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2013
Gromicho, M, Magalhaes M, Torres F, Dinis J, Fernandes AR, Rendeiro P, Tavares P, Laires A, Rueff J, Rodrigues AS.  2013.  Instability of mRNA expression signatures of drug transporters in chronic myeloid leukemia patients resistant to imatinib. Oncol Rep. 29(2):741-50.13gromichoor.pdf
Merino, EG, Danéde F, Derrollez P, Dias CJ, Viciosa TM, Correia NT, Dionísio M.  2013.  Investigating the influence of morphology in the dynamical behavior of semicrystalline Triton X100: insights in the detection/nondetection of the α′-Process. The Journal of Physical Chemistry B. 17:9793-9805.Website
Pauleta, SR, Ramos S, Pietsch M, Carreira C, Dell'Acqua S, Moura I.  2013.  Marinobacter hydrocarbonoclasticus is an aerobic denitrifier. EuroBIC 11. :49-53., Granada: Medimone, Intern. Proceedings
Marcelo, F, Dias C, Madeira PJ, Jorge T, Florêncio HM, Canada JF, Cabrita EJ, Jiménez-Barbero J, Rauter AP.  2013.  Molecular Recognition of Rosmarinic Acid from Salvia sclareoides Extracts by Acetylcholinesterase: A New Binding Site Detected by NMR Spectroscopy. Chemistry: A European Journal. 19(21):6641–6649. Abstract

Acetylcholinesterase (AChE) inhibition is one of the most currently available therapies for the management of Alzheimer’s disease (AD) symptoms. In this context, NMR spectroscopy binding studies were accomplished to explain the inhibition of AChE activity by Salvia sclareoides extracts. HPLC-MS analyses of the acetone, butanol and water extracts eluted with methanol and acidified water showed that rosmarinic acid is present in all the studied samples and is a major constituent of butanol and water extracts. Moreover, luteolin 4′-O-glucoside, luteolin 3′,7-di-O-glucoside and luteolin 7-O-(6′′-O-acetylglucoside) were identified by MS2 and MS3 data acquired during the LC-MSn runs. Quantification of rosmarinic acid by HPLC with diode-array detection (DAD) showed that the butanol extract is the richest one in this component (134 μg mg−1 extract). Saturation transfer difference (STD) NMR spectroscopy binding experiments of S. sclareoides crude extracts in the presence of AChE in buffer solution determined rosmarinic acid as the only explicit binder for AChE. Furthermore, the binding epitope and the AChE-bound conformation of rosmarinic acid were further elucidated by STD and transferred NOE effect (trNOESY) experiments. As a control, NMR spectroscopy binding experiments were also carried out with pure rosmarinic acid, thus confirming the specific interaction and inhibition of this compound against AChE. The binding site of AChE for rosmarinic acid was also investigated by STD-based competition binding experiments using Donepezil, a drug currently used to treat AD, as a reference. These competition experiments demonstrated that rosmarinic acid does not compete with Donepezil for the same binding site. A 3D model of the molecular complex has been proposed. Therefore, the combination of the NMR spectroscopy based data with molecular modelling has permitted us to detect a new binding site in AChE, which could be used for future drug development.

Carja, Gabriela, Dartu, Laura, Okada, Kiyoshi, Fortunato E.  2013.  Nanoparticles of copper oxide on layered double hydroxides and the derived solid solutions as wide spectrum active nano-photocatalysts. Chemical Engineering Journal. 222:60-66.
Teixiera, SS, Dias CJ, Dionísio M, Costa LC.  2013.  New method to analyze dielectric relaxation processes: a study on polymethacrylate series. Polymer International. 62:1744-1749.Website
Pauleta, SR, Dell’Acqua S, Moura I.  2013.  Nitrous Oxide Reductase. Coord Chem Rev. 257:332-249.
Dell’Acqua, S, Pauleta SR, Moura I, Moura JG.  2013.  Nitrous Oxide Reductase. Encyclopedia of Metalloproteins - Copper. : Springer
Vale, TM, Dias RJ, Lourenço JM.  2013.  On the Relevance of Total-Order Broadcast Implementations in Replicated Software Transactional Memories. Multicore Software Engineering, Performance, and Tools. 8063(João M. Lourenço, Farchi, Eitan, Eds.).:49–60.: Springer Berlin Heidelberg Abstract2013-musepat.pdf

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Figueiredo, V., Pinto, Joana, Deuermeier, J., Barros, R., Alves, C, Martins, Fortunato E.  2013.  p-Type CuxO Thin-Film Transistors Produced by Thermal Oxidation. Journal of Display Technology. 9(9):735-740.
Dias, RJ, Pessanha V, Lourenço JM.  2013.  Precise Detection of Atomicity Violations. Hardware and Software: Verification and Testing. 7857(Biere, Armin, Nahir, Amir, Vos, Tanja, Eds.).:8-23.: Springer Berlin / Heidelberg Abstract2012-hvc.pdf

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Morgado, L, Dantas JM, Simões T, Londer YY, Pokkuluri PR, Salgueiro CA.  2013.  Role of Met58 in the regulation of electron/proton transfer in trihaem cytochrome PpcA from Geobacter sulfurreducens. Bioscience Reports. 33(1):11-22. AbstractWebsite

The bacterium Gs (Geobacter sulfurreducens) is capable of oxidizing a large variety of compounds relaying electrons out of the cytoplasm and across the membranes in a process designated as extracellular electron transfer. The trihaem cytochrome PpcA is highly abundant in Gs and is most probably the reservoir of electrons destined for the outer surface. In addition to its role in electron transfer pathways, we have previously shown that this protein could perform e-/H+ energy transduction. This mechanism is achieved by selecting the specific redox states that the protein can access during the redox cycle and might be related to the formation of proton electrochemical potential gradient across the periplasmic membrane. The regulatory role of haem III in the functional mechanism of PpcA was probed by replacing Met58, a residue that controls the solvent accessibility of haem III, with serine, aspartic acid, asparagine or lysine. The data obtained from the mutants showed that the preferred e-/H+ transfer pathway observed for PpcA is strongly dependent on the reduction potential of haem III. It is striking to note that one residue can fine tune the redox states that can be accessed by the trihaem cytochrome enough to alter the functional pathways.

Dudognon, E, Correia NT, Danède F, Descamps M.  2013.  Solid-Solid Transformation in Racemic Ibuprofen. Pharmaceutical Research. 30(1):81-89.
Dantas, JM, Morgado L, Pokkuluri PR, Turner DL, Salgueiro CA.  2013.  Solution structure of a mutant of the triheme cytochrome PpcA from Geobacter sulfurreducens sheds light on the role of the conserved aromatic residue F15. Biochimica et Biophysica Acta (BBA) - Bioenergetics. 1827(4):484-492. AbstractWebsite

Extracellular electron transfer is one of the physiological hallmarks of Geobacteraceae. Most of the Geobacter species encode for more than 100 c-type cytochromes which are, in general, poorly conserved between individual species. An exception to this is the PpcA family of periplasmic triheme c-type cytochromes, which are the most abundant proteins in these bacteria. The functional characterization of PpcA showed that it has the necessary properties to couple electron/proton transfer, a fundamental step for ATP synthesis. The detailed thermodynamic characterization of a PpcA mutant, in which the strictly conserved residue phenylalanine 15 was replaced by leucine, showed that the global redox network of cooperativities among heme groups is altered, preventing the mutant from performing a concerted electron/proton transfer. In this work, we determined the solution structure of PpcA F15L mutant in the fully reduced state using NMR spectroscopy by producing 15N-labeled protein. In addition, pH-dependent conformational changes were mapped onto the structure. The mutant structure obtained is well defined, with an average pairwise root-mean-square deviation of 0.36 Å for the backbone atoms and 1.14 Å for all heavy atoms. Comparison between the mutant and wild-type structures elucidated the contribution of phenylalanine 15 in the modulation of the functional properties of PpcA.

Bahubalindruni, Ganga, Tavares, Vitor Grade, Barquinha, Duarte, Candido, de Oliveira, Pedro Guedes, Martins, Fortunato E.  2013.  Transparent Current Mirrors With a-GIZO TFTs: Neural Modeling, Simulation and Fabrication. Journal of Display Technology. 9(12):1001-1006.
Daniel, CI, Chavez FV, Feio G, Portugal CA, Crespo JG, Sebastiao PJ.  2013.  1H NMR relaxometry, viscometry, and PFG NMR studies of magnetic and nonmagnetic ionic liquids. J Phys Chem B. 117:11877-84., Number 39 AbstractWebsite

A study is presented of the molecular dynamics and of the viscosity in pure [Aliquat][Cl] ionic liquid and in a mixture of [Aliquat][Cl] with 1% (v/v) of [Aliquat][FeCl4]. The (1)H spin-lattice relaxation rate, R1, was measured by NMR relaxometry between 8 and 300 MHz. In addition, the translation self-diffusion, D, was measured by pulse field gradient NMR. The ILs' viscosity was measured as a function of an applied magnetic field, B, and it was found that the IL mixture's viscosity decreased with increasing B, whereas the [Aliquat][Cl] viscosity is independent of B. All experimental results were analyzed taking into account the viscosity's magnetic field dependence, assuming a modified Stokes-Einstein diffusion/viscosity relation. The main difference between the relaxation mechanisms responsible for R1 in the two IL systems is related to the additional paramagnetic relaxation contribution associated with the (1)H spins-[FeCl4] paramagnetic moments' interactions. Cross-relaxation cusps in the R1 dispersion, associated with (35)Cl and (1)H nuclear spins in the IL systems, were detected. The R1 model considered was successfully fitted to the experimental results, and it was possible to estimate the value of D at zero field in the case of the IL mixture which was consistent with the values of D measured at 7 and 14.1 T and with the magnetic field dependence estimated from the viscosity measurements. It was observed that a small concentration of [Aliquat][FeCl4] in the [Aliquat][Cl] was enough to produce a "superparamagnetic"-like effect and to change the IL mixture's molecular dynamics and viscosity and to allow for their control with an external magnetic field.

dos Santos, R, Rocha A, Matias A, Duarte C, de Sá-Nogueira I, Lourenco N, Borges JP, Vidinha P.  2013.  Development of antimicrobial Ion Jelly fibers. RSC Adv.. 3:24400-24405.: The Royal Society of Chemistry Abstract

We report a method to obtain electrospun fibers based on ionic liquids and gelatin, exhibiting antimicrobial properties.

Moro, A, Diniz AM, Petrov V, Pina F.  2013.  Chemistry of 7,8-dihydroxy-2-(4-dimethylaminostyryl)-1-benzopyrylium. A photochromic system switching from yellow to green. Journal of Photochemistry and Photobiology a-Chemistry. 263:17-23. AbstractWebsite
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Mukhopadhyay, A, Bursakov SA, Ramos JL, Wittich RM, Kladova AV, Romao MJ, van Dillewijn P, Carvalho AL.  2013.  Determinants of selective group reduction in the TNT-bound xenobiotic reductase B from P. putida. European Biophysics Journal with Biophysics Letters. 42:S179-S179. AbstractWebsite
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Pereira, CCL, Dias S, Coutinho I, Leal JP, Branco LC, Laia CAT.  2013.  Europium(III) Tetrakis(beta-diketonate) Complex as an Ionic Liquid: A Calorimetric and Spectroscopic Study. Inorganic Chemistry. 52:3755-3764., Number 7 AbstractWebsite
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Petrov, V, Gavara R, Dangles O, Al Bittar S, Mora-Soumille N, Pina F.  2013.  A flash photolysis and stopped-flow spectroscopy study of 3 ',4 '-dihydroxy-7-O-beta-D-glucopyranosyloxyflavylium chloride, an anthocyanin analogue exhibiting efficient photochromic properties. Photochemical & Photobiological Sciences. 12:576-581., Number 3 AbstractWebsite
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Brissos, R, Ramos D, Lima JC, Mihan FY, Borras M, de Lapuente J, Dalla Cort A, Rodriguez L.  2013.  Luminescent zinc salophen derivatives: cytotoxicity assessment and action mechanism studies. New Journal of Chemistry. 37:1046-1055., Number 4 Abstract
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Szabo, CI, Amaro P, Guerra M, Schlesser S, Gumberidze A, Santos JP, Indelicato P.  2013.  Reference free, high-precision measurements of transition energies in few electron argon ions. AIP Conf. Proc.. 1525(McDaniel, Floyd D, Doyle, Barney L, Glass, Gary A, Wang, Yongqiang, Eds.).:68-72., Number 1: AIP AbstractWebsite

The use of a vacuum double crystal spectrometer, coupled to an electron-cyclotron resonance ion source (ECRIS), allows to measure low-energy x-ray transitions energies in highly-charged ions with accuracies of the order of a few parts per million. We have used this installation to measure the 1s2p 1 P1 - 1s2 1 S0 diagram line and the 1s2s 3 S1 - 1s2 1 S0 forbidden M1 transition energies in helium-like argon, the 1s2s2p 2 P j 1s2 2s 2 S1/2 transitions in lithium-like argon and the 1s2s2 2p 1 P1 - 1s2 2s2 1 S0 transition in beryllium-like argon. These transition measurements have accuracies between 2 and 4 ppm depending on the line intensity. Thanks to the excellent agreement between the simulations and the measurements, we were also able to measure the transition width of all the allowed transitions. The results are compared to recent QED and relativistic many-body calculations.

Viegas, A, Sardinha J, Freire F, Duarte DF, Carvalho AL, Fontes CMGA, Romao MJ, Macedo AL, Cabrita EJ.  2013.  Solution structure, dynamics and binding studies of a family 11 carbohydrate-binding module from Clostridium thermocellum (CtCBM11). Biochemical Journal. 451:289-300. AbstractWebsite
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