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2003
Fiser, A, Filipe SR, Tomasz A.  2003.  Cell wall branches, penicillin resistance and the secrets of the MurM protein. Trends Microbiol. 11:547-553.
Palma, LB, Coito FV, Silva RN.  2003.  Fault diagnosis based on black-box models with application to a liquid-level system. Emerging Technologies and Factory Automation, 2003. Proceedings. ETFA’03. IEEE Conference. 2:739–746.: IEEE . Abstract

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Ricardo, CN, Inácio JA, Gerald JA, Ortigueira MD.  2003.  New BCH-Derived Sequences for CDMA Systems. 46th IEEE - Midwest Symposium on Circuits and Systems. :1255–1258. Abstract

New BCH-derived PN-EB (pseudo-noise even balanced) sequences suitable to be used in CDMA systems are presented in this paper. It is assumed a new definition for processing gain, which better accounts for the system performance regarding the narrow band noise rejection, and it is shown how to obtain high processing gain values, namely, by using zero mean spreading signals in channels with selective noise. The new sequences have low autocorrelation levels, exist in large numbers and can provide higher processing gain with selective noise.

Pessanha, M, Turner DL, Rothery EL, Pankhurst KL, Reid GA, Chapman SK, Xavier AV, Salgueiro CA.  2003.  NMR redox studies of flavocytochrome c3 from Shewanella frigidimarina. Inorganica Chimica Acta. 356:379-381. AbstractWebsite

Flavocytochrome c3 is a periplasmic fumarate reductase with Mr 63.8 kDa, isolated from Shewanella frigidimarina NCIMB400. NMR spectroscopy was tested for its potential to elucidate the oxidation profile of each of the four haem groups in the enzyme, using the strategy developed previously to perform the thermodynamic characterization of small tetrahaem cytochromes (FEBS Lett. 314 (1992) 155). This work shows that, despite the large size of the protein, 2D-NMR NOESY experiments can be used to obtain the network of chemical exchange connectivities, between the signals of specific haem groups in sequential oxidation stages.

Carvoeiras, P, Rodrigues MJ, A.G. B, Ortigueira MD.  2003.  A Prototype software for the Diagnostic of Atrial fibrillation. XXIV Congresso Português de Cardiologia and Revista Portuguesa de Cardiologia. III. Abstract

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Bandeiras, TM, Salgueiro CA, Huber H, Gomes CM, Teixeira M.  2003.  The respiratory chain of the thermophilic archaeon Sulfolobus metallicus: studies on the type-II NADH dehydrogenase. Biochimica et Biophysica Acta (BBA) - Bioenergetics. 1557(1-3):13-19. AbstractWebsite

The membranes of the thermoacidophilic archaeon Sulfolobus metallicus exhibit an oxygen consumption activity of 0.5 nmol O2 min−1 mg−1, which is insensitive to rotenone, suggesting the presence of a type-II NADH dehydrogenase. Following this observation, the enzyme was purified from solubilised membranes and characterised. The pure protein is a monomer with an apparent molecular mass of 49 kDa, having a high N-terminal amino acid sequence similarity towards other prokaryotic enzymes of the same type. It contains a covalently attached flavin, which was identified as being FMN by 31P-NMR spectroscopy, a novelty among type-II NADH dehydrogenases. Metal analysis showed the absence of iron, indicating that no FeS clusters are present in the protein. The average reduction potential of the FMN group was determined to be +160 mV, at 25 °C and pH 6.5, by redox titrations monitored by visible spectroscopy. Catalytically, the enzyme is a NADH:quinone oxidoreductase, as it is capable of transferring electrons from NADH to several quinones, including ubiquinone-1, ubiquinone-2 and caldariella quinone. Maximal turnover rates of 195 μmol NADH oxidized min−1 mg−1 at 60 °C were obtained using ubiquinone-2 as electron acceptor, after enzyme dilution and incubation with phospholipids.

Lau, IF, Filipe SR, Soballe B, Okstad O-A, Barre F-X, Sherratt DJ.  2003.  Spatial and temporal organization of replicating Escherichia coli chromosomes. Mol Microbiol. 49:731-743.
Pessanha, M, Louro RO, Correia IJ, Rothery EL, Pankhurst KL, Reid GA, Chapman SK, Turner DL, Salgueiro CA.  2003.  Thermodynamic characterization of a tetrahaem cytochrome isolated from a facultative aerobic bacterium, Shewanella frigidimarina: a putative redox model for flavocytochrome c3. Biochemical Journal. 370(Pt. 2):489-495. AbstractWebsite

The facultative aerobic bacterium Shewanella frigidimarina produces a small c-type tetrahaem cytochrome (86 residues) under anaerobic growth conditions. This protein is involved in the respiration of iron and shares 42% sequence identity with the N-terminal domain of a soluble flavocytochrome, isolated from the periplasm of the same bacterium, which also contains four c-type haem groups. The thermodynamic properties of the redox centres and of an ionizable centre in the tetrahaem cytochrome were determined using NMR and visible spectroscopy techniques. This is the first detailed thermodynamic study performed on a tetrahaem cytochrome isolated from a facultative aerobic bacterium and reveals that this protein presents unique features. The redox centres have negative and different redox potentials, which are modulated by redox interactions between the four haems (covering a range of 8–56mV) and by redox–Bohr interactions between the haems and an ionizable centre (-4 to -36mV) located in close proximity to haem III. All of the interactions between the five centres are clearly dominated by electrostatic effects and the microscopic reduction potential of haem III is the one most affected by the oxidation of the other haems and by the protonation state of the molecule. Altogether, this study indicates that the tetrahaem cytochrome isolated from S. frigidimarina (Sfc) has the thermodynamic properties to work as an electron wire between its redox partners. Considering the high degree of sequence identity between Sfc and the cytochrome domain of flavocytochrome c3, the structural similarities of the haem core, and that the macroscopic potentials are also identical, the results obtained in this work are rationalized in order to put forward a putative redox model for flavocytochrome c3.

Carvalho, AL, Dias FMV, Prates JAM, Nagy T, Gilbert HJ, Davies GJ, Ferreira LMA, Romao MJ, Fontes C.  2003.  Cellulosome assembly revealed by the crystal structure of the cohesin-dockerin complex. Proceedings of the National Academy of Sciences of the United States of America. 100:13809-13814., Number 24 AbstractWebsite
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Paulo, PMR, Laia CAT, Costa SMB.  2003.  Clusters in polymer-surfactant AOT microemulsions probed by excited state quenching kinetics. Journal of Physical Chemistry B. 107:1097-1105., Number 4 AbstractWebsite
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Moncada, MC, Moura S, Melo MJ, Roque A, Lodeiro C, Pina F.  2003.  Complexation of aluminum(III) by anthocyanins and synthetic flavylium salts - A source for blue and purple color. Inorganica Chimica Acta. 356:51-61. AbstractWebsite
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Bracci, S, Melo MJ.  2003.  Correlating natural ageing and Xenon irradiation of Paraloid (R) B72 applied on stone. Polymer Degradation and Stability. 80:533-541., Number 3 AbstractWebsite
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Bonifácio, C, Cunha CA, Müller A, Timóteo CG, Dias JM, Moura I, Romão MJ.  2003.  Crystallization and preliminary X-ray diffraction analysis of the di-haem cytochrome c peroxidase from Pseudomonas stutzeri. Acta Crystallographica Section D. 59:345-347., Number 2: Munksgaard International Publishers AbstractWebsite
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Bonifacio, C, Cunha CA, Muller A, Timoteo CG, Dias JM, Moura I, Romao MJ.  2003.  Crystallization and preliminary X-ray diffraction analysis of the di-haem cytochrome c peroxidase from Pseudomonas stutzeri. Acta Crystallographica Section D-Biological Crystallography. 59:345-347. AbstractWebsite
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Cunha, CA, Macieira S, Dias JM, Almeida G, Goncalves LL, Costa C, Lampreia J, Huber R, Moura JJG, Moura I, Romao MJ.  2003.  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. 278:17455-17465., Number 19 AbstractWebsite
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Giestas, L, Yihwa C, Lima JC, Vautier-Giongo C, Lopes A, Macanita AL, Quina FH.  2003.  The dynamics of ultrafast excited state proton transfer in anionic micelles. Journal of Physical Chemistry a. 107:3263-3269., Number 18 Abstract
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Palma, LB, Coito FV, Silva RN.  2003.  Fault diagnosis based on black-box models with application to a liquid-level system. Emerging Technologies and Factory Automation, 2003. Proceedings. ETFA’03. IEEE Conference. 2:739–746.: IEEE Abstract

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Palma, L, Neves-Silva R, Coito F.  2003.  Fault tolerant control approach applied to the three-tank system. Abstract

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Auchere, F, Raleiras P, Benson L, Venyaminov SY, Tavares P, Moura JJG, Moura I, Rusnak F.  2003.  Formation of a stable cyano-bridged dinuclear iron cluster following oxidation of the superoxide reductases from Treponema pallidum and Desulfovibrio vulgaris with K3Fe(CN)(6). INORGANIC CHEMISTRY. {42}:{938-940}., Number {4} Abstract

Superoxide reductases catalyze the monovalent reduction of superoxide anion to hydrogen peroxide. Spectroscopic evidence for the formation of a dinuclear cyano-bridged adduct after K3Fe-(CN)(6) oxidation of the superoxide reductases neelaredoxin from Treponema pallidum and desulfoferrodoxin from Desulfovibrio vulgaris was reported. Oxidation with K3Fe(CN)(6) reveals a band in the near-IR with lambda(max) at 1020 nm, coupled with an increase of the iron content by almost 2-fold. Fourier transform infrared spectroscopy provided additional evidence with CN-stretching vibrations at 2095, 2025-2030, and 2047 cm(-1), assigned to a ferrocyanide adduct of the enzyme. Interestingly, the low-temperature electronic paramagnetic resonance (EPR) spectra of oxidized TpNIr reveal at least three different species indicating structural heterogeneity in the coordination environment of the active site Fe ion. Given the likely 6-coordinate geometry of the active site Fe3+ ion in the ferrocyanide adduct, we propose that the rhombic EPR species can serve as a model of a hexacoordinate form of the active site.

Ramos, JJM, Afonso CAM, Branco LC.  2003.  Glass transition relaxation and fragility in two room temperature ionic liquids. Journal of Thermal Analysis and Calorimetry. 71:659-666., Number 2 AbstractWebsite
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Moreira, PF, Giestas L, Yihwa C, Vautier-Giongo C, Quina FH, Macanita AL, Lima JC.  2003.  Ground- and excited-state proton transfer in anthocyanins: From weak acids to superphotoacids. Journal of Physical Chemistry a. 107:4203-4210., Number 21 Abstract
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Almeida, MG, Macieira S, Goncalves LL, Huber R, Cunha CA, Romao MJ, Costa C, Lampreia J, Moura JJG, Moura I.  2003.  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. 270:3904-3915., Number 19 AbstractWebsite
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