The Structure of an Archaeal B‐Family DNA Polymerase in Complex with a Chemically Modified Nucleotide

Archaeal B‐family DNA polymerases (DNA pols) are the driving force of cutting‐edge biotechnological applications like next‐generation sequencing. The acceptance of chemically modified nucleotides by DNA pols is key to these technologies. Until now, no structural data have been available for these DNA pols in complex with modified substrates, which could build the basis for understanding interactions between the enzyme and the chemically modified nucleotide and for the further development of next‐generation nucleotides. For the first time, we crystallized an exonuclease‐deficient variant of the wild‐type B‐family KOD DNA pol with a modified nucleotide in a closed, ternary complex. We also crystalized the A‐family DNA pol KlenTaq with the same nucleotide. The reported structural data reveal how the protein and the DNA modulate two distinct conformations of the appended moiety in the A‐ and B‐family DNA pols and how these influence the processing of the modified nucleotide. Overall, this study provides first insight into the interplay between B‐family DNA pols and relevant modified substrates.     

A graphical exploration of the Deepwater Horizon oil spill

This paper investigates some of the immediate impacts of the Deepwater Horizon oil spill of 2010 on the environment using graphical means. The exploration focuses on the effects of the oil discharge on wildlife, the chemical pollution in the area following the spill, and salinity levels in the aftermath of the spill. Thousands of animals including birds, turtles, dolphins, and whales were found dead along the beaches and in the Gulf of Mexico in the months after the oil discharge. Levels of polycyclic aromatic hydrocarbons were found to be at dangerous levels along the coast line, making conditions for wildlife highly unfavorable. Salinity measurements, which can be used to determine currents and oil movement, are examined over time as well as geographically.     

Über Rosmarin und Rosmarinsäure

Rosmarinic acid, a tan from Lamiaceae, is found in rosemary and many other plants such as thyme, painted nettle, savory, sage, oregano, or lemon balm, from which it has been isolated here. It is a caffeic acid ester and a chiral, aromatic natural product. Rosmarinic acid tastes bitter, which may be attractive for rosemary as spice. Due to the catechol subunit the acid is an antioxidant. Using rosmarinic acid as a cure is possible due to manyfold physiological effects which are still under investigation. The rosmarinic acid biosynthesis pathway was completely elucidated at the painted nettle. This led to attempts to produce the acid biotechnologically by plant cell cultures in high yields. The preparation of a spectroscopically pure sample is challenging. All analytical spectra were recorded and are reproduced and interpreted either in the main part or in the supporting information.     

Crystal structure and spectroscopic elucidation of 3-phenylpyridinium hydrogensquarate

The novel 3-phenylpyridinium hydrogensquarate (1) has been synthesized and its structure and properties are elucidated spectroscopically, thermally and structurally, using single crystal X-ray diffraction, linear-polarized solid-state IR-spectroscopy, UV-spectroscopy, TGA, DSC, DTA and ESI MS. Quantum chemical calculations were used to obtain the electronic structure, vibrational data and electronic spectrum. 3-Phenylpyridinium hydrogensquarate, crystallizes in the space group P?1 and the ions in the unit cell are joined into layers by intermolecular NH?OC_(Sq) bonds with bond lengths of 2.625 and 2.626 Å, respectively. Hydrogentartarates form dimers by strong OCOH?OCO interactions (2.499 Å).     

Chiral resolution of tryptophan derivatives by CE using canine serum albumin and bovine serum albumin as chiral selectors

This work deals with the application of BSA and canine serum albumin (CSA) for enantioseparation of tryptophan derivatives with CE. The aim of this work was the investigation of the influence of different functional groups of tryptophan derivatives on enantioseparation. CSA as a chiral selector was tested to compare its selector properties with those of BSA. The enantiomers of the tryptophan derivatives were separated by adding BSA or CSA to the BGE. The influence of pH, temperature, BSA and CSA concentration and organic modifiers was investigated. It was found that the stereoselectivity for the different tryptophan derivatives is dependent on the albumin species. It turned out that the different functional groups of the derivatives showed a significant influence on stereoselectivity.     

Structural analysis of the protein phosphatase 1 docking motif: molecular description of binding specificities identifies interacting proteins

The interplay between kinases and phosphatases represents a fundamental regulatory mechanism in biological systems. Being less numerous than kinases, phosphatases increase their diversity by the acquisition of a variety of binding partners, thereby forming a large number of holoenzymes. Proteins interacting with protein phosphatase 1 (PP1) often bind via a so-called docking motif to regulate its enzymatic activity, substrate specificity, and subcellular localization. Here, we systematically determined structural elements that mediate the binding specificity of PP1 interacting proteins, and propose a refined consensus sequence for high-affinity PP1 ligands. Applying this pattern to database searches, we predicted and experimentally confirmed several previously unknown PP1 interactors. Thus, the suggested PP1 docking motif enables a highly specific prediction of PP1 binding partners, thereby facilitating the genome-wide identification of PP1 interactors.     

Reactivity of [1(2,3)4]pentamantane (Td-pentamantane): a nanoscale model of diamond

To model the chemical properties of the hydrogen-terminated nanodiamond {111} and {110} surfaces, the functionalizations of the higher diamondoid [1(2,3)4]pentamantane were studied. [1(2,3)4]Pentamantane reacts selectively with neat bromine to give the medial 2-mono- and 2,4-disubstitution products. In contrast, oxidation with nitric acid as well as single-electron-transfer oxidation involving the [1(2,3)4]pentamantane radical cation results in apical C7-substitutions. This substitution pattern dominates in the free-radical bromination under phase-transfer catalytic conditions that gives a mixture of 7- and 2-bromo[1(2,3)4]pentamantane in a 95:5 ratio. Replacement of the functional groups in [1(2,3)4]pentamantane occurs without isomerization. This was demonstrated for the interconversions of the bromo and hydroxy derivatives as well as for the preparation of [1(2,3)4]pentamantyl-7-thiol from 7-hydroxy[1(2,3)4]pentamantane. Thus, the selective functionalization of hydrogen-terminated nanodiamonds is possible by means of reactions with common electrophiles-oxidizers.