and local information entropy have been applied to study the interaction of proteins with lipid bilayers in the cell membrane. The quantum and coulomb blockade effects of different thicknesses in the membrane have also been specifically investigated. It has been exhibited the quantum effects can appear in a small region of the free space within the membrane thickness due to the number and type of phospholipid layers. In addition, from the viewpoint of quantum effects by Heisenberg rule, it is shown the quantum tunneling is allowed in some micro positions while it is forbidden in other forms of membrane capacitor systems. Due to the dynamical behavior of the cell membrane, its capacitance is not fixed which results a variable capacitor. In presence of the external fields through protein trance membrane or ions, charges exert forces that can influence the state of the cell membrane. This causes to appear the charge capacitive susceptibility that can resonate with self-induction of helical coils; the resonance of which is the main reason for various biological pulses.


Lipid Bilayers/chemistry , Membrane Proteins/chemistry , 1,2-Dipalmitoylphosphatidylcholine/chemistry , Electrons , Lipid Bilayers/metabolism , Membrane Proteins/metabolism , Models, Molecular , Protein Structure, Tertiary , Quantum Theory , Thermodynamics
11.
J Mol Model ; 20(11): 2507, 2014 Nov.
Article En | MEDLINE | ID: mdl-25359456

A model of a nanoscale dielectric capacitor composed of a few dopants has been investigated in this study. This capacitor includes metallic graphene layers which are separated by an insulating medium containing a few h-BN layers. It has been observed that the elements from group IIIA of the periodic table are more suitable as dopants for hetero-structures of the {metallic graphene/hBN/metallic graphene} capacitors compared to those from groups IA or IIA. In this study, we have specifically focused on the dielectric properties of different graphene/h-BN/graphene including their hetero-structure counterparts, i.e., Boron-graphene/h-BN/Boron-graphene, Al-graphene/h-BN/Al-graphene, Mg-graphene/h-BN/Mg-graphene, and Be-graphene/h-BN/Be-graphene stacks for monolayer form of dielectrics. Moreover, we studied the multi dielectric properties of different (h-BN)n/graphene hetero-structures of Boron-graphene/(h-BN)n/Boron-graphene.

12.
Protein Pept Lett ; 20(7): 775-80, 2013 Jul 01.
Article En | MEDLINE | ID: mdl-23276223

The molecular dynamics simulation method was used to investigate the structural details for human prion protein (PrPN) and its D178N mutant (PrPM). Root-mean-square fluctuations (RMSFs) and the root-mean-square deviations (RMSDs) showed an increase in the flexibility and high dynamic plasticity of PrPM. Average Total energy for PrPM and PrPN sequentially was -2.975 x105 (kJmol-1) and -3.193 x 105 (kJmol-1). The results showed conformational rearrangement susceptibility for PrPM. For PrPM, highly surface-exposed Glu196 and Arg136 caused hydrogen bond weakening and electrostatic interactions changes in salt bridges. Hydrogen bond weakening under mutation can be mentioned as the leader of conformational changes and disease-related conversions. Contrary to some reports, the contributions of electrostatic interactions of Glu146-Arg208 and Arg156-Glu196 salt bridges for PrPN is less than of these interactions for PrPM. These interactions can pave the way to conformational changes in PrPM. The results showed that the role of the hydrogen bonds in the stability of human prion protein is more important than these salt bridges. The calculation of the solvent accessible surface area showed that the conformational plasticity in PrPM is mainly due to Asn residues that were solvent exposed. Conformational changes in the specific amino acids can affect metal-ion occupancy and function. The secondary structure has also showed that the structural transition arose from D178N mutation and occurs in specific residues. Our studies support the large scale effects of electrostatic forces at key position 178 of prion. As a result, the conformational rearrangements happen by eliminating only a single negative charge because of the mutation induced global forces in the prion structure. These rearrangements can be considered as a molecular switch, which triggers the initial stages of the conformational transition.


Prions/chemistry , Prions/genetics , Amino Acids/chemistry , Amino Acids/metabolism , Humans , Hydrogen Bonding , Molecular Dynamics Simulation , Mutation , Prions/metabolism , Protein Conformation , Protein Stability , Salts/chemistry , Salts/metabolism , Solvents/chemistry , Static Electricity
13.
J Microbiol Biotechnol ; 23(1): 7-14, 2013 Jan.
Article En | MEDLINE | ID: mdl-23314361

In the Bacillus amyloliquefaciens α-amylase (BAA), the loop (residues 176-185; region I) that is the part of the calcium-binding site (CaI, II) has two more amino acid residues than the α-amylase from Bacillus licheniformis (BLA). Arg176 in this region makes an ionic interaction with Glu126 from region II (residues 118-130), but this interaction is lost in BLA owing to substitution of R176Q and E126V. The goal of the present work was to quantitatively estimate the effect of ionic interaction on the overall stability of the enzyme. To clarify the functional and structural significance of the corresponding salt bridge, Glu126 was deleted (ΔE126) and converted to Val (E126V), Asp (E126D), and Lys (E126K) by site-directed mutagenesis. Kinetic constants, thermodynamic parameters, and structural changes were examined for the wild-type and mutated forms using UV-visible, atomic absoption, and fluorescence emission spectroscopies. Wild type exhibited higher k(cat) and K(m) but lower catalytic efficiency than the mutant enzymes. A decreased thermostability and an increased flexibility were also found in all of the mutant enzymes when compared with the wild type. Additionally, the calcium content of the wild type was more than ΔE126. Thus, it may be suggested that ionic interaction could decrease the mobility of the discussed region, prevent the diffusion of cations, and improve the thermostability of the whole enzyme. Based on these observations, the contribution of loop destabilization may be compensated by the formation of a salt bridge that has been used as an evolutionary mechanism or structural adaptation by the mesophilic enzyme.


Bacillus/enzymology , alpha-Amylases/chemistry , alpha-Amylases/metabolism , Amino Acid Sequence , Amino Acid Substitution , Binding Sites , Calcium/metabolism , DNA Mutational Analysis , Enzyme Stability , Kinetics , Models, Molecular , Molecular Sequence Data , Mutagenesis, Site-Directed , Mutant Proteins/chemistry , Mutant Proteins/genetics , Mutant Proteins/metabolism , Protein Binding , Protein Conformation , Protein Stability , Spectrum Analysis , Thermodynamics , alpha-Amylases/genetics
14.
J Phys Chem A ; 117(7): 1670-84, 2013 Feb 21.
Article En | MEDLINE | ID: mdl-23347207

In B(n)N(n) cages or tubes, when the quasi-borazine rings are attached to each other through a pair of common atoms of B and N, the bonding structure is named class A. On the other hand, there are some B(n)N(n) rings including a covalent bond between two atoms of B and N, which are named class B. In all previous studies, both reports of synthesis and theoretical calculation of boron nitride tubes and cages, the quasi-borazine units are attached together like class A. There are no theoretical or experimental reports from class B compounds except for a brief study in our previous works (Struct. Chem. 2012, 23, 551-580; J. Phys. Chem. C 2010, 114, 15315.). In this study, we have used two kinds of boron nitride rings from a twisted BN sheet in the same chirality created by different mechanisms. For (4, 4) chirality, the molecules B(16)N(16) and B(15)N(15) are found to respectively represent class A and B, and for (5, 5) chirality the molecules B(20)N(20) and B(18)N(18) are respectively again of class A and B. The structure of class A rings is similar to boron nitride tubes, but we have shown that it is impossible to produce a macromolecule of class B form as tubes or cages, because there is much more instability and intermolecular tension in macro forms of class B. This is the main reason that the class B molecules are rare and, because of their small size, have not yet been synthesized, although we have some suggestions for the synthesis of these kinds of molecules. The stability and electromagnetic properties with hybrid density functional theory using the EPR-III and EPR-II basis sets for explanation of hyperfine parameters and spin densities, electrical potential, and isotropic Fermi coupling constant of these rings have been studied by the nonbonded interaction models. Normal mode analyses including aromaticity have been investigated by using the nucleus independent chemical shift values at the ring center. Interaction energy and gain in energy aid in describing the stability that is promoted upon gradual binding with molecular hydrogen, and a linear relationship occurred between them.


Boron Compounds/chemistry , Nanotubes/chemistry
15.
EXCLI J ; 12: 130-43, 2013.
Article En | MEDLINE | ID: mdl-26417222

A series of new quinazoline derivatives has been recently reported as potent multi-acting histone deacetylase (HDAC), epidermal growth factor receptor (EGFR), and human epidermal growth factor receptor 2 (HER2) inhibitors. HER2 is one of the major targets for the treatment of breast cancer and other carcinomas. Three-dimensional structure-activity relationship (3D-QSAR) is a well-known technique, which is used to drug design and development. This technique is used for quantitatively predicting the interaction between a molecule and the active site of a specific target. For each 3D-QSAR study, a three-dimensional model is created from a large curve fit to find a fitting between computational descriptors and biological activity. This model could be used as a predictive tool in drug design. The best model has the highest correlation between theoretical and experimental data. Self-Organizing Molecular Field Analysis (SOMFA), a grid-based and alignment-dependent 3D-QSAR method, is employed to study the correlation between the molecular properties and HER2 inhibitory potency of the quinazoline derivatives. Before presentation of inhibitor structures to SOMFA study, conformation of inhibitors was determined by AutoDock4, HyperChem and AutoDock Vina, separately. Overall, six independent models were produced and evaluated by the statistical partial least square (PLS) analysis. Among the several generated 3D-QSARs, the best model was selected on the basis of its statistical significance and predictive potential. The model derived from the superposition of docked conformation with AutoDock Vina with reasonable cross-validated q(2) (0.767), non cross-validated r(2) (0.815) and F-test (97.22) values showed a desirable predictive capability. Analysis of SOMFA model could provide some useful information in the design of novel HER2 kinase inhibitors with better spectrum of activity.

16.
Iran J Pharm Res ; 12(4): 745-50, 2013.
Article En | MEDLINE | ID: mdl-24523754

Pyrazine derivatives are important class of compounds with diverse biological and cytotoxic activities and clinical applications. In this study, B3 p 86 / 6 - 31 (+ +) G * was used to compute and map the molecular surface electrostatic potentials of a group of substituted amides of pyrazine-2-carboxylic acids to identify common features related to their subsequent cytotoxicities. Several statistical properties including potentials extrema (Vs ,min,Vs ,max), the average of positive electrostatic potential on the surface (Vs (+)), the average of V(r) over the surface (Vs) and the Lowest Unoccupied Molecular Orbital (LUMO) and system cytotoxicities were computed. Statistically, the most significant correlation is a five -parameter equation with correlation coefficient, R² values of 0.922 and R²adj = 0.879. The obtained models allowed us to reveal cytotoxic activity of substituted amides of Pyrazine2- carboxcylic acid.

17.
Iranian J Environ Health Sci Eng ; 9(1): 5, 2012 Sep 03.
Article En | MEDLINE | ID: mdl-23369489

The adsorption characteristics of 4-chloro-2-nitrophenol (4C2NP) onto single-walled and multi-walled carbon nanotubes (SWCNTs and MWCNTs) from aqueous solution were investigated with respect to the changes in the contact time, pH of solution, carbon nanotubes dosage and initial 4C2NP concentration. Experimental results showed that the adsorption efficiency of 4C2NP by carbon nanotubes (both of SWCNTs and MWCNTs) increased with increasing the initial 4C2NP concentration. The maximum adsorption took place in the pH range of 2-6. The linear correlation coefficients of different isotherm models were obtained. Results revealed that the Langmuir isotherm fitted the experimental data better than the others and based on the Langmuir model equation, maximum adsorption capacity of 4C2NP onto SWCNTs and MWCNTs were 1.44 and 4.42 mg/g, respectively. The observed changes in the standard Gibbs free energy, standard enthalpy and standard entropy showed that the adsorption of 4C2NP onto SWCNTs and MWCNTs is spontaneous and exothermic in the temperature range of 298-328 K.

...