Molecular and crystal structure of nido-9-C5H5N-11-I-7, 8-C2B9H10: Supramolecular architecture based on hydrogen bonds X-H⋯I (X = B, C)

A single crystal X-ray diffraction study of a new iodine-containing cluster compound 9-(pyridine)-11-iodo-decahydro-7,8-dicarba-nido-undecaborane [9-C₅H₅N-11-I-7,8-C₂B₉H₁₀] has been performed. Crystal data: C₇H₁₅B₉NI, M = 337.39, monoclinic, space group P2₁/c, unit cell parameters: a = 9.348(1) Å, b = 11.159(1) Å, c = 13.442(2) Å, β = 98.13(1)°, V = 1388.1(5) ų, Z = 4, d _calc = 1.614 g/cm³, T = 295 K, F(000) = 648, μ = 2.276 mm^?1. The structure was solved by a direct method and refined in the full-matrix anisotropic approximation (isotropic for hydrogen atoms) to final agreement factors R ₁ = 0.0254, wR ₂ = 0.0454 for 2437 I _hkl ≥ 2σ_I from 3590 measured I _hkl (an Enraf-Nonius CAD-4 diffractometer, λMoK _α , graphite monochromator, θ/2θ-scanning). The molecules are joined into a supramolecular assembly by hydrogen bonds X-H?I (X = B, C).     

NMR chemical shifts in the low–pH form of a-chymotrypsin. A QM/MM and ONIOM–NMR study

 The relationship between hydrogen bonding and NMR chemical shifts in the catalytic triad of low-pH α-chymotrypsin is investigated by combined use of the effective fragment potential [(2001) J Phys Chem A 105:293] and ONIOM–NMR [(2000) Chem Phys Lett 317:589] methods. Our study shows that while the His57 N^δ1−H bond is stretched by a relatively modest amount (to about 1.060 ?) this lengthening, combined with the polarization due to the molecular environment, is sufficient to explain the experimentally observed chemical shifts of 18.2 ppm. Furthermore, the unusual down-field shift of H^ɛ1 (9.2 ppm) observed experimentally is reproduced and shown to be induced by interactions with the C=O group of Ser214 as previously postulated. The free-energy cost of moving H^δ1 from His57 to Asp102 is predicted to be 5.5 kcal/mol. Received: 26 September 2001 / Accepted: 6 September 2002 / Published online: 21 January 2003 Contribution to the Proceedings of the Symposium on Combined QM/MM Methods at the 222nd National Meeting of the American Chemical Society, 2001 Correspondence to: J. H. Jensen e-mail: jan-jensen@uiowa.edu Acknowledgements. This work was supported by a Research Innovation Award from the Research Corporation and a type G starter grant from the Petroleum Research Fund. The calculations were performed on IBM RS/6000 workstations obtained through a CRIF grant from the NSF (CHE-9974502) and on supercomputers at the National Center for Supercomputer Applications at Urbana-Champaign. The authors are indebted to Visvaldas Kairys for help with the CHARMM program, and to Daniel Quinn for many helpful discussions.     

GROMACS: fast, flexible, and free

This article describes the software suite GROMACS (Groningen MAchine for Chemical Simulation) that was developed at the University of Groningen, The Netherlands, in the early 1990s. The software, written in ANSI C, originates from a parallel hardware project, and is well suited for parallelization on processor clusters. By careful optimization of neighbor searching and of inner loop performance, GROMACS is a very fast program for molecular dynamics simulation. It does not have a force field of its own, but is compatible with GROMOS, OPLS, AMBER, and ENCAD force fields. In addition, it can handle polarizable shell models and flexible constraints. The program is versatile, as force routines can be added by the user, tabulated functions can be specified, and analyses can be easily customized. Nonequilibrium dynamics and free energy determinations are incorporated. Interfaces with popular quantum-chemical packages (MOPAC, GAMES-UK, GAUSSIAN) are provided to perform mixed MM/QM simulations. The package includes about 100 utility and analysis programs. GROMACS is in the public domain and distributed (with source code and documentation) under the GNU General Public License. It is maintained by a group of developers from the Universities of Groningen, Uppsala, and Stockholm, and the Max Planck Institute for Polymer Research in Mainz. Its Web site is http://www.gromacs.org.     

Fluorination of polymers by sulfur hexafluoride gas under electric discharge

Fluorination of low-density polyethylene, polyacetylene, and poly(vinyl alcohol) was carried out using SF₆ gas under electric discharge. The polymers were partially fluorinated and the extent of fluorination was more in the case of poly (vinyl alcohol) than the other two polymers. The fluorinated polymers were characterized by elemental analysis (Fluorine), IR, and x-ray diffraction. Optical transparency of the films was also measured. The fluorinated polymers show better solvent resistance and decreased transparency than the virgin polymer. © 1994 John Wiley & Sons, Inc.     

Synthesis of N-Pyridylmethylidene-2-aminopyridines and their Methyl-substituted Derivatives in the Presence of Molecular Sieves

We have studied condensation of 2-, 3-, 4-pyridinealdehydes and 6-methylpyridine-2-aldehyde with 2-aminopyridine and its 3-, 4-, and 6-methyl derivatives in benzene in the presence of molecular sieves. The reactions occur even at room temperature to form the corresponding pyridyl-pyridyl azomethines, and also aminals. We have determined the optimal conditions for carrying out the processes with the aim of obtaining both types of products. We consider the characteristics of the mass spectra for the synthesized aldimines. We present the X-ray diffraction results for the two aminals.     

Ion Association in Lanthanide Chloride Solutions

A better understanding of the solution chemistry of the lanthanide (Ln) salts in water would have wide ranging implications in materials processing, waste management, element tracing, medicine and many more fields. This is particularly true for minerals processing, given governmental concerns about lanthanide security of supply and the drive to identify environmentally sustainable processing routes. Despite much effort, even in simple systems, the mechanisms and thermodynamics of Ln^III association with small anions remain unclear. In the present study, molecular dynamics (MD), using a newly developed force field, provide new insights into LnCl₃(aq) solutions. The force field accurately reproduces the structure and dynamics of Nd³⁺, Gd³⁺ and Er³⁺ in water when compared to calculations using density functional theory (DFT). Adaptive-bias MD simulations show that the mechanisms for ion pairing change from dissociative to associative exchange depending upon cation size. Thermodynamics of association reveal that whereas ion pairing is favourable, the equilibrium distribution of species at low concentration is dominated by weakly bound solvent-shared and solvent-separated ion pairs, rather than contact ion pairs, reconciling a number of contrasting observations of Ln^III–Cl association in the literature. In addition, we show that the thermodynamic stabilities of a range of inner sphere and outer sphere coordination complexes are comparable and that the kinetics of anion binding to cations may control solution speciation distributions beyond ion pairs. The techniques adopted in this work provide a framework with which to investigate more complex solution chemistries of cations in water.     

苯乙烯－马来酸酐共聚物单分子膜的静、动态性质

对不同分子量的苯乙烯－马来酸酐共聚物（PSM）单分子膜的π－A等温线、微 分曲线进行了研究，讨论了PSM单分子膜成膜过程及分子量对膜相变的影响，并用 动态膜障振动法测定了PSM单分子膜的动态弹性，结果表明，分子链的相互作用（ 如卷曲和缠结）在膜的形成中起着重要的作用，并影响膜的静、动态性质，单分子 膜的动态弹性曲线有双峰，且前者比后者小，随分子量增大，膜的凝聚性、刚性和 稳定性都增强，动态弹性都增大；且分子链的相互作用对PSM单分子性质影响增大 ，压缩过程中单分子膜的相变更明显。     

人参皂苷的基质辅助激光解吸质谱研究

利用MALDI-TOFMS测定了八种人参皂苷的分子量, 并分析了西洋参总皂苷的组成。同时, 进行了灵敏度实验, 并探讨了基质及碱金属离子的影响, 证明该方法灵敏度高, 重复性好, 结果准确。是测定极性小分子分子量的有效方法。