Nós isolamos e seqüenciamos genes que codificam Catepsina L-like em diversos isolados de T.rangeli de humano, mamíferos silvestres e Rhodnius spp., do centro e sul da América. Análises filogenéticas de seqüências que codificam a proteína madura de T. rangeli, outras espécies de Trypanosoma e Leishmania e duas espécies de bodonídeos, posicionaram T.rangeli próximo a T.cruzi de acordo com a ordem de divergência determinada em filogenias baseadas em SSUrDNA. Uma análise de 17 seqüências do domínio catalítico de CatL-like de isolados representativos da diversidade filogenética e distribuição geográfica de T. rangeli, apoiaram as mesmas linhagens filogenéticas previamente definidas. Seqüências do gene CatL-like também foram usados para padronizar ensaios de PCR para diagnóstico de T. cruzi e T. rangeli. Além disso, um método de genotipagem por PCR multiplex segregou os isolados de T. rangeli nas principais linhagens previamente estabelecidas. Este é o primeiro estudo usando um gene codificador de proteína para comparar isolados de T. rangeli de linhagens distintas. / We have isolated and sequenced genes encoding cathepsin L-like (CatL-like) cysteine proteases from isolates of T. rangeli from human, wild mammals and Rhodnius spp., from Central and South America. Phylogenetic analysis of sequences encoding the mature CatL-like enzymes from T. rangeli (Rangelipain), other Trypanosoma and Leishmania species, and two species of bodonids, positioned T. rangeli closest to T. cruzi corroborating the same order of divergence showed in phylogenies based on SSU rDNA. Analysis of 17 sequences of the catalytic domains of CatL-like genes isolates representative of the phylogenetic diversity and geographical range of T.rangeli supported previously defined phylogenetic lineages. Sequences of CatL-like genes were used to standardize PCR assays for the diagnosis of T. rangeli and T. cruzi, and a genotyping method of multiplex-PCR distributed of isolates of T. rangeli in the major phylogenetic lineages previously established. This is the first study using protein-encoding genes to compare isolates from T. rangeli of distinct lineages.

Bien que la synthèse peptidique en phase solide (SPPS) soit maintenant une technique mature et très largement popularisée pour des peptides simples, certaines séquences restent encore compliquées à produire, comme les peptides riches en ponts disulfure (DRPs). Ces produits naturels, ligands sélectifs d’un grand nombre de cibles thérapeutiques, sont des outils pharmacologiques de premier ordre et sont considérés comme de bons candidats médicaments. La proportion importante de cystéines dans leur séquence (plus de 10%) leur confère des propriétés remarquables, mais limite aussi leur synthèse,conduisant à des purifications HPLC délicates, associées à des rendements faibles et une pureté médiocre.Dans l’optique de simplifier la production de DRPs par voie chimique, notre but est de proposer une méthode de purification non-chromatographique. Pour cela, nous avons développé un bras N-terminal conçu pour être complètement compatible avec les peptides riches en cystéines: Boc-Cys(Trt)-1-{6-[1,3-diméthyl-2,4,6(1H,3H,5H)trioxopyrimidine-5-ylidène]hexyle}. A la fin de l’élongation sur support solide, ce bras est introduit sélectivement à l'extrémité N-terminale du peptide cible, sans réagir avec les peptides tronqués acétylés qui constituent les principales impuretés de la SPPS. Après coupure de la résine SPPS, le peptide cible est immobilisé sur un second support solide par le biais d’une réaction de ligation chimique native(NCL). Les peptides tronqués sont alors éliminés par simple filtration, puis le peptide cible est relargué en solution par coupure du bras N-terminal. Ayant comme objectif d’élargir par la suite notre stratégie à la synthèse de très longs DRPs via l’assemblage de multiples segments peptidiques par NCLs successives enphase solide, nous avons étudié en détail la stabilité et les conditions de coupure du bras.La méthode a été appliquée à la purification de deux séquences naturelles riches en cystéines et biologiquement pertinentes : AvBD2 (36 AA), un peptide antimicrobien appartenant à la famille des β défensines aviaires et Bv8 (77 AA) un peptide d’amphibien de la famille des prokinéticines. / Although solid phase peptide synthesis (SPPS) is a mature and widely popularized technique for simple peptides, some sequences are still complicated to produce, such as disulfide-rich peptides (DRPs). These natural products are able to selectively bind a wide number of therapeutically relevant targets, hence they are considered as promising drug candidates and pharmacological tools. The large proportion of cysteines in their sequence (more than 10%) confers them remarkable properties, but also limits their synthesis, lead ingto delicate HPLC purifications associated with low yields and poor purity.With the aim to simplify the chemical production of DRPs, we have developed an N-terminal linker: Boc-Cys(Trt)-1-{6-[1,3-dimethyl-2,4,6(1H,3H,5H)trioxopyrimidine-5-ylidene]hexyl}, which can be used for non chromatographiccatch-and-release purifications. It has been designed to be completely compatible with unprotected cysteine-containing peptides. Following solid phase elongation, this linker is selective lyintroduced at the N-terminus of the target peptide, leaving unreacted truncated acetylated peptides which are the main co-products of SPPS. After cleavage from the SPPS resin, the target peptide is immobilized on a second solid support through native chemical ligation (NCL). The truncated peptides are then removed by simple filtration. Cleavage of the linker finally releases the purified peptide into solution.Having in mind the future extension our strategy to the synthesis of very long DRPs through successive solid-supported NCLs of multiple peptide segments, we have studied in detail the stability and cleavage conditions of the N-terminal linker.To explore the scope and limitations of the method, it has been applied to the purification of two biologically-relevant cysteine-rich peptide sequences: chicken AvBD2 (36 AA), a β defensin antimicrobial peptide, and Bv8 (77 AA), a prokineticin-like peptide from yellow-bellied toad.

As cisteíno-proteases da família da papaína desempenham funções essenciais em processos biológicos, entre eles o desenvolvimento e crescimento do organismo, vias de sinalização celular e apoptose, invasão de parasitas em células hospedeiras. Assim, trata-se de uma classe de proteínas de grande interesse para as indústrias farmacêuticas, sendo utilizada como alvo para o tratamento de doenças como o câncer e metástases, osteoporose. Disfunções relacionadas ao sistema imune, doenças parasitárias como malária, leishmaniose, doença do sono e doença de Chagas. Esta última é uma enfermidade considerada negligenciada pelas grandes indústrias farmacêuticas, sem nenhum tratamento eficaz e seguro disponível, que gera um problema econômico de mais de sete bilhões de dólares anuais devido à perda de mão de obra e gastos com tratamento para amenizar os efeitos da doença. A cisteíno protease cruzaína de Trypanosoma cruzi, causador da Doença de Chagas, desponta como um alvo validado na busca de novos fármacos contra essa enfermidade. Essa enzima apresenta um par de aspartatos que interagem entre si, para os quais foi predito um pKa de 7, sendo possível a forma desprotonada desse par em condições biológicas. Neste caso, pode levar à exposição de uma nova cavidade por meio do movimento da alça entre os resíduos 57-62, segundo as simulações de dinâmica molecular desse trabalho, que se trata de uma possível candidata a ponto de seletividade de inibidores de cisteínoproteases de parasitos em relação às suas ortólogas em Homo sapiens que não possuem o par de aspartatos. Em pH ácido, foi mostrado por meio de análise de componentes principais de simulações de dinâmica molecular que as cisteíno protease apresentam uma restrição gradual na amostragem conformacional do sítio ativo quando complexadas com as formas não covalente e covalente de inibidores derivados de dipeptidil nitrilas. Isso sugere que esse sistema segue o modelo de seleção conformacional para flexibilidade de proteína. Notou-se também que o perfil de restrição de ligantes que inibem na faixa de nmol.L-1 difere daqueles a µmol.L-1 , o que possibilitou a construção de uma árvore de decisão para identificar os complexos que apresentam afinidade a nmol.L-1 . / The papain-like cysteine proteases are essentials for biological process, performing important roles on the parasite development, growth and also in the parasite invasion process on the host cell, in cellular signaling pathways and apoptosis, among others. Thus, the pharmaceutical industry widely uses this class of protein as target for the development of new drugs, against cancer and metastasis, osteoporosis and immune system disorders, resulting in many approved drugs. Additionally, these enzymes are validated target against parasitic diseases as leishmaniose, malaria and African and American trypanosomiasis. The last one, also known as Chagas\' disease, is neglected disease for which, further a century form this discovery, there is no effective and safe chemotherapy and is responsible for an economic loss of around seven billion dollars in the world per year due to the health care and lost productivity from infected people. Faced with this situation, the Cruzain, a cysteine protease from the Trypanosoma cruzi, the causative agent of Chagas\' disease, is emerging as interesting and validated target to the search for new drugs against this sickness. This enzyme has a pair of interactiong Asp for which was predicted a pKa of 7, by computational methods. By this way, this pair under neutral to alkaline pH adopts the deprotonated form, which exposed a new cavity through a movement of loop of residues 57-62, as we showed here by molecular dynamics simulations. This cavity emerges as a possible selectivity point of the cruzain inhibitors, once Homo sapiens enzynes does not present the aspartic acid - aspartate pair. In condition of acidic pH, principal component analysis of molecular dynamics simulations showed a gradual reduction of the conformational space covered by the active site of cruzain, cathepsin K and cathepsin L in it free form and complexed with dipeptidyl nitrilelike molecules in it noncovalent e covalent forms. This suggests these systems follows the conformational selection model of protein flexibility. Furthermore, we observed the ligands that inhibits the protein at nmol.L-1 induces the protein flexibility in a similar way, while the µmol.L-1 ones leads to another pattern. That made possible the construction of a decision tree which is able to identify nmol.L-1 from µmol.L-1 complexes.

<p align=\"justify\">A necessidade urgente de descoberta de terapias mais seguras e eficazes para o tratamento da doença de Chagas e leishmanioses tem motivado a pesquisa por novos inibidores das enzimas cruzaína e CPB, as principais cisteíno proteases do T. cruzie e Leishmania spp., respectivamente. Uma série de 52 compostos nitrílicos que atuam como inibidores covalente-reversíveis de cisteíno proteases foi sintetizada no grupo NEQUIMED/IQSC/USP e avaliada quanto a sua atividade inibitória contra as enzimas cruzaína, CPB de Leishmania mexicana e catepsina L de humanos. Utilizando planejamento molecular baseado em hipótese, mapeamos as relações estrutura-atividade (SARs) desses inibidores através de variações nas posições P1, P2, P3 e P1\' do esqueleto dipeptidil nitrílico. A substituição do grupo eletrofílico (warhead) aminonitrila em P1 pelo grupo azanitrila melhorou a afinidade em duas ordens de magnitude para todos os alvos avaliados. Um dos mais potentes inibidores, o análogo azanitrila Neq0690 mostrou uma cinética de ligação lenta com valores de pKi de 8,8, 9,3 e 9,7 para cruzaína, catepsina L e LmCPB, respectivamente. A substituição bioisostérica da ligação amida entre as posições P2-P3 pelo grupo trifluoroetilamina resultou na síntese do Neq0659, um potente inibidor com um perfil de ação seletivo para as proteases de parasitos. A substituição do grupo metileno em P1 pelo ciclopropano aumentou a afinidade para todas as enzimas. Contudo, uma inibição seletiva da cruzaína e LmCPB foi associada à presença do grupo (R)-benzila como substituinte da posição P1 dos derivados CF3 substituídos. Embora os compostos substituídos com leucina, tirosina, triptofano e 3-cloro fenilalanina como substituintes da posição P2 foram relativamente bem tolerados pela cruzaína e catepsina L, uma restrita especificidade foi verificada para LmCPB com pequenos ganhos de afinidade para os inibidores que possuíam os grupos leucina e metil benzoato como substituintes dessa posição. Com relação à posição P3, a inserção do grupo 3-terc-butilpirazol e 3-bromo piridina aumentou a afinidade para todos os alvos avaliados enquanto que um ganho seletivo para a LmCPB foi observado para os compostos que possuíam o grupo bifenila nessa posição. Além disso, duas novas estruturas cristalográficas da LmCPB complexada com o Neq0690 e metil metanotiossulfonato (MMTS) foram determinadas com resoluções de 1,3 Å e 1,5 Å, respectivamente. As estruturas dos co-complexos revelaram os modos de interação (MoB) desses ligantes, bem como as principais características do processo de reconhecimento bimolecular. Isso permitirá o uso de estratégias de planejamento baseado na estrutura do alvo com translação natural para a pesquisa por novos inibidores de cisteíno proteases, com amplo espectro de ação na quimioterapia de doenças a elas relacionadas. / <p align=\"justify\">The urgent need for the discovery of safer and more effective therapies for the treatment of Chagas disease and leishmaniasis has motivated the search for new inhibitors of the enzymes cruzain and CPB, the major T. cruzi and Leishmania spp. cysteine proteases, respectively. A series of 52 nitrile-containing compounds acting as covalent-reversible inhibitors of cysteine proteases was synthesized at the NEQUIMED/IQSC/USP Medicinal Chemistry Group and evaluated for their inhibitory activity against the enzymes cruzain, Leishmania mexicana CPB and cathepsin L from humans. Using hypothesis-driven molecular design, we mapped the structure-activity relationships (SARs) of these inhibitors through variations in the P1, P2, P3 and P1\' positions of the dipeptidyl nitrile scaffold. The substitution of the aminonitrile by the azanitrile group improved the affinity by two orders of magnitude for all the evaluated targets. One of the most potent inhibitors, the azanitrile analogue dubbed Neq0690 showed a slow-binding kinetics with pKi values of 8.8, 9.3 and 9.7 for cruzain, cathepsin L and LmCPB, respectively. Bioisosteric substitution of the amide moiety between the P2-P3 positions by the trifluoroethylamine group resulted in the synthesis of Neq0659, a potent inhibitor with a selective action profile for parasite proteases. Substitution of the methylene group at P1 by cyclopropane increased the affinity for all enzymes. However, selective inhibition of cruzain and LmCPB was associated with the presence of the (R)-benzyl group as substituent of the P1 position of the substituted CF3 derivatives. Although leucine, tyrosine, tryptophan and 3-chloro phenylalanine substituted compounds as substituents of the P2 position were relatively well tolerated by cruzain and cathepsin L, a restricted specificity was verified for LmCPB with small affinity gains for the inhibitors possessing the leucine and methyl benzoate as substituents of that position. Regarding the P3 position, the insertion of the 3-tert-butylpyrazole and 3-bromo pyridine groups increased the affinity for all evaluated targets whereas a selective gain for LmCPB was observed for the compounds having the biphenyl moiety at that position. In addition, it is noteworthy that two new crystallographic structures of LmCPB complexed with Neq0690 and methyl methanethiosulfonate (MMTS) were determined with resolutions of 1.3 Å and 1.5 Å, respectively. The structures of the co-complexes revealed the modes of binding (MoB) of these ligands, as well as the main characteristics of the bimolecular recognition process. This will allow the natural translational target structure strategies for the search for new inhibitors of cysteine proteases with broad spectrum of action in the chemotherapy of related diseases.

Estudos da reatividade de espécies oxidantes e a interação destas espécies com estruturas sensíveis a oxidação e antioxidantes em condições biológicassão de grande importância no entendimento dos processos redox em alimentos e no corpo humano. A mioglobina é a ferro heme proteína majoritária do músculo esquelético de mamíferos e a sua ativação por peróxido de hidrogênio dá origem às espécies reativas de ferro heme hipervalentes,perferrilmioglobina e ferrilmioglobina, que podem induzir a condição de estresse oxidativo. A reação das espécies de ferro heme hipervalentes com constituintes do meio biológico ou alimentos como proteínas ou membranas podem tanto afetar a qualidade de produtos cárneos quanto causar danos celulares no trato gastrointestinal durante sua digestão.Pequenas moléculas tais como o NO, H2S e CO são produzidas endogenamente em sistemas biológicos e, além de desempenharem importantes funções na manutenção dometabolismo celular,podem apresentar atividade antioxidante.A presente Tese procurou investigara cinética e o mecanismo para a redução das espécies perferrilmioglobina e ferrilmioglobina pelo monóxido de carbono, reação esta que apresentaconstante de velocidade de segunda ordem de k2 =(3,3 ± 0,6) 102 mol L-1, a 25 oC, para a redução da espécie perferrilmioglobina. Posteriormente,foi investigada a cinética e mecanismo de redução da ferrilmioglobinapelo H2S levando à formação da espécie sulfomioglobina-Fe(II). A constante de segunda ordem obtida para a reação entre a espécie protonada da ferrilmioglobina e o H2Sfoide k2 = (2,5 ± 0,1) 106 L mol-1 s-1, duas ordens de magnitude superior a constante de velocidade paraa reação entre a espécie ferrilmioglobina e o íonHS-, k2 = (1,0 ± 0,7)104L mol-1 s-1a 25 oC.Para a redução da espécie ferrilmioglobina pelo H2S/HS- e a formação da espécie sulfomioglobina-Fe(II) observa-se um efeito de compensação de temperatura (?H? = (2,1 ± 0,9) kJ mol-1) o que é um fator determinante na ocorrência do processo de greening em produtos cárneos condimentados durante estocagem a baixa temperatura. A formação da espécie sulfomioglobina foi também investigada na reação de redução da ferrilmioglobina pela L-cisteína. Para esta reação foi observada dependência do mecanismo da reação com o pH. A formação da espécie sulfomioglobina foi observada para a reação conduzia em meio ácido a neutro, enquanto que para a reação em condições alcalinas, observa-se a formação majoritária da espécie oximioglobina. Areação da cisteína com a espécie protonada da ferrilmioglobina apresentou constante de segunda ordem de k2 = (5,1 ± 0,4)L mol-1 s-1, e a reação entre a cisteína diânion e a ferrilmioglobina,em meio alcalino,apresentou constante de velocidade de segunda ordem com k2 =(0,12 ± 0,01) L mol-1s-1.A diferença de reatividade e no produto da reação é um indicativo da mudança de mecanismo de transferência de elétrons seguida de adição do radical HSo, em meio ácido, para um mecanismo sequencial detransferência de elétrons do dianion da cisteína para as espécies ferrilmioglina e metamioglobina levando a formação de oximioglobina em condições alcalinas. / Studies on the reactivity and interaction of oxidant species with oxidizable sensitive structures and antioxidants in biological settings are of great importance for understanding the redox process in food and in the human body. Myoglobin is the major heme-iron protein in the mammal skeletal muscle and its activation by hydrogen peroxide generate reactive hypervalent heme-iron species, perferrylmyoglobin and ferrylmyoglobin, which may induce oxidative stress conditions. The reaction of hypervalent heme-iron species with biological medium or food constituents like proteins or membranes may affect the quality of meat products or could lead to cellular damage in the gastrointestinal tract during digestion. Small molecules like NO, H2S, and CO are produced endogenously in biological systems and, despite playing relevant function in the maintenance of cell metabolism, may present antioxidant activity. The present Thesis aimed to investigate the kinetics and mechanism for the reduction of perferrylmyoglobin and ferrylmyoglobin species by carbon monoxide, reaction that shows a second-order reaction constant with k2 = (3.3 ± 0.6) 102L mol-1 s-1at 25 oC for the reduction of the perferrylmyoglobin species. Furthermore, the kinetics and mechanism for the reduction of the ferrylmyoglobin by H2S leading to the formation of the sulfmyoglobin-Fe(II) species has been investigated. The obtained second-order rate constant for the reaction between the protonated ferrylmyoglobin species and H2S was k2 = (2.5 ± 0.1) 106 L mol-1 s-1, two-orders of magnitude higher than the second-order rate constant for the reaction between the ferrylmyoglobin species and the HS- ion, k2 = (1.0 ± 0.7) 104L mol-1 s-1at 25 oC. For the ferrylmyoglobin species reduction by H2S/HS- and the formation of sulfmyoglobin-Fe(II) it is observed an temperature compensation effect (?H? = (2.1 ± 0.9) kJ mol-1) which is the determination factor for the occurrence of the greening process in condiment meat products during storage at low temperature. The formation of the sulfmyoglobin species has been further investigated during the reduction reaction of ferrylmyoglobin by L-cysteine. For this reaction it was observed a dependence of the reaction mechanism on the pH. The formation of sulfmyoglobin was observed for the reaction conducted in acidic and neutral medium, meanwhile for the reaction in alkaline conditions, it is mainly observed the formation of oxymyoglobin. The reaction between cysteine and the protonated ferrylmyoglobin species shown second-order rate constant with k2 = (5.1 ± 0.4) L mol-1 s-1, and the reaction between the cysteine dianion and ferrylmyoglobin, in alkaline medium, shows second order rate constant with k2 = (0.12 ± 0.01) L mol-1s-1.The difference in reactivity and in the reaction product is an indicative of change of the electron transfer-radical addition mechanism to a sequential electron transfer mechanism from the cysteine dianion to the ferrylmyoglobin and metmyoglobin species leading to the formation of oxymyoglobin under alkaline conditions.

As aminoacil tRNA sintetases (AaRSs) são enzimas essenciais na síntese de proteínas assegurando a correta relação entre os aminoácidos e seus tRNA cognatos. O genoma mitocondrial dos tripanossomatídeos perdeu os genes codificantes dos tRNAs, assim os tRNA mitocondriais são codificados no núcleo e importados do citoplasma. O código genético do kinetoplasto desvia do código genético pela utilização do códon de terminação UGA para a decodificação do códon do triptofano. Um único gene codificando o tRNATrp(CCA) observado no genoma de Leismania é responsável pela incorporação do aminoácido triptofano durante a síntese proteíca na mitocôndria. Para decodificar os dois códons do Trp (UGA e UGG) a base na posição 34 do tRNATrp(CCA) passa por um evento de editoração, convertendo o ribunuclotídeo C34 em U34, produzindo o tRNATrp(UCA) capaz de decodificar o códon UGA. Nesse trabalho foram caracterizadas duas triptofanil tRNA sintetases de Leishmania major. De acordo com experimentos de ?western blotting? e análises ?in silico? das seqüências de aminoácidos, uma enzima tem localização citoplasmática (LmTrpRS1) enquanto a outra mitocondrial (LmTrpRS2). Os mRNAs dos dois genes foram definidos por experimentos de 5? e 3? RT-PCR. As duas enzimas foram clonadas em diversos vetores de expressão procariotos e eucariotos. A LmTrpRS1 foi obtida somente na fração insolúvel, já a LmTrpRS2 foi obtida na fração solúvel quando clonada no vetor de expressão pET28a. Esta porém mostrou-se instável precipitando rapidamente após sua purificação. Os ensaios enzimáticos realizados com a mesma mostraram que ela é capaz de reconhecer os tRNAsTrp editado e não editado. Modelagem molecular por homologia com as duas proteínas foi realizada usando a proteína citoplasmática humana como molde, para estudar a interação entre a proteína e o tRNATrp. Xylella fastidiosa é um bactéria gram negativa limitada ao xilema, responsável por um grande número de doenças economicamente importantes, como a doença de Pierces em videiras, Clorose variegata do Citrus (CVC) e a doença da requeima das folhas em outras plantas incluindo, amendoeira, ameixeira, louro, amoreira e café. Em todos os casos a X. fastidiosa afeta o xylema da planta causando redução na produção de frutos. Nesse trabalho nós mostramos a estrutura da Xylellaína, uma cisteíno protease desse patógeno. A estrutura foi resolvida por dispersão anômala a um único comprimento de onda, utilizando cristais de xylellaína selenometionina substituídos. A estrutura da Xylellaína foi refinada até 1,65 Å de resolução, mostrando enovelamento similar às proteínas da família da papaína, porém algumas características interessantes como uma região N-terminal composta por 38 aminoácidos cobrindo o sulco ativo da enzima, um intrigante ribonucleotídeo encontrado fora do sítio ativo da enzima e um ?loop? semelhante ao ?loop? de oclusão presente na catepsina B. / The aminoacyl tRNA synthetases (aaRSs) are essential enzymes in protein synthesis that ensure the correct match between amino acids and their cognate tRNAs. The mitochondrial (kinetoplast) genome of trypanossomatids lacks tRNA genes, and therefore nucleus-encoded tRNAs are imported from the cytoplasm, the kinetoplast genetic code deviates from the universal code in that UGA instead of UGG encodes for tryptophan. A single nucleus-encoded tRNATrp(CCA) is responsible for Trp insertion during organellar protein synthesis. To decode both Trp codons (UGA and UGG), tRNATrp(CCA) undergoes a single C to U editing event at position 34 of the anticodon yielding to versions of the tRNA in the mitochondria with anticodon CCA and UCA, permitting UGA decoding. This work have characterized two Leishmania major tryptophanyl-tRNA synthetase, acording western blotting experiments and ?in silico? sequence analisis one of cytoplasmatic localization (LmTrpRS1) and another from mitochondria localization (LmTrpRS2). The mature mRNA transcripts for both genes were defined by 5? and 3? RT-PCR. Both enzymes were cloned into several expressions vectors. LmTrpRs1 was obtained as an insoluble protein and LmTrpRs2 expressed into the soluble fraction in pET28a expression system. LmTrpRS2 protein, however, is unstable precipitating shortly after purification. The enzymatic assay showed that this enzyme is able to recognize both tRNATrp. Molecular modeling for LmTrpRS1 and LmTrpRS2 were constructed using the cytoplasmatic human tryptophanyl tRNA synthetase as a model, to study the interaction between proteins and tRNATrp. Xylella fastidiosa is a xylem-limited, gram-negative bacteria responsible for a large number of economically important plant diseases, such as Pierces disease in grapevines, citrus variegated chlorosis (CVC) in sweet oranges and leaf scorch diseases in other plants, including almond, plum, oleander, mulberry and coffee. In all cases, X. fastidiosa infects the plant xylem and impairs fruit production. Here, we report the crystal structure of xylellain, a cystein protease from X. fastidiosa. The structure was solved by single-wavelength anomalous dispersion (SAD) using seleno-methionine containing xylellain crystals. The final structure of Xylellaína was refined against the best native data set (1.65 Å) showing R/Rfree= 17/21. Xylellain shares fold similar to Papain like Family, but contains some interesting features, like a 38 N-terminal tail covering the active site cleft; one intriguing ribonucleotide found outside the active site and one loop that resemble the ocluding loop from cathepsin B.

Apart from CAD, the transient liberation of AIF during day 6 of TF-1 differentiation could pose another threat to the genomic DNA in cells. We have demonstrated the absence of AIF in the nucleus of TF-1 cells despite its release from the mitochondria by using confocal studies. Moreover, the expression of heat shock protein 70 kDa (Hsp70), a well-known antagonist of AIF, was found to be temporarily increased at day 6. Taken together, our results implied a plausible retention of AIF in the cytoplasm by Hsp70. Although Hsp70 is commonly utilized by many cancer cells to counteract AIF and avoid DNA fragmentation, we are the first to demonstrate its role in suppressing AIF during normal erythroid maturation. / As a whole, we have illustrated that the activated caspase-3, mediated most likely by the mitochondrial pathway, is an essential component in the differentiation of TF-1 cells. Its activation was nevertheless not coupled with DNA fragmentation due to some protective mechanisms such as CAD downregulation, Hsp70 upregulation and overexpression of Bcl-XL. Our study therefore provides some insights in the understanding of the relationship between human erythropoiesis and apoptosis and a better understanding in this regard will undoubtedly facilitate the development of new drugs in the treatment of different hematopoietic diseases. / Caspases play a central role in apoptosis. Their activations during the process are accounted for different biochemical and morphological changes in apoptotic cells. Yet in recent years, increasing studies had shown that caspases were also involved in some non-apoptotic cellular events, including T and B-lymphocytes activation, as well as the terminal differentiation of lens cells, megakaryocytes and erythrocytes. / In order to find out other unknown cellular mechanisms in erythropoiesis, mRNA differential display was employed to compare the gene expression pattern of TF-1 cells at different stages of differentiation. Several differentially expressed genes were identified and subsequently confirmed by RT PCR. These genes include formin binding protein 3, destrin and T-complex protein-1 (TCP-1). Their involvement in erythroid differentiation was still not clear at the moment but would be investigated in the near future. Furthermore, aiming at identifying the interacting proteins or inhibitors of caspase-3 in the system, a pull down assay was developed by means of the bacterial expression of a recombinant human caspase-3 mutant protein. With the mutation in the active site, the binding of our recombinant caspase-3 mutant with two known partners ICAD and BIRII (Baculovirus Inhibitor of apoptosis protein Repeat II) domain has been demonstrated. We hope in the near future that it can be employed to fish out some novel caspase-3 substrates from the differentiating TF-1 cell lysate. / In the present study, the participation of caspase in in vitro erythropoiesis was investigated using a human erythroleukemia cell line TF-1. Erythropoietin (EPO) induced erythroid maturation of TF-1 as indicated by the expression of erythroid-lineage markers like glycophorin A (GPA), transferrin receptors (CD71) and synthesis of hemoglobin (Hb). Activation of caspase-3 was observed from day 6 to day 12 during TF-1 differentiation after EPO treatment. With the administration of caspase-3 specific inhibitor, expressions of GPA and CD71 were partially blocked, suggesting that caspase-3 activation is essential in erythropoiesis in our TF-1 model. / Possible involvement of the intrinsic and extrinsic apoptotic pathways was studied by investigating respectively the activation of pro-caspase-9 and -8. It was found that caspase-9, but not -8, was activated at the corresponding time point when caspase-3 was activated. Besides, a transient mitochondrial depolarization coupled with the release of cytochrome c and apoptosis inducing factor (AIF) were detected on day 6, strongly implying a role of mitochondria in triggering the activation of executioner caspase-3. On the other hand, GPA and CD71 expressions were blocked by the application of mitochondrial depolarization inhibitor cyclosporin A (CyA). Also, the recovery of mitochondrial membrane potential was found to be correlated with an overexpression of Bcl-XL at a late stage of TF-1 differentiation, and the role of Bcl-XL was subsequently manifested further by a significant retardation of erythroid differentiation in the siRNA Bcl-XL knocked down TF-1 cells. / The exact role of caspase-3 in erythroid differentiation is far from clear at this moment. Yet, its regulation in the process is equally intriguing. On the course of TF-1 maturation, activated caspase-3 was able to cleave and de-localize the Inhibitor of Caspase-activated DNase (ICAD) from the nucleus, but at the same time DNA fragmentation was not detected by TUNEL assay nor agarose electrophoresis. Furthermore, protection against DNA fragmentation was observed in the EPO-treated TF-1 cells when challenged with a potent apoptotic inducer staurosporine (STS). These observations are in contrast to our understanding that DNA is fragmented by CAD (Caspase-activated DNase) when ICAD in the ICAD-CAD complex is cleaved by caspase-3. For these apparently contradictory observations, we demonstrated that downregulation of CAD occurred at the mRNA and protein levels during the erythroid differentiation in TF-1. This provides a cell rescuing mechanism in non-apoptotic cells with activated caspases. / Lui Chun Kin Julian. / "September 2006." / Adviser: Siu Kai Kong. / Source: Dissertation Abstracts International, Volume: 68-03, Section: B, page: 1620. / Thesis (Ph.D.)--Chinese University of Hong Kong, 2006. / Includes bibliographical references (p. 239-253). / Electronic reproduction. Hong Kong : Chinese University of Hong Kong, [2012] System requirements: Adobe Acrobat Reader. Available via World Wide Web. / Electronic reproduction. [Ann Arbor, MI] : ProQuest Information and Learning, [200-] System requirements: Adobe Acrobat Reader. Available via World Wide Web. / Abstracts in English and Chinese. / School code: 1307.

Estudos da reatividade de espécies oxidantes e a interação destas espécies com estruturas sensíveis a oxidação e antioxidantes em condições biológicassão de grande importância no entendimento dos processos redox em alimentos e no corpo humano. A mioglobina é a ferro heme proteína majoritária do músculo esquelético de mamíferos e a sua ativação por peróxido de hidrogênio dá origem às espécies reativas de ferro heme hipervalentes,perferrilmioglobina e ferrilmioglobina, que podem induzir a condição de estresse oxidativo. A reação das espécies de ferro heme hipervalentes com constituintes do meio biológico ou alimentos como proteínas ou membranas podem tanto afetar a qualidade de produtos cárneos quanto causar danos celulares no trato gastrointestinal durante sua digestão.Pequenas moléculas tais como o NO, H2S e CO são produzidas endogenamente em sistemas biológicos e, além de desempenharem importantes funções na manutenção dometabolismo celular,podem apresentar atividade antioxidante.A presente Tese procurou investigara cinética e o mecanismo para a redução das espécies perferrilmioglobina e ferrilmioglobina pelo monóxido de carbono, reação esta que apresentaconstante de velocidade de segunda ordem de k2 =(3,3 ± 0,6) 102 mol L-1, a 25 oC, para a redução da espécie perferrilmioglobina. Posteriormente,foi investigada a cinética e mecanismo de redução da ferrilmioglobinapelo H2S levando à formação da espécie sulfomioglobina-Fe(II). A constante de segunda ordem obtida para a reação entre a espécie protonada da ferrilmioglobina e o H2Sfoide k2 = (2,5 ± 0,1) 106 L mol-1 s-1, duas ordens de magnitude superior a constante de velocidade paraa reação entre a espécie ferrilmioglobina e o íonHS-, k2 = (1,0 ± 0,7)104L mol-1 s-1a 25 oC.Para a redução da espécie ferrilmioglobina pelo H2S/HS- e a formação da espécie sulfomioglobina-Fe(II) observa-se um efeito de compensação de temperatura (?H? = (2,1 ± 0,9) kJ mol-1) o que é um fator determinante na ocorrência do processo de greening em produtos cárneos condimentados durante estocagem a baixa temperatura. A formação da espécie sulfomioglobina foi também investigada na reação de redução da ferrilmioglobina pela L-cisteína. Para esta reação foi observada dependência do mecanismo da reação com o pH. A formação da espécie sulfomioglobina foi observada para a reação conduzia em meio ácido a neutro, enquanto que para a reação em condições alcalinas, observa-se a formação majoritária da espécie oximioglobina. Areação da cisteína com a espécie protonada da ferrilmioglobina apresentou constante de segunda ordem de k2 = (5,1 ± 0,4)L mol-1 s-1, e a reação entre a cisteína diânion e a ferrilmioglobina,em meio alcalino,apresentou constante de velocidade de segunda ordem com k2 =(0,12 ± 0,01) L mol-1s-1.A diferença de reatividade e no produto da reação é um indicativo da mudança de mecanismo de transferência de elétrons seguida de adição do radical HSo, em meio ácido, para um mecanismo sequencial detransferência de elétrons do dianion da cisteína para as espécies ferrilmioglina e metamioglobina levando a formação de oximioglobina em condições alcalinas. / Studies on the reactivity and interaction of oxidant species with oxidizable sensitive structures and antioxidants in biological settings are of great importance for understanding the redox process in food and in the human body. Myoglobin is the major heme-iron protein in the mammal skeletal muscle and its activation by hydrogen peroxide generate reactive hypervalent heme-iron species, perferrylmyoglobin and ferrylmyoglobin, which may induce oxidative stress conditions. The reaction of hypervalent heme-iron species with biological medium or food constituents like proteins or membranes may affect the quality of meat products or could lead to cellular damage in the gastrointestinal tract during digestion. Small molecules like NO, H2S, and CO are produced endogenously in biological systems and, despite playing relevant function in the maintenance of cell metabolism, may present antioxidant activity. The present Thesis aimed to investigate the kinetics and mechanism for the reduction of perferrylmyoglobin and ferrylmyoglobin species by carbon monoxide, reaction that shows a second-order reaction constant with k2 = (3.3 ± 0.6) 102L mol-1 s-1at 25 oC for the reduction of the perferrylmyoglobin species. Furthermore, the kinetics and mechanism for the reduction of the ferrylmyoglobin by H2S leading to the formation of the sulfmyoglobin-Fe(II) species has been investigated. The obtained second-order rate constant for the reaction between the protonated ferrylmyoglobin species and H2S was k2 = (2.5 ± 0.1) 106 L mol-1 s-1, two-orders of magnitude higher than the second-order rate constant for the reaction between the ferrylmyoglobin species and the HS- ion, k2 = (1.0 ± 0.7) 104L mol-1 s-1at 25 oC. For the ferrylmyoglobin species reduction by H2S/HS- and the formation of sulfmyoglobin-Fe(II) it is observed an temperature compensation effect (?H? = (2.1 ± 0.9) kJ mol-1) which is the determination factor for the occurrence of the greening process in condiment meat products during storage at low temperature. The formation of the sulfmyoglobin species has been further investigated during the reduction reaction of ferrylmyoglobin by L-cysteine. For this reaction it was observed a dependence of the reaction mechanism on the pH. The formation of sulfmyoglobin was observed for the reaction conducted in acidic and neutral medium, meanwhile for the reaction in alkaline conditions, it is mainly observed the formation of oxymyoglobin. The reaction between cysteine and the protonated ferrylmyoglobin species shown second-order rate constant with k2 = (5.1 ± 0.4) L mol-1 s-1, and the reaction between the cysteine dianion and ferrylmyoglobin, in alkaline medium, shows second order rate constant with k2 = (0.12 ± 0.01) L mol-1s-1.The difference in reactivity and in the reaction product is an indicative of change of the electron transfer-radical addition mechanism to a sequential electron transfer mechanism from the cysteine dianion to the ferrylmyoglobin and metmyoglobin species leading to the formation of oxymyoglobin under alkaline conditions.

L'oxydation des résidus cystéines est une modification biochimique très répandue survenant dans tous les compartiments des cellules eucaryotes. Ce phénomène sert le repliement oxydatif des protéines dans le réticulum endoplasmique (RE), l'importation de protéines dans l'espace intermembranaire de la mitochondrie (IMS). De plus, il a un rôle régulateur dans la matrice mitochondriale et dans le cytosol où il contrôle l’activité des enzymes et des protéines de signalisation et de régulation. Dans tous ces procédés, la réversibilité de l'oxydation des résidus Cys est une caractéristique essentielle. Deux systèmes oxydoréductase puissants existent : les voies de glutathion (GSH) et la thiorédoxine ; ils catalysent la réduction des ponts disulfure, et contrôlent la plupart des processus cellulaires thiol-redox dépendant. Cependant, en dépit d'énormes connaissances portant sur leur enzymologie, peu est connu sur les caractéristiques physiologiques de ces systèmes chez les eucaryotes. Pour déterminer l'importance physiologique de ces systèmes et indiquer lequel est à la base de l'exigence du GSH pour la viabilité, nous avons effectué une analyse complète des cellules de levure épuisée ou contenant des niveaux toxiques de GSH. Les deux conditions déclenchent une réponse « iron-starvation-like » et une altération de l'activité des enzymes d’assemblage des centres fer-soufre (Iron sulfure cluster : ISC) extra-mitochondriales. Cependant, elles n’ont pas d'impact sur l’entretien thiol redox, à l’exception des niveaux élevés de glutathion qui ont altéré le repliement oxydatif des protéines dans le reticulum endoplasmique. Alors que le fer sauve partiellement la maturation des ISC et les défauts de croissance des cellules appauvries eh GSH, des expériences génétiques ont indiqué que, contrairement à la thiorédoxine, le glutathion ne peut pas assurer par lui-même les fonctions thiol-redox de la cellule. Nous proposons que le glutathion soit essentiel par son exigence dans l’assemblage des centres fer-soufre, mais ne serve comme backup que pour maintenir l’état thiol-redox de la cellule. Des niveaux physiologiques élevés de GSH sont ainsi destinés à isoler sa fonction dans le métabolisme du fer des variations de sa concentration pendant le stress redox, ce qui constitue un modèle contestant la vision traditionnelle du GSH comme acteur primordial du contrôle thiol-redox cytosolique.Nos données préliminaires sur la distribution de GSH dans les cellules recueillies par lasurveillance de l'état redox de rxYFP ciblée pour différents compartiments cellulaires (RE,Matrice, cytosol et IMS) dans les cellules HGT1 indiquent un transport spécifique du GSH vers le RE et l'exportation de GSSG de ce compartiment. Nous avons pu caractériser deuxtransporteurs ABC dont la suppression modifie le RE plus oxydant et entraîne une accumulation de GSSG par rapport aux cellules sauvages. Ces données ont été confirmées par le suivi de l'état redox de PDI1 et ERO1 (WT et hyper active). Elles suggèrent un rôle de ces transporteurs dans l'exportation du GSSG du la RE, et que le flux de GSH entre les différents compartiments est très régulé. / Cys residue oxidation is a widespread biochemical modification occurring in all eukaryotic cells compartments. It serves oxidative protein folding in the endoplasmic reticulum (ER), protein import in the intermembrane space of mitochondria (IMS), and it has a regulatory role in the mitochondrial matrix and in the cytosol where it controls enzymes and signaling regulatory proteins activity. In all these processes, reversibility of Cys residue oxidation is a crucial feature. Two potent oxidoreductase systems, the glutathione (GSH) and thioredoxin pathways, catalyze disulfide bond reduction, and presumably control most thiol-redox-dependent cellular processes. However, despite tremendous knowledge of their enzymology, little is known about the physiological features of these systems in eukaryotes. To determine the physiologic importance of these functions and sort out which of them accounts for the GSH requirement for viability, we performed a comprehensive analysis of yeast cells depleted of or containing toxic levels of GSH. Both conditions triggered an intense iron-starvation-like response and impaired the activity of extra-mitochondrial ISC enzymes, but did not impact thiol-redox maintenance, except high glutathione levels that altered oxidative protein folding in the endoplasmic reticulum. While iron partially rescued the ISC maturation and growth defects of GSH-depleted cells, genetic experiments indicated that unlike thioredoxin, glutathione could not support by itself the thiolredox duties of the cell. We propose that glutathione is essential by its requirement in ISC assembly but only serves as a thioredoxin back up in cytosolic thiol-redox maintenance. Glutathione high physiologic levels are thus meant to insulate its function in iron metabolism from variations of its concentration during redox stresses, a model challenging the traditional view of it as prime actor in cytosolic thiol-redox control.Our preliminary data on the distribution of GSH inside cells collected by monitoring the redox state of rxYFP targeted to different cell compartments (ER, Matrix, Cytosol and IMS) in HGT1 cells indicate a specific transport of GSH into the ER and export of GSSG out of it. We were able to characterize two ABC transporters on which their deletion modify the redox state of the ER to more oxidizing and result in accumulation of higher GSSG content compared to WT. These data were confirmed by looking to the redox state of the PDI1 and ERO1 (WT and hyper active), all together suggest a role of these transporters in GSSG export from the ER, and that GSH flux between the different compartments is highly regulated.

Si l'intérêt nutritionnel des acides gras polyinsaturés (AGPI) n-3 dans la prise en charge et la prévention des dysfonctions associées au syndrome métabolique, est bien établi. Les mécanismes d'action spécifiques sous-jacents aux effets bénéfiques de cette famille d'acides gras sont encore en cours d'étude. L'objectif de ces travaux était d'explorer le rôle de l'acide alpha-linolénique ALA ou 18 :3 n-3, dans la modulation des voies affectant l'homéostasie de molécules bioactives dérivant du métabolisme secondaire des acides aminés (le monoxyde d'azote -NO- et le glutathion). L'hypothèse sous-jacente est que ces modulations pourraient expliquer, du moins en partie, le rôle des AGPI n-3 dans le maintien des fonctions biologiques contrôlées par ces métabolites (telles que la fonction endothéliale et le statut oxydant) et impliquées de près dans la physiopathologie du syndrome métabolique. Notre intérêt a porté particulièrement sur la voie de régulation génique via le PPARα et sur son implication dans le contrôle des gènes du métabolisme des acides aminés par l'ALA. Nous avons exploré chez la souris de type sauvage et invalidée pour le PPARα, l'effet de l'apport alimentaire d'ALA dans le cadre de régime normo- ou hyper-lipidiques sur les voies du métabolisme secondaire de l'arginine et de la cystéine. En parallèle nous nous sommes focalisés sur les effets de l'ALA au niveau vasculaire en utilisant un modèle de cellules endothéliales bovines en cultures. De ce travail de thèse s'est dégagé que l'ALA module effectivement le métabolisme secondaire de l'arginine et de la cystéine. L'apport d'ALA (à hauteur de 11% et 42% de l'apport énergétique) augmente la production de NO sans affecter l'expression hépatique des enzymes contrôlant l'utilisation de l'arginine (NOS et ARG). L'apport d'ALA (11%) augmente le pool hépatique du glutathion, alors que les plus forts apports d'ALA (42%) modulent l'expression des principales enzymes impliquées dans les voies d'utilisation de la cystéine (γGCL et CDO). Le PPARα ne semble pas être directement impliqué dans les effets observés de l'ALA, néanmoins, l'invalidation du PPARα rend le métabolisme secondaire des acides aminés plus sensible à la nature des acides gras alimentaire. Une meilleure biodisponibilité du NO et du glutathion suite à l'apport alimentaire d'ALA serait bénéfique pour la physiopathologie du syndrome métabolique. Il semble donc intéressant, à l'issus de ce travail, d'élaborer des études nutritionnelles validant ces effets de l'ALA chez l'homme dans une perspective de recommandations nutritionnelles. / *