Synthesis of biotinylated diazinon: Lessons learned for biotinylation of thiophosphate esters

Biotinylation permits recovery of a molecule from a complex mixture, with commercially available streptavidin containing products (such as streptavidin-coated beads). As part of a larger effort to evaluate reagents capable of degrading diazinon, a thiophosphate insecticide, we pursued biotinylation of this molecule. Our strategy focused on replacing a single thiophosphate ethyl ester with an ester linkage that contains biotin. Multiple approaches—using published methods—were unsuccessful and resulted in no reactivity, or degradation of starting material. Here, we report a successful strategy for the synthesis of biotinylated diazinon, which is likely applicable to alternative thiophosphate esters and other biotinylated molecules.     

Determination of the “Privileged Structure” of 8-Hydroxyquinoline

An accurate semi-experimental equilibrium structure of 8-hydroxyquinoline (8-HQ) has been determined combining experiment and theory. The cm-wave rotational spectrum of 8-HQ was recorded in a pulsed supersonic jet using broadband dual-path reflection and narrowband Fabry-Perot-type resonator Fourier-transform microwave spectrometers. Accurate rotational and quartic centrifugal distortion constants and ¹⁴N quadrupole coupling constants are determined. Rotational constants of all ¹³C, ¹⁸O and ¹⁵N singly substituted isotopologues in natural abundance and those of a chemically synthesized OD isotopologue were used to obtain geometric parameters for all the heavy atoms and the hydroxyl hydrogen from a number of structure determination models. Theoretical approaches allowed for the determination of a semi-experimental equilibrium structure, in which computed rovibrational and electronic corrections were utilized to convert vibrational ground state constants into equilibrium constants. Despite the molecule having only a horizontal plane of symmetry and possessing 11 individual heavy atoms, microwave spectroscopy has allowed for a reliable and accurate structure determination. A mass dependent, structure was determined and proved to be equally reliable by comparison with the B3LYP-D3(BJ)/aVTZ equilibrium structure.     

Oxomolybdenum tetrathiolates with sterically encumbering ligands: modeling the effect of a protein matrix on electronic structure and reduction potentials

The effect of sterically encumbering ligands on the electronic structure of oxomolybdenum tetrathiolate complexes was determined using a combination of electronic absorption and magnetic circular dichroism spectroscopies, complimented by DFT bonding calculations, to understand geometric and electronic structure contributions to reduction potentials. These complexes are rudimentary models for a redox-active metalloenzyme active site in a protein matrix and allow for detailed spectroscopic probing of specific oxomolybdenum-thiolate interactions that are directly relevant to Mo-S(cysteine) bonding in pyranopterin molybdenum enzymes. Data are presented for three para-substituted oxomolybdenum tetrathiolate complexes ([PPh4][MoO(p-SPhCONHCH3)4], [PPh4][MoO(p-SPhCONHC(CH2O(CH2)2CN)3)4], and [PPh4][MoO(p-SPhCONHC(CH2O(CH2)2COOCH2CH3)3)4]). The Mo(V/IV) reduction potentials of the complexes in DMF are -1213, -1251, and -1247 mV, respectively. The remarkably similar electronic absorption and magnetic circular dichroism spectra of these complexes establish that the observed reduction potential differences are not a result of significant changes in the electronic structure of the [MoOS4]- cores as a function of the larger ligand size. We provide evidence that these reduction potential differences result from the driving force for a substantial reorganization of the O-Mo-S-C dihedral angle upon reduction, which decreases electron donation from the thiolate sulfurs to the reduced molybdenum center. The energy barrier to favorable O-Mo-S-C geometries results in a reorganizational energy increase, relative to [MoO(SPh)4](-/2-), that correlates with ligand size. The inherent flexible nature of oxomolybdenum-thiolate bonds indicate that thiolate ligand geometry, which controls Mo-S covalency, could affect the redox processes of monooxomolybdenum centers in pyranopterin molybdenum enzymes.     

High-resolution FTIR spectroscopy of HNSO—Analysis of the highly perturbed ν4, ν6 and 2ν5 bands

We report a rovibrational analysis of the ν₄ and ν₆ fundamentals and the 2ν₅ overtone of HNSO from high-resolution Fourier transform infrared spectra. The ν₆ band (out-of-plane bend) centred at 757.5 cm⁻¹ is c-type. The ν₄ band (HNS bend) centred at 905.9 cm⁻¹ is predominantly a-type with a very weak b-type component (). Numerous global perturbations and localized avoided crossings affecting the v₄ = 1 rotational levels were successfully treated by inclusion of Fermi and c-axis Coriolis resonance terms between v₄ = 1 and v₅ = 2, and a b-axis Coriolis resonance term between v₄ = 1 and v₆ = 1. The latter term gives rise to an avoided crossing with an extraordinary ΔK_a = 5 selection rule. The Fermi resonance between v₄ = 1 and v₅ = 2 gives rise to strong mixing of their rotational wavefunctions in the vicinity of K_a = 18. The resultant borrowing of intensity made it possible for 2ν₅ transitions in the range K_a = 16–19 to be assigned and included in a global rovibrational treatment of all three band systems.     

Electronic structure studies of oxomolybdenum tetrathiolate complexes: origin of reduction potential differences and relationship to cysteine-molybdenum bonding in sulfite oxidase

Electronic absorption, magnetic circular dichroism, and resonance Raman spectroscopies have been used to determine the nature of oxomolybdenum-thiolate bonding in (PPh4)[MoO(SPh)4] (SPh = phenylthiolate) and (HNEt3)[MoO(SPh-PhS)2] (SPh-PhS = biphenyl-2,2'-dithiolate). These compounds, like all oxomolybdenum tetraarylthiolate complexes previously reported, display an intense low-energy charge-transfer feature that we have now shown to be comprised of multiple S-->Mo dxy transitions. The integrated intensity of this low-energy band in [MoO(SPh)4]- is approximately twice that of [MoO(SPh-PhS)2]-, implying a greater covalent reduction of the effective nuclear charge localized on the molybdenum ion of the former and a concomitant negative shift in the Mo(V)/Mo(IV) reduction potential brought about by the differential S-->Mo dxy charge donation. However, this is not observed experimentally; the Mo(V)/Mo(IV) reduction potential of [MoO(SPh)4]- is approximately 120 mV more positive than that of [MoO(SPh-PhS)2]- (-783 vs -900 mV). Additional electronic factors as well as structural reorganizational factors appear to play a role in these reduction potential differences. Density functional theory calculations indicate that the electronic contribution results from a greater sigma-mediated charge donation to unfilled higher energy molybdenum acceptor orbitals, and this is reflected in the increased energies of the [MoO(SPh-PhS)2]- ligand-to-metal charge-transfer transitions relative to those of [MoO(SPh)4]-. The degree of S-Mo dxy covalency is a function of the O identical to Mo-S-C dihedral angle, with increasing charge donation to Mo dxy and increasing charge-transfer intensity occurring as the dihedral angle decreases from 90 to 0 degree. These results have implications regarding the role of the coordinated cysteine residue in sulfite oxidase. Although the O identical to Mo-S-C dihedral angles are either approximately 59 or approximately 121 degrees in these oxomolybdenum tetraarylthiolate complexes, the crystal structure of the enzyme reveals an O identical to Mo-SCys-C angle of approximately 90 degrees. Thus, a significant reduction in SCys-Mo dxy covalency is anticipated in sulfite oxidase. This is postulated to preclude the direct involvement of coordinated cysteine in coupling the active site into efficient superexchange pathways for electron transfer, provided the O identical to Mo-SCys-C angle is not dynamic during the course of catalysis. Therefore, we propose that a primary role for coordinated cysteine in sulfite oxidase is to statically poise the reduced molybdenum center at more negative reduction potentials in order to thermodynamically facilitate electron transfer from Mo(IV) to the endogenous b-type heme.     

A simple sliding‐mesh interface procedure and its application to the CFD simulation of a tidal‐stream turbine

An effective way of using computational fluid dynamics (CFD) to simulate flow about a rotating device—for example, a wind or marine turbine—is to embed a rotating region of cells inside a larger, stationary domain, with a sliding interface between. This paper describes a simple but effective method for implementing this as an internal Dirichlet boundary condition, with interfacial values obtained by interpolation from halo nodes. The method is tested in two finite‐volume codes: one using block‐structured meshes and the other unstructured meshes. Validation is performed for flow around simple, isolated, rotating shapes (cylinder, sphere and cube), comparing, where possible, with experiment and the alternative CFD approach of fixed grid with moving walls. Flow variables are shown to vary smoothly across the sliding interface. Simulations of a tidal‐stream turbine, including both rotor and support, are then performed and compared with towing‐tank experiments. Comparison between CFD and experiment is made for thrust and power coefficients as a function of tip‐speed ratio (TSR) using Reynolds‐averaged Navier–Stokes turbulence models and large‐eddy simulation (LES). Performance of most models is good near the optimal TSR, but simulations underestimate mean thrust and power coefficients in off‐design conditions, with the standard k– ? turbulence model performing noticeably worse than shear stress transport k– ω and Reynolds‐stress‐transport closures. LES gave good predictions of mean load coefficients and vital information about wake structures but at substantial computational cost. Grid‐sensitivity studies suggest that Reynolds‐averaged Navier–Stokes models give acceptable predictions of mean power and thrust coefficients on a single device using a mesh of about 4 million cells. Copyright © 2013 John Wiley & Sons, Ltd.     

ENDOR characterization of a synthetic diiron hydrazido complex as a model for nitrogenase intermediates

Molybdenum-dependent nitrogenase binds and reduces N2 at the [Fe7, Mo, S9, X, homocitrate] iron-molybdenum cofactor (FeMo-co). Kinetic and spectroscopic studies of nitrogenase variants indicate that a single Fe-S face is the most likely binding site. Recently, substantial progress has been made in determining the structures of nitrogenase intermediates formed during alkyne and N2 reduction through use of ENDOR spectroscopy. However, constraints derived from ENDOR studies of biomimetic complexes with known structure would powerfully contribute in turning experimentally derived ENDOR parameters into structures for species bound to FeMo-co during N2 reduction. The first report of a paramagnetic Fe-S compound that binds reduced forms of N2 involved Fe complexes stabilized by a bulky beta-diketiminate ligand (Vela, J.; Stoian, S.; Flaschenriem, C. J.; Münck, E.; Holland, P. L. J. Am. Chem. Soc. 2004, 126, 4522-4523). Treatment of a sulfidodiiron(II) complex with phenylhydrazine gave an isolable mixed-valence FeII-Fe(III) complex with a bridging phenylhydrazido (PhNNH2) ligand, and this species now has been characterized by ENDOR spectroscopy. Using both 15N, 2H labeled and unlabeled forms of the hydrazido ligand, the hyperfine and quadrupole parameters of the -N-NH2 moiety have been derived by a procedure that incorporates the (near-) mirror symmetry of the complex and involves a strategy which combines experiment with semiempirical and DFT computations. The results support the use of DFT computations in identifying nitrogenous species bound to FeMo-co of nitrogenase turnover intermediates and indicate that 14N quadrupole parameters from nitrogenase intermediates will provide a strong indication of the nature of the bound nitrogenous species. Comparison of the large 14N hyperfine couplings measured here with that of a hydrazine-derived species bound to FeMo-co of a trapped nitrogenase intermediate suggests that the ion(s) are not high spin and/or that the spin coupling coefficients of the coordinating cofactor iron ion(s) in the intermediate are exceptionally small.