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2004
Cunha, P. P., O. Mateus, and MT Antunes. "The sedimentology of the Paimogo dinosaur nest site (Portugal, Upper Jurassic)." 23 rd IAS Meeting of Sedimentology. Coimbra, Portugal 2004. 93. Abstract
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Palma, L. B., F. Coito, and R. Neves-Silva. "Sensor fault diagnosis based on neural observers and parameter estimation–application to the three-tank benchmark." VI Portuguese Conf. on Automatic Control, Faro. Indexed at ISI Web of Science (2004). Abstract
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Raniero, L., N. Martins, P. Canhola, S. Pereira, I. Ferreira, E. Fortunato, and R. Martins. "Spectral response of large area amorphous silicon solar cells." High Temperature Material Processes (An International Quarterly of High-Technology Plasma Processes). 8.2 (2004). Abstract
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Dyke, J. M., G. Levita, A. Morris, J. S. Ogden, A. A. Dias, M. Algarra, J. P. Santos, M. L. Costa, P. Rodrigues, and M. T. Barros. "A Study of the Thermal Decomposition of 2-Azidoacetamide by Ultraviolet Photoelectron Spectroscopy and Matrix-Isolation Infrared Spectroscopy:  Identification of the Imine Intermediate H2NCOCHNH." The Journal of Physical Chemistry A. 108 (2004): 5299-5307. AbstractWebsite

The thermal decomposition of 2-azidoacetamide (N3CH2CONH2) has been studied by matrix-isolation infrared spectroscopy and real-time ultraviolet photoelectron spectroscopy. N2, CH2NH, HNCO, CO, NH3, and HCN are observed as high-temperature decomposition products, while at lower temperatures, the novel imine intermediate H2NCOCHNH is observed in the matrix-isolation IR experiments. The identity of this intermediate is confirmed both by ab initio molecular orbital calculations of its IR spectrum and by the temperature dependence and distribution of products in the photoelectron spectroscopy (PES) and IR studies. Mechanisms are proposed for the formation and decomposition of the intermediate consistent both with the observed results and with estimated activation energies based on pathway calculations.

Martins, Rodrigo, Elvira Fortunato, P. Nunes, I. Ferreira, A. Marques, M. Bender, N. Katsarakis, V. Cimalla, and G. Kiriakidis. "Zinc oxide as an ozone sensor." Journal of Applied Physics. 96.3 (2004): 1398-1408. Abstract
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Duarte, A. R. C., P. Coimbra, H. C. {De Sousa}, and C. M. M. Duarte. "{Solubility of flurbiprofen in supercritical carbon dioxide}." Journal of Chemical and Engineering Data. 49 (2004). Abstract

Equilibrium solubility of flurbiprofen, a nonsteroidal antiinflammatory agent, in supercritical carbon dioxide was measured by a static analytical method in the pressure range from (8.0 to 25.0) MPa, at temperatures of (303.0, 313.0, and 323.0) K. The cosolvent effect of ethanol in the solubility of the bioactive compound in supercritical carbon dioxide was investigated at 18 MPa and 313 K. The results obtained have a potential application in supercritical processes for this drug. Experimental solubility data were correlated with an empirical density-based Chrastil model.

Martins, Ana M., Rita Branquinho, Jinlan Cui, Alberto R. Dias, Teresa M. Duarte, José Fernandes, and Sandra S. Rodrigues. "{Syntheses and structures of molybdenum and tungsten pentabenzylcyclopentadienyl complexes: New chlorination reactions}." Journal of Organometallic Chemistry. 689 (2004): 2368-2376. Abstract

[M(CpBz)(CO)3CH3] (M=Mo, 2a, W, 2b; CpBz=C5(CH2Ph)5) have been prepared and reacted with PCl5 and PhI · Cl2. Depending on the metal and on the chlorinating reagent used [Mo(CpBz) ($η$2-COCH3)Cl3], 3, [W(CpBz)Cl4], 4, [Mo(CpBz)(CO)3Cl], 5 and [Mo(CpBz)Cl4], 6 have been obtained. The molecular structures of all compounds are reported and two conformations have been characterised for the benzyl substituents. In complexes 2a, 2b and 5 one phenyl ring bends towards the metals while in 3 and 4 the five phenyls point opposite to the metals. © 2004 Elsevier B.V. All rights reserved.

2003
Pettigrew, G. W., S. R. Pauleta, C. F. Goodhew, A. Cooper, M. Nutley, K. Jumel, S. E. Harding, C. Costa, L. Krippahl, I. Moura, and J. Moura. "Electron transfer complexes of cytochrome c peroxidase from Paracoccus denitrificans containing more than one cytochrome." Biochemistry. 42 (2003): 11968-11981. AbstractWebsite

According to the model proposed in previous papers [Pettigrew, G. W., Prazeres, S., Costa, C., Palma, N., Krippahl, L., and Moura, J. J. (1999) The structure of an electron-transfer complex containing a cytochrome c and a peroxidase, J. Biol. Chem. 274, 11383-11389; Pettigrew, G. W., Goodhew, C. F., Cooper, A., Nutley, M., Jumel, K., and Harding, S. E. (2003) Electron transfer complexes of cytochrome c peroxidase from Paracoccus denitrificans, Biochemistry 42, 2046-2055], cytochrome c peroxidase of Paracoccus denitrificans can accommodate horse cytochrome c and Paracoccus cytochrome c(550) at different sites on its molecular surface. Here we use H-1 NMR spectroscopy, analytical ultracentrifugation, molecular docking simulation, and microcalorimetry to investigate whether these small cytochromes can be accommodated simultaneously in the formation of a ternary complex. The pattern of perturbation of heme methyl and methionine methyl resonances in binary and ternary solutions shows that a ternary complex can be formed, and this is confirmed by the increase in the sedimentation coefficient upon addition of horse cytochrome c to a solution in which cytochrome c(550) fully occupies its binding site on cytochrome c peroxidase. Docking experiments in which favored binary solutions of cytochrome, c(550) bound to cytochrome c peroxidase act as targets for horse cytochrome c and the reciprocal experiments in which favored binary solutions of horse cytochrome c bound to cytochrome c peroxidase act as targets for cytochrome c(550) show that the enzyme can accommodate both cytochromes at the same time on adjacent sites. Microcalorimetric titrations are difficult to interpret but are consistent with a weakened binding of horse cytochrome c to a binary complex of cytochrome c peroxidase and cytochrome c(550) and binding of cytochrome c(550) to the cytochrome c peroxidase that is affected little by the presence of horse cytochrome c in the other site. The presence of a substantial capture surface for small cytochromes on the cytochrome c peroxidase has implications for rate enhancement mechanisms which ensure that the two electrons required for re-reduction of the enzyme after reaction with hydrogen peroxide are delivered efficiently.

Almeida, MG, S. Macieira, LL Goncalves, R. Huber, CA Cunha, MJ Romao, C. Costa, J. Lampreia, JJG Moura, and I. Moura. "The isolation and characterization of cytochrome c nitrite reductase subunits (NrfA and NrfH) from Desulfovibrio desulfuricans ATCC 27774 - Re-evaluation of the spectroscopic data and redox properties." EUROPEAN JOURNAL OF BIOCHEMISTRY. 270 (2003): 3904-3915. Abstract
The cytochrome c nitrite reductase is isolated from the membranes of the sulfate-reducing bacterium Desulfovibrio desulfuricans ATCC 27774 as a heterooligomeric complex composed by two subunits (61 kDa and 19 kDa) containing c-type hemes, encoded by the genes nrfA and nrfH, respectively. The extracted complex has in average a 2NrfA:1NrfH composition. The separation of ccNiR subunits from one another is accomplished by gel filtration chromatography in the presence of SDS. The amino-acid sequence and biochemical subunits characterization show that NrfA contains five hemes and NrfH four hemes. These considerations enabled the revision of a vast amount of existing spectroscopic data on the NrfHA complex that was not originally well interpreted due to the lack of knowledge on the heme content and the oligomeric enzyme status. Based on EPR and Mossbauer parameters and their correlation to structural information recently obtained from X-ray crystallography on the NrfA structure {[}Cunha, C. A., Macieira, S., Dias, J.M., Almeida, M.G., Goncalves, L. M. L., Costa, C., Lampreia, J., Huber, R., Moura, J. J. G., Moura, I. & Romano, M. (2003) J. Biol. Chem. 278, 17455-17465], we propose the full assignment of midpoint reduction potentials values to the individual hemes. NrfA contains the high-spin catalytic site (-80 mV) as well as a quite unusual high reduction potential (+150 mV)/low-spin bis-His coordinated heme, considered to be the site where electrons enter. In addition, the reassessment of the spectroscopic data allowed the first partial spectroscopic characterization of the NrfH subunit. The four NrfH hemes are all in a low-spin state (S = 1/2). One of them has a g(max) at 3.55, characteristic of bis-histidinyl iron ligands in a noncoplanar arrangement, and has a positive reduction potential.
Cunha, CA, S. Macieira, JM Dias, G. Almeida, LL Goncalves, C. Costa, J. Lampreia, R. Huber, JJG Moura, I. Moura, and MJ Romao. "Cytochrome c nitrite reductase from Desulfovibrio desulfuricans ATCC 27774 - The relevance of the two calcium sites in the structure of the catalytic subunit (NrfA)." JOURNAL OF BIOLOGICAL CHEMISTRY. 278 (2003): 17455-17465. Abstract
The gene encoding cytochrome c nitrite reductase (NrfA) from Desulfovibrio desulfuricans ATCC 27774 was sequenced and the crystal structure of the enzyme was determined to 2.3-Angstrom resolution. In comparison with homologous structures, it presents structural differences mainly located at the regions surrounding the putative substrate inlet and product outlet, and includes a well defined second calcium site with octahedral geometry, coordinated to propionates of hemes 3 and 4, and caged by a loop non-existent in the previous structures. The highly negative electrostatic potential in the environment around hemes 3 and 4 suggests that the main role of this calcium ion may not be electrostatic but structural, namely in the stabilization of the conformation of the additional loop that cages it and influences the solvent accessibility of heme 4. The NrfA active site is similar to that of peroxidases with a nearby calcium site at the heme distal side nearly in the same location as occurs in the class II and class III peroxidases. This fact suggests that the calcium ion at the distal side of the active site in the NrfA enzymes may have a similar physiological role to that reported for the peroxidases.
Costa, Anikó Estadogramas em Co-Design de Sistemas Embutidos. Faculdade Ciêcias e Tecnologia da Universidade Nova de Lisboa, 2003. Abstract
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Cordas, C. M., A. S. Viana, S. Leupold, F. P. Montforts, and L. M. Abrantes. "Self-assembled monolayer of an iron(III) porphyrin disulphide derivative on gold." Electrochemistry Communications. 5.1 (2003): 36-41. AbstractWebsite

A novel iron(III) porphyrin disulphide derivative have been successfully immobilised on gold surfaces by self-assembly. The redox response of the modified electrodes was compared with the obtained for a similar iron porphyrin in solution, confirming the immobilisation of the metalloporphyrin. The gravimetric data obtained by electrochemical quartz crystal microbalance (EQCM) during adsorption allowed an estimation of the electrode coverage, providing further evidence for the formation of the porphyrin SAM. The modified electrodes were also measured by conventional and imaging ellipsometry. The electrocatalytic activity of the two modified electrodes was tested for the reduction of the molecular oxygen. (C) 2002 Elsevier Science B.V. All rights reserved.

Bonifacio, C., CA Cunha, A. Muller, C. G. Timoteo, JM Dias, I. Moura, and MJ Romao. "Crystallization and preliminary X-ray diffraction analysis of the di-haem cytochrome c peroxidase from Pseudomonas stutzeri." Acta crystallographica. 59 (2003): 345-7. AbstractWebsite

Crystals of cytochrome c peroxidase from Pseudomonas stutzeri were obtained using sodium citrate and PEG 8000 as precipitants. A complete data set was collected to a resolution of 1.6 A under cryogenic conditions using synchrotron radiation at the ESRF. The crystals belong to space group P2(1), with unit-cell parameters a = 69.29, b = 143.31, c = 76.83 A, beta = 100.78 degrees. Four CCP molecules were found in the asymmetric unit, corresponding to a pair of dimers related by local dyads. The crystal packing in the structure shows that the functional dimers can dimerize, as suggested by previous biochemical studies.

Nunes, Isabel L., Filipa Conchinha, and Ana Almeida Análise de riscos numa Central de Betão. Conferência Engenharias'2003-Inovação e Desenvolvimento. Univ Beira Interior. Covilhã. Portugal, 2003. Abstract
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Silva, M. A. G., C. Cismaşiu, and C. G. Chiorean. "Low velocity impact on laminates reinforced with {P}olyethylene and {A}ramidic fibres." Computational Methods in Engineering and Science. Proceedings of the 9th International Conference EPMESC IX. Eds. V. P. Iu, L. N. Lamas, Y. - P. Li, and K. M. Mok. Macao, China: A.A.Balkema Publishers, 2003. 843-849. Abstract

The present study reports low velocity impact tests on composite laminate plates reinforced either with Kevlar 29 or Dyneema. The tests are produced using a Rosand Precision Impact tester. The experimental results obtained for Kevlar 29 are simulated numerically. The deflection history and the peak of the impact force are compared with experimental data and used to calibrate the numerical model.

de Almeida, Pedro Lúcio Maia Marques, João Luís Maia Figueirinhas, Maria Teresa Varanda Cidade, Maria Helena Figueiredo Godinho, and Universidade Nova de Lisboa Estudo e optimização de um novo dispositivo electro-óptico tipo PDLC., 2003. Abstract
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Alves, E., R. C. da Silva, JV Pinto, T. Monteiro, B. Savoini, D. Caceres, R. Gonzalez, and Y. Chen. "Radiation-damage recovery in undoped and oxidized Li doped MgO crystals implanted with lithium ions." Nuclear Instruments & Methods in Physics Research Section B-Beam Interactions with Materials and Atoms. 206 (2003): 148-152. AbstractWebsite
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Matos, MRPN, PMP Gois, MLEN Mata, E. J. Cabrita, and CAM Afonso. "Studies on the preparation of 4-ethoxyalkyliden and 4-aminoalkyliden-5(4H)-oxazolones." Synthetic Communications. 33 (2003): 1285-1299. Abstract
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Silva, M. A. G., C. Cismaşiu, and C. G. Chiorean. "Ballistic Simulation of Impact on Composite Laminates." Proceedings of the International Conference Constructions 2003. Vol. 2. Cluj-Napoca, Romania: The Technical University of Cluj-Napoca, 2003. 139-146. Abstract

The paper reports on numerical simulation of impact problems on fiber reinforced plastic composite laminated plates reinforced with Kevlar 29. The ballistic impact caused by STANAG-2920 projectile is analyzed to obtain an estimate for the V50 and the global damage. All estimate have been carried out using the finite difference numerical code AUTODYN-3D, are compared with the experimental data to illustrate the performance of the simulation. Good correlation between resulting simulations and experimental results is demonstrated both in terms of deformation and damage of the laminates and ballistic performance.

Paulino, Hervé, Luís Lopes, and Fernando Silva. "Mob: A Scripting Language for Mobile Agents Based on a Process Calculus." Web Engineering - International Conference, ICWE 2003. Ed. Joyanes Aguilar Labra Gayo Puerto B. M.; L.; del Cueva Lovelle, J.M.; González Rodríguez. Lecture Notes in Computer Science. Springer-Verlag, 2003. 40-43. Abstract
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Freitas, J. A. T., and C. Cismaşiu. "Adaptive p-refinement of hybrid-{T}refftz finite element solutions." Finite Elements in Analysis and Design. 39 (2003): 1095-1121. Abstract

An adaptive p-refinement procedure for the implementation of the displacement model of the hybrid-{T}refftz finite element formulation is presented. The procedure is designed to select and implement automatically the degrees of freedom in the domain (displacements) and on the boundary (surface forces) of the element to attain a prescribed level of accuracy. This accuracy is measured on the strain energy of the system for a prescribed finite element mesh. Local measures of error can be easily accounted for. The performance of the adaptive procedure suggested is illustrated using two-dimensional potential problems.

Lopes, M. H., P. Abelha, N. Lapa, J. S. Oliveira, I. Cabrita, and I. Gulyurtlu. "The behaviour of ashes and heavy metals during the co-combustion of sewage sludges in a fluidised bed." Waste Management. 23.9 (2003): 859-870. AbstractWebsite

Co-combustion tests of dry sewage sludges with coal were performed in a pilot bubbling FBC aiming at the characterization of ashes and determining the behaviour of heavy metals in the process. The tests showed compliance with the regulatory levels as far as heavy metal emissions were concerned. The bottom ashes, which accounted for about 70% of the total ash production, were obtained in a granular form, with diameters ranging from 0.5 to 4 mm. The heavy metals were distributed in ashes obtained from different locations of the installation and their concentrations were found to vary depending on the location of capture. The increase in heavy metals content in bottom ashes was not found to lead to higher leachability and ecotoxicity compared to sewage sludges, suggesting that there could be opportunities for their further use. Mercury suffered vaporisation inside the reactor, thus leaving bottom ashes free of contamination by it. However, there was observed a strong retention of mercury in cyclone ashes due to the presence of unburned carbon which probably acted as an adsorbent. The effluent mercury was also found to be mostly associated with the particulate fraction, being less than 20% emitted in gaseous forms. The results suggested that the combustion of the sewage sludge could successfully be carried out and the amount of unburned carbon leaving the combustor but captured in cyclone was large enough to ensure substantial retention of mercury at low temperatures, hence could contribute to an improvement of the mercury release which still remains an issue of great concern to resolve during combustion of waste materials.

Lourenço, João M., José C. Cunha, and Vitor Moreira. "Control and Debugging of Distributed Programs Using Fiddle." CoRR. cs.DC/0309049 (2003): 143-157. Abstractaadebug.pdfWebsite

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C. Oliveira, and J. Araújo. "A Criação em Teatro: proposta para um Thesaurus." Revista da Faculdade de Letras da Universidade de Lisboa. 27.5 (2003): 167-193. Abstract

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