Beyond the benzene dimer: an investigation of the additivity of pi-pi interactions

The benzene dimer is the simplest prototype of pi-pi interactions and has been used to understand the fundamental physics of these interactions as they are observed in more complex systems. In biological systems, however, aromatic rings are rarely found in isolated pairs; thus, it is important to understand whether aromatic pairs remain a good model of pi-pi interactions in clusters. In this study, ab initio methods are used to compute the binding energies of several benzene trimers and tetramers, most of them in 1D stacked configurations. The two-body terms change only slightly relative to the dimer, and except for the cyclic trimer, the three- and four-body terms are negligible. This indicates that aromatic clusters do not feature any large nonadditive effects in their binding energies, and polarization effects in benzene clusters do not greatly change the binding that would be anticipated from unperturbed benzene-benzene interactions, at least for the 1D stacked systems considered. Three-body effects are larger for the cyclic trimer, but for all systems considered, the computed binding energies are within 10% of what would be estimated from benzene dimer energies at the same geometries.     

Metal derivatives of azoles,part VII. Pyrazolato-bridged dinuclear complexes containing either cyclopalladated or -platinated trimesitylphosphine or -arsine

Summary The halogen bridges of the dimeric, cyclometallated trimesityl-arsine and -phosphine complexes of palladium(II) and platinum(II), where M=Pd or Pt and E=P or As have been replaced with pyrazolate groups to give the corresponding and less symmetric pyrazolato-bridged complexes, where M=Pd or Pt, E=P or As, Pz=pyrazolato anion, and M=Pd, E=As, Pz=3,5-dimethylpyrazolato anion. In the case of the palladium complexes,¹H. n.m.r. clearly indicates the presence of only one isomer which is most likely to have thetrans configuration while the platinum complexes are mixtures of bothcis andtrans forms.Part VI, ref. 3c     

High accuracy ab initio studies of Li6+, Li6-, and three isomers of Li6

The structures and energetics of Li(6) (+), Li(6) (-) and three isomers of Li(6) are investigated using the coupled-cluster singles, doubles and perturbative triples [CCSD(T)] method with valence and core-valence correlation consistent basis sets of double- to quadruple-zeta quality (cc-pVXZ and cc-pCVXZ, where X=D-Q). These results are compared with qualitatively different predictions by less reliable methods. Our results conclusively show that the D(4h) isomer is the global minimum structure for Li(6). It is energetically favored over the C(5v) and D(3h) structures by about 5.1 and 7.1 kcal mol(-1), respectively, after the inclusion of the zero-point vibrational energy (ZPVE) correction. Our most accurate total atomization energies are 123.2, 117.6, and 115.7 kcal mol(-1) for the D(4h), C(5v), and D(3h) isomers, respectively. Comparison of experimental optical absorption spectra with our computed electronic spectra also indicate that the D(4h) isomer is indeed the most stable structure. The cation, anion, and some higher spin states are investigated using the less expensive cc-pCVDZ basis set. Adiabatic ionization energies and electron affinities are reported and compared with experimental values. Predictions of molecular properties are found to be sensitive to the basis set used and to the treatment of electron correlation.     

Organic nanoparticles whose size and rigidity are finely tuned by cross-linking the end groups of dendrimers

Dendrimers with molecular weights ranging from ca. 2700 to 11 000 and from 16 to 64 homoallyl ether end groups were cross-linked using the Grubbs ring-closing metathesis reaction. A combination of SEC, MALDI-TOF-MS, and AFM were used to characterize the cross-linked nanoparticles. The data suggest a significant decrease in volume with cross-linking and a concomitant increase in rigidity, both of which can be controlled independently with a fair degree of precision.     

Bis(trimethylphosphine)silver(I) hexafluorophosphate

In the title two‐coordinate silver compound, [Ag(C₃­H₉­P)₂]­PF₆, the cation has crystallographically imposed mirror symmetry, and approximates very closely to m (D_3d) symmetry with fully staggered methyl groups in the solid state. The Ag atom has a nearly linear coordination geometry, with a P—Ag—P angle of 178.70 (4)°. The Ag—P bond lengths are 2.3746 (12) and 2.3783 (12) Å, which are ­significantly longer than the Au—P bond length of 2.304 (1) Å in the analogous two‐coordinate gold cation. The lack of intra­molecular steric effects within the present cations containing tri­methyl­phosphine (cone angle 118°), compared with those in known cations containing trimesityl­phosphine (cone angle 212°), provides a better comparison of M—P distances and thus more conclusive evidence that Au really is smaller than Ag.     

Rate constants for the etching of gallium arsenide by atomic chlorine

Known chlorine atom concentrations were prepared in a discharge flow system and used to etch the (100) face of a gallium arsenide single crystal. The etch rate was monitored by mass spectrometry, laser interferometry, and surface proftlometry. In the temperature range from 90 to 160°C the reaction can be described by the rate law $$Etch rate = kP_{Cl} $$ where $$k = 9 \times 10^{(6 \pm 0.5)} \mu m min^{ - 1} Torr^{ - 1} e^{ - 9 \pm 1)kcal/RT} $$      

The molecular structure of gaseous bis(hexamethydisilylamido)mercury(II), Hg{N(Si(CH3)3)2}2, as determined by electron diffraction

Gaseous bis(hexamethydisilylamido)mercury(II), Hg{N(SiMe₃)₂)₂}₂, has been studied by electron diffraction at a nozzle temperature of ca 390 K.

The diffraction data are consistent with a model consisting only of monomers. By assuming the NHgN chain to be linear and the HgHSi₂ fragments to be planar, an equilibrium conformer with a staggered Si₂NHgNSi₂ skeleton of D_ad-symmetry may be brought into a nice agreement with the observed diffraction data. The relatively large value of the vibrational amplitude of the inter-ligand SiSi distance, 0.26(12) A, indicates that the ligands undergo large amplitude vibrations about the NHgN axis. Steric considerations as well as the magnitude of the rotational barrier as estimated from the diffraction data (ca. 2 kcal mol⁻¹) show that this motion is hindered. A model with an eclipsed, co-planar Si₂NHgNSi₂ backbone of D_adsymmetry could not satisfactorily be brought into agreement with the observed diffraction data.

The values of some relevant key-parameters are: r_a(Hg---N) = 2.01(2) A, r_a(Si---N) = 1.732(9) A, r_a(Si---C) = 1.883(6) A;HgNSi = 116.0(1.0)°, SiNSi = 128.0(2.0)°, NSiC= 111.8(1.2)° and SiCH = 111.0(2.0)°. The trimethylsilyl groups are twisted 25(3)° away from their references positions typified by one Si---C bond of each such group eclipsing the adjacent Hg---N bond, in such a way that the overall symmetry of the model is lowered from D_ad to S₄.     

Length dependent folding kinetics of phenylacetylene oligomers: structural characterization of a kinetic trap

Using simulation to study the folding kinetics of 20-mer poly-phenylacetylene (pPA) oligomers, we find a long time scale trapped kinetic phase in the cumulative folding time distribution. This is demonstrated using molecular dynamics to simulate an ensemble of over 100 folding trajectories. The simulation data are fit to a four-state kinetic model which includes the typical folded and unfolded states, along with an intermediate state, and most surprisingly, a kinetically trapped state. Topologically diverse conformations reminiscent of alpha helices, beta turns, and sheets in proteins are observed, along with unique structures in the form of knots. The nonhelical conformations are implicated, on the basis of structural correlations to kinetic parameters, to contribute to the trapped kinetic behavior. The strong solvophobic forces which mediate the folding process and produce a stable helical folded state also serve to overstabilize the nonhelical conformations, ultimately trapping them. From our simulations, the folding time is predicted to be on the order of 2.5-12.5 mus in the presence of the trapped kinetic phase. The folding mechanism for these 20-mer chains is compared with the previously reported folding mechanism for the pPA 12-mer chains. A linear scaling relationship between the chain length and the mean first passage time is predicted in the absence of the trapped kinetic phase. We discuss the major implications of this discovery in the design of self-assembling nanostructures.