Fundamental reaction mechanism for cocaine hydrolysis in human butyrylcholinesterase

Butyrylcholinesterase (BChE)-cocaine binding and the fundamental pathway for BChE-catalyzed hydrolysis of cocaine have been studied by molecular modeling, molecular dynamics (MD) simulations, and ab initio calculations. Modeling and simulations indicate that the structures of the prereactive BChE/substrate complexes for (-)-cocaine and (+)-cocaine are all similar to that of the corresponding prereactive BChE/butyrylcholine (BCh) complex. The overall binding of BChE with (-)-cocaine and (+)-cocaine is also similar to that proposed with butyrylthiocholine and succinyldithiocholine, i.e., (-)- or (+)-cocaine first slides down the substrate-binding gorge to bind to Trp-82 and stands vertically in the gorge between Asp-70 and Trp-82 (nonprereactive complex) and then rotates to a position in the catalytic site within a favorable distance for nucleophilic attack and hydrolysis by Ser-198 (prereactive complex). In the prereactive complex, cocaine lies horizontally at the bottom of the gorge. The fundamental catalytic hydrolysis pathway, consisting of acylation and deacylation stages similar to those for ester hydrolysis by other serine hydrolases, was proposed on the basis of the simulated prereactive complex and confirmed theoretically by ab initio reaction coordinate calculations. Both the acylation and deacylation follow a double-proton-transfer mechanism. The calculated energetic results show that within the chemical reaction process the highest energy barrier and Gibbs free energy barrier are all associated with the first step of deacylation. The calculated ratio of the rate constant (k(cat)) for the catalytic hydrolysis to that (k(0)) for the spontaneous hydrolysis is approximately 9.0 x 10(7). The estimated k(cat)/k(0) value of approximately 9.0 x 10(7) is in excellent agreement with the experimentally derived k(cat)/k(0) value of approximately 7.2 x 10(7) for (+)-cocaine, whereas it is approximately 2000 times larger than the experimentally derived k(cat)/k(0) value of approximately 4.4 x 10(4) for (-)-cocaine. All of the results suggest that the rate-determining step of the BChE-catalyzed hydrolysis of (+)-cocaine is the first step of deacylation, whereas for (-)-cocaine the change from the nonprereactive complex to the prereactive complex is rate-determining and has a Gibbs free energy barrier higher than that for the first step of deacylation by approximately 4 kcal/mol. A further analysis of the structural changes from the nonprereactive complex to the prereactive complex reveals specific amino acid residues hindering the structural changes, providing initial clues for the rational design of BChE mutants with improved catalytic activity for (-)-cocaine.     

Analysis of laser-nitrided stainless steel via nuclear methods

Laser nitriding of iron and other metals is governed by the complicated interplay of the laser-plasma-liquid surface interactions which lead to a superposition of several mechanisms. This article reports on the influence of the nitrogen gas pressure on the nitriding process for stainless steel. The effects of the nitrogen gas pressure on the nitrogen depth profiles and the phase formation are revealed by resonant nuclear reaction analysis, Mössbauer spectroscopy, and X-ray diffraction. We found that the surface nitrogen concentration reaches 10 at. % with a mean value of about 7.5 at. % in the first 150 nm. There seems to be a pressure window between 0.1 and 0.7 MPa for the most efficient treatment. In the surface layer, an additional %-Fe(N) phase can be distinguished from the original %-phase of the stainless steel.     

Aptamer-based folding fluorescent sensor for cocaine.

We adapted in two steps a deoxyribonucleotide-based aptamer to signal the recognition of cocaine: an instability was engineered in one stem of a three-way junction that forms the cocaine-binding pocket and the resulting short stem was end labeled with a fluorophore and a quencher. In the absence of cocaine, two stems are open, but in its presence they close and the three-way junction forms. This major structural change brings fluorophore and quencher together thereby signaling the presence and concentration of ligand. The sensor is selective for cocaine over its metabolites, can operate in serum, and is useful for the screening of cocaine hydrolases.     

Bulk—like contribution of tunnel magnetoresistance in magnetic tunnel junctions

We have demonstrated that the bulk-like contribution to tunnelling magnetoresistance (TMR) exists in the magnetic tunnel junctions, and is determined by the tunnelling characteristic length of the ferromagnetic electrodes. In the experiment, a wedge-shaped CoFe layer is inserted at the interface between the insulating barrier and the reference electrode. It is found that TMR ratio increases from 18% without CoFe layer to a saturation value of 26.5% when the CoFe thickness is about 2.3 nm. The tunnelling characteristic length, l_{tc}, can be obtained to be about 0.8 nm for CoFe materials.     

Synthesis and structural characterization of [kappa3-B,S,S-B(mimR)3]Ir(CO)(PPh3)H (R = Bu(t), Ph) and [kappa4-B(mim(Bu(t))3]M(PPh3)Cl (M = Rh, Ir): analysis of the bonding in metal borane compounds

A series of iridium and rhodium complexes that feature M-->B dative bonds, namely [kappa(3)-B,S,S-B(mim(R))3]Ir(CO)(PPh3)H (R = But, Ph) and [kappa4-B(mim(Bu)t)3]M(PPh3)Cl (M = Rh, Ir), has been synthesized via (i) the reactions of Ir(PPh3)2(CO)Cl with [Tm(Bu)t]Tl and [Tm(Ph)]Li and (ii) the reactions of (COD)M(PPh3)Cl with [Tm(Bu)t]K. The complexes have been structurally characterized by X-ray diffraction, thereby demonstrating the presence of a M-->B dative bond in each complex. The nature of the M-->B interaction in these complexes has been addressed by computational methods which indicate that the metal centers possess a d(6) configuration. The d(6) configuration is in accord with the value predicted by using a method that employs the valence to determine d(n)(), but is not in accord with the d8 configuration that is predicted using the oxidation number. Thus, even though B(mim(R))3 may be regarded as a neutral closed-shell ligand, coordination to a d(n) transition metal via the boron results in the formation of a complex in which the metal center possesses a d(n-2) configuration.     

Influence of Numerical Cementation on Multiphase Displacement in Rough Fractures

We present an application of 3D X-ray computed microtomography for studying the influence of numerical cementation on flow in a cement-lined rough-walled fracture. The imaged fracture geometry serves as input for flow modeling using a combination of the level set and the lattice Boltzmann methods to characterize the capillary-dominated fluid displacement properties and the relative permeability of the naturally cemented fracture. We further numerically add cement to the naturally cement-lined fracture to quantify the effect of increasing cement thickness and diminishing aperture on flow properties. Pore space geometric tortuosity and capillary pressure as a function of water saturation both increase with the numerically increased fracture cement thickness. The creation of unevenly distributed apertures and cement contact points during numerical cement growth causes the wetting and non-wetting fluids to impede each other, with no consistent trends in relative permeability with increasing saturation. Tortuosity of wetting and non-wetting fluid phases exhibits none to poor correlation with relative permeability and thus cannot be used to predict it, contrary to previous findings in smoother fractures.     

Synthesis, structure, and reactivity of a new Ti-containing microporous/mesoporous material

A new class of porous, mixed phase titanosilicate materials containing a microporous TS-1 phase and a mesoporous Ti-MCM-48 phase has been successfully synthesized. A novel, one-pot synthesis method was used in which the organic templates for the mesoporous and microporous phases were added sequentially to the same reaction mixture, followed by crystallization at 150 degrees C. The gemini surfactant 18-12-18 was used to form the Ti-MCM-48 mesophase; subsequent addition of tetrapropylammonium cation (TPA+) led to the formation of TS-1. The relative amounts of the two phases within the final products were controlled by optimizing the crystallization time. Crystallization times between 12 and 50 h gave materials containing both phases, with an increasing amount of microphase formed at longer crystallization times. These materials, called "Ti-MMM-2" (microporous/mesoporous materials) were characterized using powder XRD, N2 physisorption, TEM, FTIR, DR-UV/Vis spectroscopy, and 29Si MAS NMR. In the epoxidation of cyclohexene with tert-butyl hydroperoxide (TBHP), Ti-MMM-2 samples exhibited higher catalytic activity (approximately 61%) than either TS-1 (16%) or Ti-MCM-48 (42%), with a very high selectivity (97%) for formation of cyclohexene oxide.     

Laser nitriding investigated with Mössbauer spectroscopy

The effect of the nitrogen take‐up upon irradiation of iron or steel with excimer laser pulses in air or in nitrogen atmosphere is well established. The resulting phase compositions and nitrogen depth profiles were measured by a combination of simultaneous Conversion Electron Mössbauer Spectroscopy (CEMS), Conversion X‐ray Mössbauer Spectroscopy (CXMS), and Resonant Nuclear Reaction Analysis (RNRA) as a function of the nitrogen gas pressure during irradiation. A maximum nitrogen content and a maximum fraction of the ?-nitride was found at 0.1 MPa. This result is in accordance with hardness measurements performed by the nanoindentation technique.