Biaryl amino acid templates in place of D-Pro-L-Pro in cyclic beta-hairpin cationic antimicrobial peptidomimetics

The turn-forming D-Pro-L-Pro template has been frequently used to promote regular beta-hairpin conformations in cyclic protein epitope mimetics. Here the use of three isomeric biaryl templates has been studied as alternatives to D-Pro-L-Pro in the preparation of beta-hairpin peptidomimetics. The o,o'- o,m'- and m,m'-isomers of carboxymethyl- and aminomethyl-substituted biaryl templates have been incorporated into novel macrocyclic mimics of the naturally occurring cationic antimicrobial peptide protegrin I. The presence of the o-carboxymethyl-o'-aminomethyl-biaryl template within the macrocyclic peptide resulted in the appearance of slowly interconverting atropisomers. Although none of the resulting mimetics adopted stable beta-hairpin structures in aqueous solution, they all nevertheless retained a significant antimicrobial activity against Gram positive and Gram negative bacteria. These mimetics provide interesting starting points for an optimization program in the search for potent and novel antimicrobial compounds.     

Sulfur X-ray absorption and vibrational spectroscopic study of sulfur dioxide, sulfite, and sulfonate solutions and of the substituted sulfonate ions X3CSO3- (X = H, Cl, F)

Sulfur K-edge X-ray absorption near-edge structure (XANES) spectra have been recorded and the S(1s) electron excitations evaluated by means of density functional theory-transition potential (DFT-TP) calculations to provide insight into the coordination, bonding, and electronic structure. The XANES spectra for the various species in sulfur dioxide and aqueous sodium sulfite solutions show considerable differences at different pH values in the environmentally important sulfite(IV) system. In strongly acidic (pH < approximately 1) aqueous sulfite solution the XANES spectra confirm that the hydrated sulfur dioxide molecule, SO2(aq), dominates. The theoretical spectra are consistent with an OSO angle of approximately 119 degrees in gas phase and acetonitrile solution, while in aqueous solution hydrogen bonding reduces the angle to approximately 116 degrees . The hydration affects the XANES spectra also for the sulfite ion, SO32-. At intermediate pH ( approximately 4) the two coordination isomers, the sulfonate (HSO3-) and hydrogen sulfite (SO3H-) ions with the hydrogen atom coordinated to sulfur and oxygen, respectively, could be distinguished with the ratio HSO3-:SO3H- about 0.28:0.72 at 298 K. The relative amount of HSO3- increased with increasing temperature in the investigated range from 275 to 343 K. XANES spectra of sulfonate, methanesulfonate, trichloromethanesulfonate, and trifluoromethanesulfonate compounds, all with closely similar S-O bond distances in tetrahedral configuration around the sulfur atom, were interpreted by DFT-TP computations. The energy of their main electronic transition from the sulfur K-shell is about 2478 eV. The additional absorption features are similar when a hydrogen atom or an electron-donating methyl group is bonded to the -SO3 group. Significant changes occur for the electronegative trichloromethyl (Cl3C-) and trifluoromethyl (F3C-) groups, which strongly affect the distribution especially of the pi electrons around the sulfur atom. The S-D bond distance 1.38(2) A was obtained for the deuterated sulfonate (DSO3-) ion by Rietveld analysis of neutron powder diffraction data of CsDSO3. Raman and infrared absorption spectra of the CsHSO3, CsDSO3, H3CSO3Na, and Cl3CSO3Na.H2O compounds and Raman spectra of the sulfite solutions have been interpreted by normal coordinate calculations. The C-S stretching force constant for the trichloromethanesulfonate ion obtains an anomalously low value due to steric repulsion between the Cl3C- and -SO3 groups. The S-O stretching force constants were correlated with corresponding S-O bond distances for several oxosulfur species.     

A Model for Kidney Tissue Damage under High Speed Loading

In a medical procedure to comminute kidney stones the patient is subjected to hypersonic waves focused at the stone. Unfortunately such shock waves also damage the surrounding kidney tissue. We present here a model for the mechanical response of the soft tissue to such a high speed loading regime. The material model combines shear induced plasticity with irreversible volumetric expansion as induced, e.g., by cavitating bubbles. The theory is based on a multiplicative decomposition of the deformation gradient and on an internal variable formulation of continuum thermodynamics. By the use of logarithmic and exponential mappings the stress update algorithms are extended from small‐strain to the finite deformation range. In that way the time‐discretized version of the porous‐viscoplastic constitutive updates is described in a fully variational manner. By numerical experiments we study the shock‐wave propagation into the tissue and analyze the resulting stress states. A first finite element simulation shows localized damage in the human kidney. (© 2004 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)     

Combinatorial Biomimetic Chemistry: Parallel Synthesis of a Small Library of β‐Hairpin Mimetics Based on Loop III from Human Platelet‐Derived Growth Factor B

Combinatorial diversity in hypervariable β‐hairpin loops is exploited by the immune system to select binding sites on antibodies for a wide variety of different protein antigens. In a first step towards mimicking this strategy in vitro, for the selection of novel protein ligands, an approach is described here for the parallel synthesis of small libraries of conformationally defined β‐hairpin protein epitope mimetics. Starting from a protruding hairpin loop in platelet‐derived growth factor B (PDGF‐B), 8 and 12 residues were first transplanted from the protein to a D ‐Pro‐L ‐Pro template, to afford the cyclic peptide‐loop mimetics 1 and 2 , respectively. NMR and MD studies in aqueous solution show that both mimetics populate conformations which closely mimic the β‐hairpin in the crystal structure of the native protein (Fig. 5). Based on 1 as a scaffold, a library of 24 mimetics was synthesized in which the four residues at the tip of the loop (VRKK) were held constant, and flanking residues at positions 1, 2, 7, and 8 in the hairpin were varied (Fig. 7). The library was prepared by parallel synthesis in a two‐stage solid‐phase assembly/solution‐phase cyclization process. The products were analyzed by MS, NMR, and CD. 2D‐NOESY revealed for most library members characteristic long‐range NOEs that show that the hairpin conformation is stably maintained. The results suggest that this approach may be useful for the synthesis of much larger libraries of peptide and protein mimetics based on a β‐hairpin scaffold.     

Analysis of quaternary protein ensembles by matrix assisted laser desorption/ionization mass spectrometry

The intact noncovalent structure of the homo-oligomeric complexes of streptavidin (52 kDa), alcohol dehydrogenase (150 kDa), and beef liver catalase (240 kDa) have been observed using the matrix 2,6-dihydroxyacetophenone in an organic solvent. Intact streptavidin tetramers could also be observed with ferulic acid and other hydroxyacetophenone derivatives. Intact complexes are observed only for the first shot at a given position, which may be due to physical segregation or precipitation of the noncovalent complexes at the crystal surface. This effect is independent of the macroscopic crystal structure or the type of substrate (hydrophobic versus hydrophilic). Observation of intact complexes is not affected by addition of less than 10 mM salts or buffers, and appears to be independent of the pH stability range of the protein samples investigated.     

Interactions of stabilizers during oxidation processes

The antioxidative action of mixtures of phenols, phosphites, HALS, ^a) and some of their transformation products in various compositions has been studied in the thermo- and photo-oxidation of hydrocarbons and polypropylene under different conditions. In the AIBN-initiated oxidation of hydrocarbons at low temperatures (< 80°C), hindered phenols, hindered aryl phosphites and the nitroxyl derivatives of HALS act antioxidatively when used individually in appropriate concentrations. Secondary HALS do not show any induction period, but a certain retardation of the oxidation process after some reaction time. The inhibiting efficiency of nitroxyls observed cannot be explained completely by the currently accepted action mechanisms of HALS, but is also related to the reaction of the nitroxyls with alkylperoxyl radicals. In mixtures with hindered phenols, HALS have almost no influence on the rate of thermooxidation at low temperatures. Their nitroxyl derivatives, however, always exhibit synergism, most pronounced when both stabilizers are used in equimolar ratios. During the photooxidation phenols lower the efficiency of HALS. The influence of mixtures of stabilizers on the oxidative stability of polypropylene is rather different and depends on the oxidation conditions, the structure, the concentration and the ratio of the stabilizers. Synergistic as well as antagonistic effects are observed. Both aliphatic and aromatic phosphites studied act synergistically when used together and with phenols. This demonstrates that for acting as synergist for phenols, the hydrogen peroxide decomposing capability of the phosphites, but not their chain breaking activity is important. HALS-phosphites and phosphonites, containing amine and phosphorus units in one molecule, are highly effective inhibitors of photo- and thermooxidation and exhibit lower critical antioxidant concentrations and longer induction periods than phosphites alone. They even exceed the efficiency of phenols in many cases. Transformation products of phenolic antioxidants investigated act differently and in many cases contrarily under photo- and thermooxidative conditions. Therefore, they influence the efficiency of stabilizer mixtures also in a different way.     

Cellulose-p-toluenesulfonates: A valuable intermediate in cellulose chemistry

Organo-soluble cellulose-p-toluenesulfonates (tosylates) with an insignificant incorporation of chlorodeoxy functions were prepared by reacting cellulose dissolved in N,N-dimethyl acetamide/LiCl and used as intermediates in the design of cellulosics with new, unusual molecular structures. Thus, the remaining OH groups were acylated and sulfated yielding products with controlled lipophily and amphiphily which are promising polymers for self-organizing systems. The polarity reversal by tosylation was used for C-substitution reactions. The molecular structures of the products were proved by FTIR, ¹H- and ¹³C-NMR spectroscopy.     

Dissociative recombination of ammonia clusters studied by storage ring experiments

Dissociative recombination of ammonia cluster ions with free electrons has been studied at the heavy-ion storage ring CRYRING (Manne Siegbahn Laboratory, Stockholm University). The absolute cross sections for dissociative recombination of H+(NH3)2, H+(NH3)3, D+(ND3)2, and D+(ND3)3 in the collision energy range of 0.001-27 eV are reported, and thermal rate coefficients for the temperature interval from 10 to 1000 K are calculated from the experimental data and compared with earlier results. The fragmentation patterns for the two ions H+(NH3)2 and D+(ND3)2 show no clear isotope effect. Dissociative recombination of X+(NX3)2 (X=H or D) is dominated by the product channels 2NX3+X [0.95+/-0.02 for H+(NH3)2 and 1.00+/-0.02 for D+(ND3)2]. Dissociative recombination of D+(ND3)3 is dominated by the channels yielding three N-containing fragments (0.95+/-0.05).     

Enantioselective Zinc‐Catalyzed Hydrosilylation of Ketones using Pybox or Pybim Ligands

The combination of ZnEt₂ and chiral pyridinebisoxazoline (pybox) or pyridinebisimidazoline (pybim) ligands catalyzed the asymmetric hydrosilylation of aryl, alkyl, cyclic, heterocyclic, and aliphatic ketones. Under mild conditions, high yields and good enantioselectivities were achieved. ESI measurements allowed for the characterization of the active catalyst.