Institutt for kjemi: Nye registreringer
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Temperature adaptation of DNA ligases from psychrophilic organisms
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-03-02)DNA ligases operating at low temperatures have potential advantages for use in biotechnological applications. For this reason, we have characterized the temperature optima and thermal stabilities of three minimal Lig E-type ATP-dependent DNA ligase originating from Gram-negative obligate psychrophilic bacteria. The three ligases, denoted Vib-Lig, Psy-Lig, and Par-Lig, show a remarkable range of ... -
QresFEP: An Automated Protocol for Free Energy Calculations of Protein Mutations in Q
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-08-22)Predicting the effect of single-point mutations on protein stability or protein−ligand binding is a major challenge in computational biology. Free energy calculations constitute the most rigorous approach to this problem, though the estimation of converged values for amino acid mutations remains challenging. To overcome this limitation, we developed tailored protocols to calculate free energy ... -
Temporal dynamics of intra-and extra-cellular microcystins concentrations in Koka reservoir (Ethiopia): Implications for public health risk
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-06-20)This study was carried out with a view of understanding the temporal dynamics of microcystin concentrations in both algal seston and water samples and the associated public health risk. All the major MC variants, namely MC-LR, MC-YR, and MC-RR, were detected in both the algal seston and water samples. In the majority of the samples, the most potent variant, MC-LR, constituted the greatest proportion ... -
Cost-Effective Potential for Accurate Polarizable Embedding Calculations in Protein Environments
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-12-19)The fragment-based polarizable embedding (PE) model combined with an appropriate electronic structure method constitutes a highly efficient and accurate multiscale approach for computing spectroscopic properties of a central moiety including effects from its molecular environment through an embedding potential. There is, however, a comparatively high computational overhead associated with the ... -
Strong Duschinsky Mixing Induced Breakdown of Kasha's Rule in an Organic Phosphor
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-01-08)We present the novel observation that Duschinsky mixings can lead to the breakdown of Kasha’s rule in a white light phosphor molecule, dibenzo[<i>b,d</i>]thiophen-2-yl (4-chlorophenyl)methanone. Our theoretical analyses show the energy gap between the T<sub>1</sub> and T<sub>2</sub> states (0.48 eV) is too large to allow for any significant population of the T<sub>2</sub> state at room temperature ... -
Electron-Spin Structure and Metal-Ligand Bonding in Open-Shell Systems from Relativistic EPR and NMR: A Case Study of Square-Planar Iridium Catalysts
(Journal article; Tidsskriftartikkel; Peer reviewed, 2018-11-28)Electron and nuclear magnetic resonance spectroscopies are indispensable and powerful methods for investigating the molecular and electronic structures of open-shell systems. We demonstrate that the NMR and EPR parameters are extremely sensitive quantitative probes for the electronic spin density around heavy-metal atoms and the metal–ligand bonding. Using relativistic density-functional theory, we ... -
Photo-transformation trajectories of Nitro-Spiropyran in Hybrid Compounds with [60]Fullerene
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-07-12)Photo- and thermo- isomerization trajectories of various conversion pathways between nitro-spiropyran and its <i>trans–trans–cis</i> merocyanine form were produced and the role of nπ* states was investigated along the corresponding potential energy surface calculated using the ωB97XD functional and the cc-pVDZ basis set. The nondissociative nπ* states on the photoisomerization trajectories can switch ... -
Synthesis and biological evaluation of new dipicolylamine zinc chelators as metallo-β-lactamase inhibitors
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-02-02)Antibiotics are key drugs in modern healthcare, especially in hospitals, where multiresistant bacteria resides and is a potential threat to human health. In the present work, a new series of adjuvants working synergistically with the carbapenem meropenem, in which a selective zinc-chelating agent was covalently linked to the small bacterial peptide D-Ala-D-Ala, was synthesized and tested against ... -
Four-component relativistic 31P NMR calculations for: Trans -platinum(ii) complexes: Importance of the solvent and dynamics in spectral simulations
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-03-18)We report a combined experimental-theoretical study on the 31P NMR chemical shift for a number of trans-platinum(II) complexes. Validity and reliability of the 31P NMR chemical shift calculations are examined by comparing with the experimental data. A successful computational protocol for the accurate prediction of the 31P NMR chemical shifts was established for trans-[PtCl2(dma)PPh3] (dma = ... -
Azulicorrole
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-04-12)Acid-catalyzed condensation of pyrrole, 4-trifluoromethylbenzaldehyde, and azulene, followed by DDQ oxidation, has resulted in the isolation of the novel macrocycle azulicorrole, arguably the first example of a carbacorrole aside from N-confused corrole. Despite poor yields (<1%), the free ligand could be structurally characterized and converted to the formal Cu(III) and Au(III) derivatives, of which ... -
Unexpected Molecular Structure of a Putative Rhenium-Dioxo-Benzocarbaporphyrin Complex. Implications for the Highest Transition Metal Valence in a Porphyrin-Type Ligand Environment
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-10-18)A combination of quantum chemical calculations and synthetic studies was used to address the possibility of very high (>6) valence states of transition metals in porphyrin‐type complexes. With corrole as a supporting ligand, DFT calculations ruled out Re(VII) and Ir(VII) dioxo complexes as stable species. Attempted rhenium insertion into benzocarbaporphyrin (BCP) ligands on the other hand led to two ... -
Towards Rational Computational Engineering of Psychrophilic Enzymes
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-12-16)Cold-adapted enzymes from psychrophilic species achieve their high catalytic efficiency at low temperature by a different partitioning of the activation free energy into its enthalpic and entropic components, compared to orthologous mesophilic enzymes. Their lower activation enthalpy, partly compensated by an increased entropic penalty, has been suggested to originate from changes in flexibility of ... -
Characterization and engineering of a DNA polymerase reveals a single amino-acid substitution in the fingers subdomain to increase strand-displacement activity of A-family prokaryotic DNA polymerases
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-08-09)<i>Background</i> - The discovery of thermostable DNA polymerases such as Taq DNA polymerase revolutionized amplification of DNA by polymerase chain reaction methods that rely on thermal cycling for strand separation. These methods are widely used in the laboratory for medical research, clinical diagnostics, criminal forensics and general molecular biology research. Today there is a growing demand ... -
På vei mot en kollegial tilnærming til undervisning – seminarundervisning og pedagogisk opplæring av stipendiater
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-03-19)Seminarundervisning har en viktig rolle i realfagsundervisning i høyere utdanning. Læringsaktivitetene i seminarene samsvarer ofte godt med eksamensformen og dermed bidrar seminarundervisning betydelig til <i>constructive alignment</i> (Biggs, 1999) i et emne. Den viktige rollen seminarundervisning har står i sterk kontrast med den begrensede eller fraværende opplæring ... -
A thermally stable {FeNO}(8) complex: properties and biological reactivity of reduced MNO systems
(Journal article; Tidsskriftartikkel; Peer reviewed, 2012-10-06)Reduced nitrogen oxide ligands such as NO<sup>−</sup>/HNO or nitroxyl participate in chemistry distinct from nitric oxide (NO). Nitroxyl has been proposed to form at heme centers to generate the Enemark–Feltham designated {FeNO}<sup>8</sup> system. The synthesis of a thermally stable {FeNO}<sup>8</sup> species namely, [Co(Cp<sup>*</sup>)<sub>2</sub>][Fe(LN<sub>4</sub>)(NO)] (3), housed in a heme-like ... -
Gold dipyrrin-bisphenolates: A combined experimental and DFT study of metal-ligand interactions
(Journal article; Tidsskriftartikkel; Peer reviewed, 2020-01-02)Given that noninnocent and metalloradical-type electronic structures are ubiquitous among dipyrrin-bisphenolate (DPP) complexes, we synthesized the gold(III) derivatives as potentially innocent paradigms against which the properties of other metallo-DPP derivatives can be evaluated. Electronic absorption spectra, electrochemical studies, a single-crystal X-ray structure, and DFT calculations all ... -
The crystal structure of haemoglobin from Atlantic cod
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-07-16)The crystal structure of haemoglobin from Atlantic cod has been solved to 2.54 A˚ resolution. The structure consists of two tetramers in the crystallographic asymmetric unit. The structure of haemoglobin obtained from one individual cod suggests polymorphism in the tetrameric assembly. -
On derivatives of smooth functions represented in multiwavelet bases
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-07-24)We construct high-order derivative operators for smooth functions represented via discontinuous multiwavelet bases. The need for such operators arises in order to avoid artifacts when computing functionals involving high-order derivatives of solutions of integral equations. Previously high-order derivatives had to be formed by repeated application of a first-derivative operator that, while uniquely ... -
Four-component relativistic time-dependent density-functional theory using a stable noncollinear DFT ansatz applicable to both closed- and open-shell systems
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-11-14)We present a formulation of relativistic linear response time-dependent density functional theory for the calculation of electronic excitation energies in the framework of the four-component Dirac-Coulomb Hamiltonian. This approach is based on the noncollinear <i>ansatz</i> originally developed by Scalmani and Frisch [J. Chem. Theory Comput. 8, 2193 (2012)] and improves upon the past treatment of ... -
Relativistic four-component linear damped response TDDFT for electronic absorption and circular dichroism calculations
(Journal article; Tidsskriftartikkel; Peer reviewed, 2019-11-21)We present a detailed theory, implementation, and a benchmark study of a linear damped response time-dependent density functional theory (TDDFT) based on the relativistic four-component (4c) Dirac–Kohn–Sham formalism using the restricted kinetic balance condition for the small-component basis and a noncollinear exchange–correlation kernel. The damped response equations are solved by means of a ...