Charge calculations in molecular mechanics. IX. A general parameterisation of the scheme for saturated halogen,oxygen and nitrogen compounds

Summary The CHARGE2 program for the calculation of partial atomic charges has been amended to include bond parameters for a number of organic functional groups, including halogens, nitrogen and oxygen. These minor amendments to the original scheme produce dipole moments for the fluoro and chloro compounds which are in complete agreement with the observed values.The less complete data sets for the bromo and iodo compounds are also well reproduced, and the dipole moments of a variety of mixed halo compounds are now in better agreement with experiment than previously.The calculated dipole moments of the saturated nitrogen and oxygen compounds are now in much better agreement than in the original scheme, thus the revised parameterisation may be employed with confidence to predict the electrostatic energies of these compounds.Furthermore, the revised scheme now gives a precise proportionality between the charge on the proton in a CH group and the ¹H chemical shift of the corresponding proton, allowing the general prediction, in principle, of ¹H chemical shifts. In addition, attempts to include variable electronegativity in the effect are described for fluoro compounds.For part VIII see Ref. 1.     

Hydrothermal syntheses, characterizations and crystal structures of three new cadmium (II) amino-diphosphonates: effects of substitute groups on the structures of metal phosphonates

Hydrothermal reactions of cadmium(II) chloride with three amino-diphosphonic acids, C₆H₅CH₂N(CH₂PO₃H₂)₂ (H₄L¹), C₆H₅CH₂CH₂N(CH₂PO₃H₂)₂ (H₄L²) and 4-CH₃-C₆H₄CH₂N (CH₂PO₃H₂)₂) (H₄L³) resulted in three new metal amino-diphosphonates, namely, Cd(H₃L¹)₂, 1 Cd(H₃L²)₂·2H₂O 2 and Cd(H₃L³)₂3. In all three complexes, the Cd(II) ion is octahedrally coordinated by six phosphonate oxygen atoms from six ligands. Complexes 1 and 3 have a similar structure in which the CdO₆ octahedra are cross-linked by bridging ligands into a double chain along the c-axis, such double chains are further interlinked via hydrogen bonds between non-coordinated phosphonate oxygen atoms to form 〈100〉 and 〈200〉 layers with the phenyl groups of the ligands orientated toward the interlayer space. The structure of complex 2 features a 〈100〉 cadmium(II) diphosphonate layer. The effects of the substitute groups attached to the amine groups on the structures of the metal phosphonates are also discussed.     

Synthesis and crystal structure of new uranyl tungstates M2(UO2)(W2O8) (M=Na, K), M2(UO2)2(WO5)O (M=K, Rb), and Na10(UO2)8(W5O20)O8

The solid-state reactions of UO₃ and WO₃ with M₂CO₃ (M=Na, K, Rb) at 650°C for 5 days result, accordingly the starting stoichiometry, in the formation of M₂(UO₂)(W₂O₈) (M=Na (1), K (2)), M₂(UO₂)₂(WO₅)O (M=K (3), Rb (4)), and Na₁₀(UO₂)₈(W₅O₂₀)O₈ (5). The crystal structures of compounds 2, 3, 4, and 5 have been determined by single-crystal X-ray diffraction using Mo(Kα) radiation and a charge-coupled device detector. The crystal structures were solved by direct methods and Fourier difference techniques, and refined by a least-squares method on the basis of F² for all unique reflections. For (1), unit-cell parameters were determined from powder X-ray diffraction data. Crystallographic data: 1, monoclinic, a=12.736(4) Å, b=7.531(3) Å, c=8.493(3) Å, β=93.96(2)°, ρ_cal=6.62(2) g/cm³, ρ_mes=6.64(1) g/cm³, Z=4; 2, orthorhombic, space group Pmcn, a=7.5884(16) Å, b=8.6157(18) Å, c=13.946(3) Å, ρ_cal=6.15(2) g/cm³, ρ_mes=6.22(1) g/cm³, Z=8, R1=0.029 for 80 parameters with 1069 independent reflections; 3, monoclinic, space group P2₁/n, a=8.083(4) Å, b=28.724(5) Å, c=9.012(4) Å, β=102.14(1)°, ρ_cal=5.83(2) g/cm³, ρ_mes=5.90(2) g/cm³, Z=8, R1=0.037 for 171 parameters with 1471 reflections; 4, monoclinic, space group P2₁/n, a=8.234(1) Å, b=28.740(3) Å, c=9.378(1) Å, β=104.59(1)°, ρ_cal=6.13(2) g/cm³,  g/cm³, Z=8, R1=0.037 for 171 parameters with 1452 reflections; 5, monoclinic, space group C2/c, a=24.359(5) Å, b=23.506(5) Å, c=6.8068(14) Å, β=94.85(3)°, ρ_cal=6.42(2) g/cm³,  g/cm³, Z=8, R1=0.036 for 306 parameters with 5190 independent reflections. The crystal structure of 2 contains linear one-dimensional chains formed from edge-sharing UO₇ pentagonal bipyramids connected by two octahedra wide (W₂O₈) ribbons formed from two edge-sharing WO₆ octahedra connected together by corners. This arrangement leads to [UW₂O₁₀]²⁻ corrugated layers parallel to (001). Owing to the unit-cell parameters, compound 1 probably contains similar sheets parallel to (100). Compounds 3 and 4 are isostructural and the structure consists of bi-dimensional networks built from the edge- and corner-sharing UO₇ pentagonal bipyramids. This arrangement creates square sites occupied by W atoms, a fifth oxygen atom completes the coordination of W atoms to form WO₅ distorted square pyramids. The interspaces between the resulting [U₂WO₁₀]²⁻ layers parallel to plane are occupied by K or Rb atoms. The crystal structure of compound 5 is particularly original. It is based upon layers formed from UO₇ pentagonal bipyramids and two edge-shared octahedra units, W₂O₁₀, by the sharing of edges and corners. Two successive layers stacked along the [100] direction are pillared by WO₄ tetrahedra resulting in sheets of double layers. The sheets are separated by Na⁺ ions. The other Na⁺ ions occupy the rectangular tunnels created within the sheets. In fact complex anions W₅O₂₀¹⁰⁻ are built by the sharing of the four corners of a WO₄ tetrahedron with two W₂O₁₀ dimmers, so, the formula of compound 5 can be written Na₁₀(UO₂)₈(W₅O₂₀)O₈.     

Automated sample preparation method for suspension arrays using renewable surface separations with multiplexed flow cytometry fluorescence detection

In this paper, we describe a new method of automated sample preparation for multiplexed biological analysis systems that use flow cytometry fluorescence detection. In this approach, color-encoded microspheres derivatized to capture particular biomolecules are temporarily trapped in a renewable surface separation column to enable perfusion with sample and reagents prior to delivery to the detector. This method provides for separation of the biomolecules of interest from other sample matrix components as well as from labeling solutions. After sample preparation, the beads can be released from the renewable surface column and delivered to a flow cytometer for direct on-bead analysis one bead at a time. Using mixtures of color-encoded beads derivatized for various analytes yields suspension arrays for multiplexed analysis. Development of this approach required a new technique for automated capture and release of the color-encoded microspheres within a fluidic system. We developed a method for forming a renewable filter and demonstrate its use for capturing microspheres that are too small to be easily captured in previous flow cells for renewable separation columns. The renewable filter is created by first trapping larger beads in the flow cell, and then smaller beads are captured either within or on top of the bed of larger beads. Both the selective microspheres and filter bed are automatically emplaced and discarded for each sample. A renewable filter created with 19.9 μm beads was used to trap 5.6 μm optically encoded beads with trapping efficiencies of 99%. The larger beads forming the renewable filter did not interfere with the detection of color-encoded 5.6 μm beads by the flow cytometer fluorescence detector. The use of this method was demonstrated with model reactions for a variety of bioanalytical assay types including a one-step capture of a biotinylated label on Lumavidin beads, a two-step sandwich immunoassay, and a one-step DNA binding assay. A preliminary demonstration of multiplexed detection of two analytes using color-encoded beads was also demonstrated. The renewable filter for creating separation columns containing optically encoded beads provides a general platform for coupling renewable surface methods for sample preparation and analyte labeling with flow cytometry detectors for suspension array multiplexed analyses.     

Human neural stem cell growth and differentiation in a gradient-generating microfluidic device

This paper describes a gradient-generating microfluidic platform for optimizing proliferation and differentiation of neural stem cells (NSCs) in culture. Microfluidic technology has great potential to improve stem cell (SC) cultures, whose promise in cell-based therapies is limited by the inability to precisely control their behavior in culture. Compared to traditional culture tools, microfluidic platforms should provide much greater control over cell microenvironment and rapid optimization of media composition using relatively small numbers of cells. Our platform exposes cells to a concentration gradient of growth factors under continuous flow, thus minimizing autocrine and paracrine signaling. Human NSCs (hNSCs) from the developing cerebral cortex were cultured for more than 1 week in the microfluidic device while constantly exposed to a continuous gradient of a growth factor (GF) mixture containing epidermal growth factor (EGF), fibroblast growth factor 2 (FGF2) and platelet-derived growth factor (PDGF). Proliferation and differentiation of NSCs into astrocytes were monitored by time-lapse microscopy and immunocytochemistry. The NSCs remained healthy throughout the entire culture period, and importantly, proliferated and differentiated in a graded and proportional fashion that varied directly with GF concentration. These concentration-dependent cellular responses were quantitatively similar to those measured in control chambers built into the device and in parallel cultures using traditional 6-well plates. This gradient-generating microfluidic platform should be useful for a wide range of basic and applied studies on cultured cells, including SCs.     

Many-particle tracking with nanometer resolution in three dimensions by reflection interference contrast microscopy

We have developed and characterized a method, based on reflection interference contrast microscopy, to simultaneously determine the three-dimensional positions of multiple particles in a colloidal monolayer. To evaluate this method, the interaction of 6.8 microm (+/-5%) diameter lipid-derivatized silica microspheres with an underlying planar borosilicate substrate is studied. Measured colloidal height distributions are consistent with expectations for an electrostatically levitated colloidal monolayer. The precision of the method is analyzed using experimental techniques in addition to computational bootstrapping algorithms. In its present implementation, this technique achieves 16 nm lateral and 1 nm vertical precision.     

Stabilization of an excess electron on molecular surfaces by a pair of HF molecules

This work presents the results of solvation of electrons on several hypothetical cyclooctane and cyclohexane molecular surfaces, using the hydrogen fluoride (HF) dimer. These complexes were constructed with extensive OH groups on one side of a hydrocarbon surface (i.e., cyclohexane sheets), which creates hydrogen‐bonded networks that can form, increasing the dipole moment of the system. Concurrently, the hydrogen atoms on the opposite side of the surface form a pocket of positive charge that can attract excess electrons. Two possible orientations for HF dimer solvation on eight molecular surfaces that have been demonstrated to be stable toward electron detachment are examined. © 2006 Wiley Periodicals, Inc. Int J Quantum Chem, 2007     

Relative retention of the fibroblast growth factors FGF-1 and FGF-2 on strong cation-exchange sorbents

The isocratic retention of two heparin-binding fibroblast growth factors, FGF-1 (acidic FGF) and FGF-2 (basic FGF), was compared on a set of six preparative strong cation-exchange adsorbents. The FGFs comprise a solute pair that are structurally equivalent, yet differ in protein parameters of potential importance in cation-exchange chromatography, such as isoelectric point, net charge, and the number and distribution of basic amino acids. The cation-exchange adsorbents comprise a diverse set of materials in common use for protein purification, with physical and chemical properties that have been characterized and described previously. Isocratic k' values for the two proteins obtained on each adsorbent at several different [NaCl] are compared with one another and with corresponding data for hen egg lysozyme, which is also strongly retained on cation-exchangers. Of the six adsorbents examined, three showed strong retention of both FGFs, with equivalent k' values for FGF-1 and FGF-2. Three others, which showed weaker overall retention for the FGF pair, showed much larger retention differences between FGF-1 and FGF-2. The trends in retention order among the stationary phases are very similar to those seen previously with other unrelated proteins. However, retention differences between the two FGFs, and between the FGFs and lysozyme, do not correlate well with simple charge properties such as net charge, indicating, as in some previous studies, the importance of local regions on the protein surface in determining retention. These observations are interpreted in terms of the structural features of the proteins and the physicochemical properties of the adsorbents.