Effect of Functional Groups in Lipid Molecules on the Stability of Nanostructured Lipid Carriers: Experimental and Computational Investigations.

Lipid nanoparticles have been used as drug carriers for decades. Many lipid types have been screened for both solid lipid nanoparticles and nanostructured lipid carriers (NLCs). Specifically, for NLCs that are composed of lipids in the solid form mixed with lipids in the liquid form, compatibility of lipid combination and phase behavior play a significant role in the NLC quality. In this study, stearic acid (STA) and cetyl palmitate (CTP) were used as solid lipids, and oleic acid (OLA), isopropyl palmitate (IPP), and caprylic/capric triglycerides were used as liquid lipids. NLCs were prepared at solid:liquid ratios of 50:50, 70:30, and 90:10, respectively. The characteristics and stability of the prepared NLCs were investigated. Laboratory results showed that the solid lipid had a greater influence on the particle size than the liquid lipid. Meanwhile, cetyl palmitate, an ester compound, provides higher NLC stability compared to stearic acid, a carboxylic acid compound. A MARTINI-based coarse-grained molecular dynamics simulation was used to simulate the lipid droplet in water. The distribution of lipid molecules in the droplet was characterized by the polar group density distribution. Different spatial arrangements of the lipid headgroup and lipid molecules, when CTP or STA was used as solid lipids, might contribute to the different stabilities of prepared NLCs. The understanding of mixed lipid systems via simulations will be a significant tool for screening the type of lipids for drug carriers and other pharmaceutical applications.

Dimeric γ-lactone derivatives from the soil-derived fungus Lasiodiplodia theobromae NSTRU-PN1.4.

Investigation of the soil-derived fungus Lasiodiplodia theobromae NSTRU-PN1.4 resulted in the isolation of five dimeric γ-lactones including two new botryosphaerilactones D and E (4 and 5) and three known structurally related analogoues (1-3) along with seven known compounds. Their structures were elucidated by extensive spectroscopic analysis. The absolute configuration of 1-5 was determined by comparison of the ECD data with those of the structurally related monomeric γ-lactones. For biological evaluation, this is the first report on antifungal activity of the known (3 R,4R)-4-acetyl-3-methyl-2(3H)-dihydrofuranone which displayed weak antifungal activity against Cryptococcus neoformans with an MIC value of 200 µg/mL.

OctaDist: a tool for calculating distortion parameters in spin crossover and coordination complexes.

OctaDist is an interactive and visual program for determination of structural distortion in octahedral coordination complexes such as spin crossover complexes, single-ion magnets, perovskites or metal-organic frameworks. OctaDist computes the octahedral distortion parameters initially designed in the context of the spin-crossover phenomenon and denoted ζ, Σ, and Θ from standard structural files. The program also provides additional tools for molecular analyses and visualization. It emphasizes performance, flexibility, ease of use, application programming interface (API) consistency, and clear documentation. The modules and classes in OctaDist can be easily customized to include new algorithms or analytical tools. OctaDist is cross-platform supported for modern operating systems and is available as open-source distributed under the GNU General Public License version 3.

In silico investigation of mitragynine and 7-hydroxymitragynine metabolism.

OBJECTIVE: Mitragynine is the main active compound of Mitragyna speciose (Kratom in Thai). The understanding of mitragynine derivative metabolism in human body is required to develop effective detection techniques in case of drug abuse or establish an appropriate dosage in case of medicinal uses. This in silico study is based upon in vivo results in rat and human by Philipp et al. (J Mass Spectrom 44:1249-1261, 2009). RESULTS: Gas-phase structures of mitragynine, 7-hydroxymitragynine and their metabolites were obtained by quantum chemical method at B3LYP/6-311++G(d,p) level. Results in terms of standard Gibbs energies of reaction for all metabolic pathways are reported with solvation energy from SMD model. We found that 7-hydroxy substitution leads to changes in reactivity in comparison to mitragynine: position 17 is more reactive towards demethylation and conjugation with glucuronic acid and position 9 is less reactive towards conjugation with glucuronic acid. Despite the changes, position 9 is the most reactive for demethylation and position 17 is the most reactive for conjugation with glucuronic acid for both mitragynine and 7-hydroxymitragynine. Our results suggest that 7-hydroxy substitution could lead to different metabolic pathways and raise an important question for further experimental studies of this more potent derivative.

Solvatomorphism and anion effects in predominantly low spin iron(iii) Schiff base complexes.

A series of iron(iii) complexes [Fe(naphEen)2]X·sol (naphEen = 1-{[2-(ethylamino)-ethylimino]methyl}-2-naphtholate; X = F, sol = 0.5CH2Cl2·H2O 1; sol = H2O, X = Cl, 2 and X = Br 3) and [Fe(naphEen)2]I 4 has been prepared. The UV-Vis spectra reveal clear differences for 1 which DFT/TDDFT calculations suggest are due to an equilibrium between [Fe(naphEen)2]F and [Fe(naphEen)2F], the latter having a coordinated F ligand. The X-ray crystal structures of 2-4 show LS Fe(iii) centres in all cases and extensive aryl interactions that link the Fe centres into supramolecular squares. In 3 at room temperature the compound loses half an equivalent of water resulting in a change in space group from Monoclinic P21/n to C2/c. Magnetic studies indicate that 1 is trapped in a mixed spin state being ca. 40% HS while 2-4 are effectively low spin up to 350 K. In contrast, Mössbauer spectroscopic studies of 1 indicate a gradual but incomplete spin crossover. The magnetic properties of 2-4 contrast with the related [Fe(salEen-X)2]anion derivatives which are often spin crossover active.

Effect of PDGF-B aptamer on PDGFRß/PDGF-B interaction: Molecular dynamics study.

PDGFRß/PDGF-B interaction plays a role in angiogenesis, and is mandatory in wound healing and cancer treatment. It has been reported that the PDGF-B aptamer was able to bind to PDGF-B, thus regulating the angiogenesis. However, the binding interaction between the aptamer and the growth factor, including the binding sites, has not been well investigated. This study applied a molecular dynamics (MD) simulation to investigate the aptamer-growth factor interaction in the presence or absence of a receptor (PDGFRß). Characterization of the structure of an aptamer-growth factor complex revealed binding sites from each section in the complex. Upon the complex formation, PDGF-B and its aptamer exhibited less flexibility in their molecular movement, as indicated by the minimum values of RMSD, RMSF, loop-to-loop distance, and the summation of PCA eigenvalues. Our study of residue pairwise interaction demonstrated that the binding interaction was mainly contributed by electrostatic interaction between the positively-charged amino acid and the negatively-charged phosphate backbone. The role of the PDGF-B aptamer in PDGFRß/PDGF-B interaction was also investigated. We demonstrated that the stability of the Apt-PDGF-B complex could prevent the presence of a competitor, of PDGFRß, interrupting the binding process. Because the aptamer was capable of binding with PDGF-B, and blocking the growth factor from the PDGFRß, it could down regulate the consequent signaling pathway. We provide evidence that the PDGF-BB aptamer is a promising molecule for regulation of angiogenesis. The MD study provides a molecular understanding to modification of the aptamer binding interaction, which could be used in a number of medical applications.

Oligonucleotide Hybridization Combined with Competitive Antibody Binding for the Truncation of a High-Affinity Aptamer.

Truncation can enhance the affinity of aptamers for their targets by limiting nonessential segments and therefore limiting the molecular degrees of freedom that must be overcome in the binding process. This study demonstrated a truncation protocol relying on competitive antibody binding and the hybridization of complementary oligonucleotides, using platelet derived growth factor BB (PDGF-BB) as the model target. On the basis of the immunoassay results, an initial long aptamer was truncated to a number of sequences with lengths of 36-40 nucleotides (nt). These sequences showed apparent KD values in the picomolar range, with the best case being a 36-nt truncated aptamer with a 150-fold increase in affinity over the full-length aptamer. The observed binding energies correlated well with relative energies calculated by molecular dynamics simulations. The effect of the truncated aptamer on PDGF-BB-stimulated fibroblasts was found to be equivalent to that of the full-length aptamer.

Mechanism of Ni N-heterocyclic carbene catalyst for C-O bond hydrogenolysis of diphenyl ether: a density functional study.

Catalysts for aromatic C-O bond activation can potentially be used for the lignin degradation process. We investigated the mechanisms of C-O bond hydrogenolysis of diphenyl ether (PhOPh) by the nickel N-heterocyclic carbene (Ni-SIPr) complex to produce benzene and phenol as products. Our calculations revealed that diphenyl ether is not only a substrate, but also serves as a ligand to stabilize the Ni-SIPr complex. The Ni(SIPr)(η(6)-PhOPh) complex is initially formed before rearranging to Ni(SIPr)(η(2)-PhOPh), the active species for C-O bond activation. The catalytic reaction has three steps: (i) oxidative addition of Ni(SIPr)(η(2)-PhOPh) to form [Ni(SIPr)(OPh)(Ph)](0), (ii) σ-complex-assisted metathesis, in which H2 binds to the nickel to form [Ni(SIPr)(OPh)(Ph)(H2)](0), and then benzene (or phenol) is eliminated, and (iii) reductive elimination of phenol (or benzene) and the binding of PhOPh to regenerate Ni(SIPr)(η(2)-PhOPh). As the rate determining step is the oxidative addition step (+24 kcal mol(-1)), we also calculated the free energy barriers for the oxidative addition of diaryl ether containing a trifluoromethyl electron withdrawing group (PhOC6H4CF3) and found that C-O bond activation at the carbon adjacent to the aryl ring that contains the electron withdrawing substituent is preferred. This is in agreement with the experimental results, in that the major products are phenol and trifluoromethylbenzene. Moreover, the hydrogenation of benzene via Ni(SIPr)(η(2)-C6H6) requires a high energy barrier (+39 kcal mol(-1)); correspondingly, the hydrogenation products, e.g. cyclohexane and cyclohexadiene, were not observed in the experiment. Understanding the reaction mechanisms of the nickel catalysts for C-O bond hydrogenolysis of diphenyl ether will guide the development of catalytic systems for aromatic C-O bond activation to achieve the highest possible selectivity and efficiency.

A new screening method for flunitrazepam in vodka and tequila by fluorescence spectroscopy.

A new screening method for flunitrazepam in colourless alcoholic beverages based on a spectroscopic technique is proposed. Absorption and steady-state fluorescence of flunitrazepam and its protonated form with various acids were investigated. The redshift of the wavelength of maximum absorption was distinctively observed in protonated flunitrazepam. An emissive fluorescence at 472 nm was detected in colourless spirits (vodka and tequila) at room temperature. 2-M perchloric acid was the most appropriated proton source. By using electron ionization mass spectrometry and time-dependent density functional theory calculations, the possible structure of protonated flunitrazepam was identified to be 2-nitro-N-methylacridone, an acridone derivative as opposed to 2-methylamino-5-nitro-2'-fluorobenzophenone, a benzophenone derivative.

Photoactive azoimine dyes: 4-(2-pyridylazo)-N,N-diethylaniline and 4-(2-pyridylazo)-N,N-dimethylaniline: computational and experimental investigation.

4-(2-Pyridylazo)-N,N-dimethylaniline and 4-(2-pyridylazo)-N,N-diethylaniline, two photoactive azoimine dyes, were prepared from the reaction of 2-aminopyridine with N,N-dialkyl-1,4-nitrosoaniline at room temperature. Structural characterizations of these dyes using single crystal X-ray diffraction, (1)H NMR, elemental analysis, mass spectroscopy and IR spectroscopy have been carried out. The X-ray structure indicates a trans configuration around the azo group. The photochemical behavior of these compounds differs from that of 2-phenylazopyridine, the non-dialkylamino substituent compound. The synthesized compounds show emission spectra at room temperature while 2-phenylazopyridine does not. The excitation spectra of these compounds differ from their absorption spectra which can be explained on the basis of the trans to cis photoisomerization which is supported by the TD-PBE0/6-31G(d,p) calculations. Both oxidation of the dialkylamino substituents (-NR(2); R=-CH(3) and -C(2)H(5)) and reduction of -N=N-/-N=N-(-) and -N=N-(-)/-N=N-(2-) were observed in the cyclic voltammogram indicating a π-acidity of both dyes.

Dichloridobis{N,N-diethyl-4-[(pyridin-2-yl-κN)diazen-yl]aniline}zinc.

In the title complex, [ZnCl(2)(C(15)H(18)N(4))(2)], the Zn(II) cation is coordinated by two N atoms from the pyridine rings of two unidentate N,N-diethyl-4-[(pyridin-2-yl)diazen-yl]aniline ligands and two Cl atoms, resulting in a distorted tetra-hedral geometry. The ligands are mutually transoid with respect to the metal atom. Weak inter-molecular C-H⋯Cl hydrogen bonds and π-π inter-actions, with centroid-centroid distances of 3.8452 (14) and 3.9932 (14) Å, are found in the crystal packing.

Decomposition of nitrous oxide on carbon nanotubes.

In this work, we have suggested the possibility of using carbon nanotubes to remove toxic gas. By taking an advantage of the density functional theory, we have investigated the decomposition of nitrous oxide (N(2)O) on the sidewalls of the perfect and the Stone-Wales defect armchair (5,5)-SWNTs at the B3LYP/6-31G(d) level of theory. There are two reaction mechanisms proposed: stepwise and concerted pathways. Our calculations predict that the former route is kinetically favored on both the perfect and defect SWNTs with barrier heights of the rate-determining steps of 37.23 and 34.38 kcal/mol for the perfect and the defect systems, respectively. In the second pathway, the decomposition of nitrous oxide gas takes place in a single step with higher reaction barriers of 48.60 and 40.27 kcal/mol on the sidewalls of the perfect and the defect SWNTs, respectively. Moreover, we also demonstrated that an encapsulation of electron rich species, such as chloride anion, inside the channel of the SWNT can boost up the reaction rate of the N(2)O decomposition on the SWNT. The chloride ion supplies excess electrons to the SWNT for transferring to the N(2)O molecule causing lower reaction barriers in the reaction pathways.

Influence of stereoisomer of dispiro-1,2,4,5-tetraoxanes on their binding mode with heme and on antimalarial activity: molecular docking studies.

Based on the fact that different isomers may exhibit substantial distinct activities, quantum chemical calculations and automated molecular docking simulations were carried out for 13 dispiro-1,2,4,5-tetraoxane compounds, which experimentally exist as a mixture of several isomers, to elucidate the most probable isomer(s) responsible for their antimalarial activity. The results indicate significant effects of stereoisomer on the binding mode and the activity. Moreover, the antimalarial potency of each compound can be described by the docking results. Compounds 1, 2, 4, 5, 7, and 9 have the most probable isomers coordinate suitably with heme iron and hence they have high activities while the most probable isomer in compounds 3 and 8 could not bind appropriately to heme yielding only moderate activities. On the other hand, the steric hindrance in compounds 11-13 prevents an approach of heme iron to peroxide bonds resulting in a devoid of antimalarial activity. However, compounds 6 and 10 with isopropyl substituents exhibit a different docking character, which is possibly caused by a limitation in molecular flexibility of the available docking technique. Our results can be used as a guideline for stereochemical control in synthesis process to improve drug's potency.