Evaluation of ultrasound velocity measurements for estimating protease activities using casein as substrate.

Ultrasonic resonator technology (URT) was compared with the well established UV-Vis/ninhydrin assay to estimate protease activities in defined buffer systems. Hydrolysis of casein was measured using subtilisin, trypsin, halophilic protease from Haloferax mediterranei and Bacillus lentus alkaline protease. Sensitivity, reproducibility, working range as well as the limit of detection and the limit of quantification were comparable for both methods. Salt concentrations (0.5 M NaCl) interfered with the URT method. The quantification of protease activity by URT was possible when the product concentration measured by the UV-Vis/ninhydrin assay was correlated to the corresponding ultrasonic velocity signals.

WITHDRAWN: Corrigendum to "A lectin from the Chinese bird-hunting spider binds sialic acids"

The Publisher regrets that this article is an accidental duplication of an article that has already been published, doi: 10.1016/j.carres.2010.01.003. The duplicate article has therefore been withdrawn.

Distortional isomerism with copper(I) complexes of 3,7-diazabicyclo[3.3.1]nonane derivatives.

Two structural forms of the tetradentate bispidine ligand (3,7-diazabicyclo[3.3.1]nonane, pyridine-substituted at C2 and C4), coordinated to CuI, are known: a pentacoordinate square pyramidal structure with an acetonitrile completing the coordination sphere, and a tetracoordinate distorted tetrahedral structure, where one of the pyridine groups is dissociated. Similar structures are observed in crystals of the CuI complexes of another tetradentate and two pentadentate bispidine ligands. The structural dynamics in the CuI coordination sphere of the four ligands are probed by 1H-NMR spectroscopy, supported by approximate density functional theory (DFT) calculations. DFT and NMR spectroscopy indicate that there is an additional isomeric form, and experimental as well as computational data lead to the conclusion that the potential energy surfaces are very flat with various shallow minima.

A lectin from the Chinese bird-hunting spider binds sialic acids.

The affinity to sialic acid-containing oligosaccharides of the small-animal lectin SHL-I isolated from the venom of the Chinese bird-hunting spider Selenocosmia huwena is here described for the first time. By a strategic combination of NMR techniques, molecular modeling, and data mining tools it was possible to identify the crucial amino acid residues that are responsible for SHL-I's ability to bind sialic acid residues in a specific way. Furthermore, we are able to discuss the role of the functional groups of sialic acid when bound to SHL-I. Also the impact of Pro31 in its cis- or trans-form on SHL-I's ligand affinity is of special interest, since it answers the question if Trp32 is a crucial amino acid for stabilizing complexes between SHL-I and sialic acid. SHL-I can be considered as a proper model system that provides further insights into the binding mechanisms of small-animal lectins to sialic acid on a sub-molecular level.

Catecholase activity of dicopper(II)-bispidine complexes: stabilities and structures of intermediates, kinetics and reaction mechanism.

A mechanism for the oxidation of 3,5-di-tert-butylcatechol (dtbc) with dioxygen to the corresponding quinone (dtbq), catalyzed by bispidine-dicopper complexes (bispidines are various mono- and dinucleating derivatives of 3,7-diazabicyclo[3.3.1]nonane with bis-tertiary-amine-bispyridyl or bis-tertiary-amine-trispyridyl donor sets), is proposed on the basis of (1) the stoichiometry of the reaction as well as the stabilities and structures [X-ray, density functional theory (B3LYP, TZV)] of the bispidine-dicopper(II)-3,4,5,6-tetrachlorcatechol intermediates, (2) formation kinetics and structures (molecular mechanics, MOMEC) of the end-on peroxo-dicopper(II) complexes and (3) kinetics of the stoichiometric (anaerobic) and catalytic (aerobic) copper-complex-assisted oxidation of dtbc. This involves (1) the oxidation of the dicopper(I) complexes with dioxygen to the corresponding end-on peroxo-dicopper(II) complexes, (2) coordination of dtbc as a bridging ligand upon liberation of H(2)O(2) and (3) intramolecular electron transfer to produce dtbq, which is liberated, and the dicopper(I) catalyst. Although the bispidine complexes have reactivities comparable to those of recently published catalysts with macrocyclic ligands, which seem to reproduce the enzyme-catalyzed process in various reaction sequences, a strikingly different oxidation mechanism is derived from the bispidine-dicopper-catalyzed reaction.

Stability constants: a new twist in transition metal bispidine chemistry.

Transition metal complexes with 2,4-substituted tetradentate, 2,3,4- and 2,4,7-substituted pentadentate, and 2,3,4,7-substituted hexadentate bispidine ligands (bispidine = 3,7-diazabicyclo[3.3.1]nonane) with two tertiary amine and two, three, or four pyridine donors are relatively stable (10 < log K(CuL) < 18). Interestingly, the two isomeric pentadentate ligands have very different stabilities with a variety of metal ions and, depending on the metal ion, one of the isomers leads to more stable complexes than the hexadentate and the other to less stable complexes than the tetradentate ligand. Another interesting observation is that the complex stabilities of all bispidine ligands reported here do not follow the Iriving-Williams series since the stability constants of the cobalt(II) complexes are up to 4 log units larger than those of the corresponding nickel(II) complexes. All these observations are analyzed on the basis of subtle distortions of the coordination geometries, and these have been related previously to Jahn-Teller-derived distortions for the copper(II) complexes. However, similar but less pronounced structural properties are observed with other metal centers, as shown, e.g., with the experimental structures of the two zinc(II) complexes with the isomeric pentadentate ligands reported here. The structural properties and the related stabilities are also discussed on the basis of force field calculations.

Carbohydrate chain of ganglioside GM1 as a ligand: identification of the binding strategies of three 15 mer peptides and their divergence from the binding modes of growth-regulatory galectin-1 and cholera toxin.

The branched pentasaccharide chain of ganglioside GM1 is a prominent cell surface ligand, for example, for cholera toxin or tumor growth-regulatory homodimeric galectins. This activity profile via protein recognition prompted us to examine the binding properties of peptides with this specificity. Our study provides insights into the mechanism of molecular interaction of this thus far unexplored size limit of the protein part. We used three pentadecapeptides in a combined approach of mass spectrometry, NMR spectroscopy and molecular modelling to analyze the ligand binding in solution. Availability of charged and hydrophobic functionalities affected the intramolecular flexibility of the peptides differently. Backfolding led to restrictions in two cases; the flexibility was not reduced significantly by association of the ligand in its energetically privileged conformations. Major contributions to the interaction energy arise from the sialic acid moiety contacting Arg/Lys residues and the N-terminal charge. Considerable involvement of stacking between the monovalent ligand and aromatic rings could not be detected. This carbohydrate binding strategy is similar to how an adenoviral fiber knob targets sialylated glycans. Rational manipulation for an affinity enhancement can now be directed to reduce the flexibility, exploit the potential for stacking and acquire the cross-linking capacity of the natural lectins by peptide attachment to a suitable scaffold.