Дисертації з теми "ArnA Protein"
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Gowher, Ali. "Characterization of protein factors targeting RNA into human mitochondria." Phd thesis, Université de Strasbourg, 2013. http://tel.archives-ouvertes.fr/tel-01071841.
Повний текст джерелаCorsi, Flavia. "Towards the in silico reconstruction of protein interaction networks : identification of DNA- and RNA-protein interfaces, and construction of a database of multiple interactions of proteins." Electronic Thesis or Diss., Sorbonne université, 2019. https://accesdistant.sorbonne-universite.fr/login?url=https://theses-intra.sorbonne-universite.fr/2019SORUS452.pdf.
Повний текст джерелаThis thesis focuses on the characterization and prediction of DNA- and RNA-binding sites on protein structures, with some comparisons with protein-protein ones. We compiled and manually curated a non-redundant and representative set of 187 high resolution protein-DNA complexes, with the available 82 protein unbound conformations, that could be used as a reference benchmark. We conducted a comprehensive analysis of sequence- and structure-based properties of protein-DNA/RNA interfaces and compared them with respect to protein-protein interfaces and to non-interacting protein regions. We developed JET2DNA and JET2RNA, new methods for predicting DNA- and RNA-binding sites on protein surfaces. Combining four biologically meaningful descriptors, they outperform other machine-learning methods, in terms of predictive power and robustness to conformational changes. Our tools demonstrated to be instrumental in discovering alternative DNA/RNA-binding sites and in deciphering their properties. This could be very helpful for drug design and repurposing. To give a comprehensive view of plasticity of DNA-binding proteins and structural information on their multiple interactions, we constructed the Protein-(Protein)-DNA database (P(P)DNAdb). It comprises the 187 protein-DNA complexes in our benchmark, protein unbound forms and structures of other complexes where the proteins, or closed homologs, were in contact with other proteins. The user can access properties of the interfaces, visualize conformational changes associated to the binding of different partners and the location of the DNA-binding residues on the unbound structures and on the complexes with the other protein partners
CARUCCI, FEDERICA. "Agronomic strategies for Sustainable Management of Durum Wheat Cultivation in Mediterranean Area." Doctoral thesis, Università di Foggia, 2021. https://hdl.handle.net/11369/425190.
Повний текст джерелаNitrogen is the most requested element in cereal systems and has the most signi!cant impact on the environment. This Ph.D. dissertation deals with di$erent agronomic strategies to improve the sustainability of durum wheat cultivation, together with its productivity and quality. Studies were conducted in the Mediterranean area, de!ned as one of the regions most vulnerable to climatic changes. Since, in this area the e'ciently use of nitrogen is more critical. The main objective was pursued evaluating the responses of di$erent durum wheat genotypes to the sustainable management of nitrogen fertilizers in organic and low-input systems. De!ne the best farming system that alone can satisfy the world safe and sustainable feeding is impossible. However, innovative farming systems, including low-input and organic ones, will be necessary for both food access and ecosystem security. In conclusion, the results described in this Ph.D. advance the current state of the knowledge about improving the sustainability, productivity and di$erent quality aspects of durum wheat under Mediterranean conditions. However, several signi!cant issues remain to be investigated in future research.
Uchikawa, Emiko. "A structural approach of RNA-protein recognition and kinetics of binding in two examples : tRNA aminoacylation by arginyl-tRNA synthetase and 7SK stabilization by LaRP7." Strasbourg, 2011. http://www.theses.fr/2011STRA6052.
Повний текст джерелаIn the cell, RNA-protein interactions are fundamental to many processes involved in the regulation of gene expression, including pre-mRNA splicing, polyadenylation, editing, transport, cytoplasmic targeting, mRNA turnove and translation. In addition to these post-transcriptional processes, RNA-prote in interactions may also play a key rôle in transcription. Indeed, in addition to its coding capacity, which makes both DNA and RNA recipients of the genetic message, the high variability and conformationnal flexibility of RNA structure creates a number of unique binding sites and the potential for complex regulation by RNA binding proteins. These use a large Iibrary of structural modules in order to recognize RNAs in a combination of sequence- or structure-dependent ways, leading to a wide range of transient to more stable interactions. This manuscript describes our endeavour to reveal the details of RNAprotein interactions at the molecular level in several examples taken in two different fields of cell biology, transcription and translation. Our targets were chosen to better understand the molecular foundation of interactions critical for the cell survival, and represent different binding modes ofproteins to RNA. Aiming to use X-ray crystallography, a well-accepted and reliable mean to analyze recognition details at atomic resolution, we developed for each target a purification protocolleading to homogeneous preparations that were used for crystallization and subjected to various anai}'ses, including functional assays and biophysical characterization
Fischer, Tiffany Brink. "A structural and energetic description of protein-protein interactions in atomic detail." Texas A&M University, 2006. http://hdl.handle.net/1969.1/4775.
Повний текст джерелаJarrige, Domitille. "Déchiffrer le "code OPR" pour une meilleure compréhension du rôle physiologique des protéines OPR." Electronic Thesis or Diss., Sorbonne université, 2019. http://www.theses.fr/2019SORUS632.
Повний текст джерелаFollowing endosymbiosis, the chloroplast genome shrunk and became reliant on the host genome for its expression. In Chlamydomonas reinhardtii, Octotricopeptide repeat proteins (OPR), encoded in the nucleus, control the expression of a specific organellar mRNA. The OPR repeat is a degenerate motif of 38 amino-acids, folding into a tandem of antiparallel α-helices which can bind to RNA. An individual OPR repeat is predicted to interact with one given nucleotide thanks to specificity-conferring residues at defined positions within the repeat. OPR proteins contain tracks of successive OPR motifs, thus they can bind to a specific RNA “target” sequence and act on it. I aimed to study this specificity, called the “OPR code”, starting with a draft code based on known OPR protein/mRNA couples. I mutated in vivo the chloroplast targets of some OPR factors to disrupt the OPR/RNA interaction, and then tried to restore it by mutating the specificity-conferring residues in the corresponding repeats. Surprisingly, OPR/RNA interactions seem very resilient, challenging our view of how the specificity is established in vivo. Complementary functional studies that I performed on the OPR factors MDB1 and MTHI1 revealed that chloroplast gene expression might rely on complex networks of nuclear factors. By cooperating those putative systems would be both more specific and more resilient
Li, Yi. "Study of Arnt-interacting proteins on Arnt-dependent signaling pathways." Scholarly Commons, 2006. https://scholarlycommons.pacific.edu/uop_etds/2786.
Повний текст джерелаTakeuchi, Akiko Krol Alain Allmang-Cura Christine. "RNA-protein interaction in the selenoprotein synthesis machinery." Strasbourg : Université de Strasbourg, 2009. http://eprints-scd-ulp.u-strasbg.fr:8080/1133/01/TAKEUCHI_Akiko_2009.pdf.
Повний текст джерелаThèse soutenue sur un ensemble de travaux. Titre provenant de l'écran-titre. Bibliogr. 11 p.
Takeuchi, Akiko. "RNA-protein interaction in the selenoprotein synthesis machinery." Strasbourg, 2009. http://www.theses.fr/2009STRA6054.
Повний текст джерелаThe 21st amino acid selenocysteine is encoded by a UGA codon that usually signifies translational termination. Selenoprotein synthesis therefore requires specialized factors. Among these is SBP2 that binds the SECIS, a stem-loop structure in the 3’UTR of selenoprotein mRNAs. In structural analyses of SBP2, we isolated and functionally characterized Drosophila melanogaster SBP2. By comparing it with human SBP2, we identified an additional RNA binding domain that is essential for SECIS and 60S ribosomal subunit binding, and also enables SECIS structure selectivity. In addition, computational and biophysical analyses established that SBP2 is globally unfolded, supporting our hypothesis that SBP2 is an Intrinsically Disordered Protein and becomes folded in the presence of partners yet to be identified. Finally, we searched for potential partners of SBP2 and our results showed that the molecular assembly of selenoprotein mRNPs has many similarities with that of sn/snoRNPs
Mendez, Giraldez Raul. "Critical assessment of predicted interactions at atomic resolution." Doctoral thesis, Universite Libre de Bruxelles, 2007. http://hdl.handle.net/2013/ULB-DIPOT:oai:dipot.ulb.ac.be:2013/210664.
Повний текст джерелаThe main subject of this thesis is the evaluation of current available computational methods to predict protein – protein interactions and build an atomic model of the complex. The core of the thesis is the evaluation protocol I have developed at Service de Conformation des Macromolécules Biologiques et de Bioinformatique, Université Libre de Bruxelles, and its computer implementation. This method has been massively used to evaluate the results on blind protein – protein interaction prediction in the context of the world-wide experiment CAPRI, which have been thoroughly reviewed in several publications [1-3]. In this experiment the structure of a protein complex (‘the target’) had to be modeled starting from the coordinates of the isolated molecules, prior to the release of the structure of the complex (this is commonly referred as ‘docking’).
The assessment protocol let us compute some parameters to rank docking models according to their quality, into 3 main categories: ‘Highly Accurate’, ‘Medium Accurate’, ‘Acceptable’ and ‘Incorrect’. The efficiency of our evaluation and ranking is clearly shown, even for borderline cases between categories. The correlation of the ranking parameters is analyzed further. In the same section where the evaluation protocol is presented, the ranking participants give to their predictions is also studied, since often, good solutions are not easily recognized among the pool of computer generated decoys.
An overview of the CAPRI results made per target structure and per participant regarding the computational method they used and the difficulty of the complex. Also in CAPRI there is a new ongoing experiment about scoring previously and anonymously generated models by other participants (the ‘Scoring’ experiment). Its promising results are also analyzed, in respect of the original CAPRI experiment. The Scoring experiment was a step towards the use of combine methods to predict the structure of protein – protein complexes. We discuss here its possible application to predict the structure of protein complexes, from a clustering study on the different results.
In the last chapter of the thesis, I present the preliminary results of an ongoing study on the conformational changes in protein structures upon complexation, as those rearrangements pose serious limitations to current computational methods predicting the structure protein complexes. Protein structures are classified according to the magnitude of its conformational re-arrangement and the involvement of interfaces and particular secondary structure elements is discussed. At the end of the chapter, some guidelines and future work is proposed to complete the survey.
Doctorat en Sciences
info:eu-repo/semantics/nonPublished
Armaos, Alexandros 1989. "Computational characterization of protein-RNA interactions and implications for phase separation." Doctoral thesis, Universitat Pompeu Fabra, 2020. http://hdl.handle.net/10803/668546.
Повний текст джерелаA pesar de lo que se consideraba anteriormente, el papel del ARN no es solo transportar la información genética del ADN a las proteínas. De hecho, el ARN ha demostrado estar implicado en muchos procesos celulares más complejos. La evidencia reciente sugiere que los transcriptos tienen un papel regulador en la expresión génica y contribuyen a la organización espacial y temporal del entorno intracelular. Lo hacen interactuando con proteínas de unión a ARN (RBP) para formar redes complejas de ribonucleoproteína (RNP), sin embargo, los determinantes clave que rigen la formación de estos complejos aún no se conocen bien. En este trabajo, describiré algoritmos que he desarrollado para estimar la capacidad de los ARN de interactuar con las proteínas. Además, ilustraré aplicaciones de métodos computacionales para proponer una maquinaria alternativa para el Xist lncRNA y su red de interacciones. Finalmente, mostraré cómo las predicciones computacionales pueden integrarse con enfoques de alto rendimiento para dilucidar la relación entre la estructura del ARN y su capacidad para interactuar con las proteínas. Concluyo discutiendo preguntas abiertas y oportunidades futuras para el análisis computacional de la red reguladora de la célula. En general, el objetivo subyacente de mi trabajo es proporcionar a los biólogos nuevas ideas sobre la asociación funcional entre ARN y proteínas, así como herramientas sofisticadas que facilitarán su investigación sobre la formación de complejos RNP.
Lindenbaum, Pierre. "Roxan, une nouvelle proteine cellulaire interagissant avec la proteine non-structurale nsp3 du rotavirus : clonelt* : un programme en ligne trouvant des strategies de clonage (doctorat : microbiologie)." Paris 11, 2000. http://www.theses.fr/2000PA114811.
Повний текст джерелаChernov, Konstantin Grigorievich. "Interplay of YB-1 between tubulin and mRNA." Thesis, Evry-Val d'Essonne, 2008. http://www.theses.fr/2008EVRY0040/document.
Повний текст джерелаYB-1 is a major regulator of gene expression in eukaryotic cells. In addition to its role in transcription, YB-1 plays a key role in translation and stabilization of mRNAs. We identify several novels YB-1 protein partners by affinity chromatography of different tissue extracts. We observed that YB-1 interacts with tubulin and microtubules and stimulates microtubule assembly in vitro. Microtubules assembled in the presence of YB-1 exhibited a normal single wall ultrastructure where YB-1 probably coats the outer microtubule wall. Furthermore, we found that YB-1 also promotes the assembly of MAPs-tubulin and subtilisin-treated tubulin. Additionally, we demonstrated that tubulin interferes with mRNA:YB-1 complexes. These results suggest that YB-1 may regulate microtubule assembly in vivo and that its interaction with tubulin may contribute to the control of mRNA translation. The translational status of mRNPs in vivo depends on amount of YB-1 associated with mRNA. We show here that at low YB-1:mRNA ratios mRNP complexes possess an incompact structures, whereas saturated mRNPs are compact. This structural change corresponds to translation inhibition when mRNA moves from polysomal (translatable) to free (untranslatable) mRNPs. Saturated mRNPs bind to microtubules via protein:protein interactions and tend to self-aggregate on microtubule surface. This property could contribute to stress granule formation, mRNPs traffic and localization of translation apparatus within cytoplasm. Finally, the facilitated diffusion model was developed to explain enhancement of microtubule assembly by positively charged natural polyamines in living cells. Altogether our data contribute to the understanding of fundamental biological processes
PARK, YOUNG CHUL. "Stabilite d'une proteine dimerique complexe : la tyrosyl-arnt synthetase." Paris 7, 1998. http://www.theses.fr/1998PA077266.
Повний текст джерелаLe, Borgne Maïlys. "Étude in vivo de la fonction biologique de la protéine de liaison aux ARN Mex-3B." Thesis, Lyon 1, 2012. http://www.theses.fr/2012LYO10141.
Повний текст джерелаThe RNA binding-protein MEX-3 is a post-transcriptional regulator involved in early embryogenesis of the nematode Caenorhabditis elegans. We have recently reported the characterization of a novel family of four mammalian genes homologous to hMex-3 (called hMex-3A, 3B, 3C and 3D). To gain insight into the biological functions of these proteins in vivo, we disrupted the Mex-3B gene in mice. Using this experimental approach, we found that Mex-3B is as a major regulator of spermatogenesis. We observed that male Mex-3B null mice hypofertile and present an obstruction of seminiferous epithelium. Phagocytic properties of Sertoli cells were impaired, thus impeding the clearance of residual bodies released during spermiogenesis. Exploration of the underlying molecular mechanisms revealed that Mex-3B regulates phagocytosis through the activation and the transport at the peripheral membrane of Rap1GAP, a protein that downregulates the small G protein Rap1. Consistently, the Rap1-dependent recruitment of the junction proteins, connexin 43 and N-Cadherin at the cell surface was compromised in Mex-3B deficient mice. In conclusion, my work highlights a key role gor Mex-3B in the spatial control of Rap1 signaling during spermatogenesis
Karlikow, Margot. "Drosophila CG4572 protein and the spread of the RNAi antiviral immune signal." Thesis, Paris 6, 2015. http://www.theses.fr/2015PA066713/document.
Повний текст джерелаDuring viral infection, cell survival will depend on adequately giving, receiving and processing information to establish an efficient antiviral immune response. Cellular communication is therefore essential to allow the propagation of immune signals that will confer protection to the entire organism.The major antiviral defense in insects is the RNA interference (RNAi) mechanism that is activated by detection of viral double-stranded RNA (dsRNA). The antiviral RNAi mechanism can be divided in cell- and non-cell- autonomous. In cell-autonomous RNAi, the silencing process is limited to the cell in which the viral dsRNA is produced. In non-cell-autonomous (systemic) RNAi, the interfering effect occurs in cells different from where the viral dsRNA was produced. In insects the systemic RNAi response remains poorly characterized. My PhD explores the role of the Drosophila CG4572/DORA protein in the establishment of systemic antiviral RNAi. It also investigates the nature of immune signals that trigger the antiviral response. I provide evidence for the existence of two different mechanisms of cell-cell communication that allow the spread of the immune signal: extracellular vesicles and tunneling nanotubes. I describe that DORA-positive extracellular vesicles carry fragments of viral RNAs that can spread and confer specific antiviral protection in flies. I also present the characterization of tunneling nanotubes (TNTs) containing components of the RNAi machinery, DORA and dsRNA and I hypothesize on the use of TNTs in the spread of the immune signal.Both mechanisms of cell-to-cell communication are coupled for the first time to the antiviral response in Drosophila melanogaster
Dodds, Anna Louise. "Functional analysis of a major nitrogen regulatory protein : AREA of Aspergillus nidulans." Thesis, University of Newcastle Upon Tyne, 2000. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.311142.
Повний текст джерелаMendler, Claudia Theresa [Verfasser], Arne [Akademischer Betreuer] [Gutachter] Skerra, and Markus [Gutachter] Schwaiger. "Protein-Engineering für die In-Vivo-Bildgebung / Claudia Theresa Mendler ; Gutachter: Markus Schwaiger, Arne Skerra ; Betreuer: Arne Skerra." München : Universitätsbibliothek der TU München, 2017. http://d-nb.info/1129874621/34.
Повний текст джерелаChant, Alan. "Characterisation of the domain structure of the gene regulatory protein AreA from Aspergillus nidulans." Thesis, University of Portsmouth, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.369475.
Повний текст джерелаManival, Xavier. "Etude fonctionnelle et structurale de l'interaction de la protéine antiterminatrice SacY avec son ARN cible chez Bacillus subtilis : mise en évidence d'un nouveau type de domaine protéique de liaison à l'ARN." Montpellier 1, 1997. http://www.theses.fr/1997MON1T010.
Повний текст джерелаNguyen, Chi Mai. "Post-transcriptional regulation during spermatogenesis : Role of the RNA-binding protein hu." Toulouse 3, 2008. http://thesesups.ups-tlse.fr/365/.
Повний текст джерелаSpermatogenesis, the elaborate process by which sperm are produced, is marked by dramatic proliferation and differentiation. During the late steps of spermatogenesis, transcription suddenly ceases prior the end of differentiation, because of drastic epigenetic modifications that result in chromatin compaction. Thus, haploid germ cells make use of extensive temporal mRNA storage and translation regulation to ensure stage-specific protein synthesis. Factors and cellular compartments involved in these post-transcriptional controls are still poorly understood. During my PhD, I hypothesized that the two RNA binding proteins HuR/ELAVL1 and AUF1/hnRNP D, might play a role in these controls. They bind AU-rich element-containing mRNAs (ARE-mRNAs) in somatic cells and regulate their stability and translation: HuR protects ARE-mRNAs from degradation and favours their translation, whereas AUF1 usually induces their degradation. First, to investigate the contribution of HuR and AUF1 to the post-transcriptional mechanisms occurring in germ cells, I used transgenic mice derived in our laboratory overexpressing HuR (HuRtg) and AUF1 (AUF1tg) in their testes. Strikingly, whereas spermatogenesis proceeded normally in AUF1tg mice, HuR overexpression impaired spermatogenesis, revealing the importance of a regulated expression of HuR to fulfill male germ cell differentiation. The comparative analysis of AU-transcriptome of pre-pubertal wild type testes with that of HuRtg and AUF1tg testes, combined with computational analyses and RNA/Protein immunoprecipitation experiments, revealed that these two proteins regulate different targets mRNAs and thus exhibit different activities. .
Ribeiro, Diogo. "Discovery of the role of protein-RNA interactions in protein multifunctionality and cellular complexity." Thesis, Aix-Marseille, 2018. http://www.theses.fr/2018AIXM0449/document.
Повний текст джерелаOver time, life has evolved to produce remarkably complex organisms. To cope with this complexity, organisms have evolved a plethora of regulatory mechanisms. For instance, thousands of long non-coding RNAs (lncRNAs) are transcribed by mammalian genomes, presumably expanding their regulatory capacity. An emerging concept is that lncRNAs can serve as protein scaffolds, bringing proteins in proximity, but the prevalence of this mechanism is yet to be demonstrated. In addition, for every messenger RNA encoding a protein, regulatory 3’ untranslated regions (3’UTRs) are also present. Recently, 3’UTRs were shown to form protein complexes during translation, affecting the function of the protein under synthesis. However, the extent and importance of these 3’UTR-protein complexes in cells remains to be assessed.This thesis aims to systematically discover and provide insights into two ill-known regulatory mechanisms involving the non-coding portion of the human transcriptome. Concretely, the assembly of protein complexes promoted by lncRNAs and 3’UTRs is investigated using large-scale datasets of protein-protein and protein-RNA interactions. This enabled to (i) predict hundreds of lncRNAs as possible scaffolding molecules for more than half of the known protein complexes, as well as (ii) infer more than a thousand distinct 3’UTR-protein complexes, including cases likely to post-translationally regulate moonlighting proteins, proteins that perform multiple unrelated functions. These results indicate that a high proportion of lncRNAs and 3’UTRs may be employed in regulating protein function, potentially playing a role both as regulators and as components of complexity
Falcon, de Longevialle Alexis. "Identification des protéines PPR impliquées dans l'épissage des ARN messagers dans les chloroplastes et les mitochondries chez Arabidopsis Thaliana." Thesis, Evry-Val d'Essonne, 2010. http://www.theses.fr/2010EVRY0015.
Повний текст джерелаThe RNA splicing mechanism in organelles is described to be ancestral to that of the nuclear spliceosome. However, whereas this last complex is well known, only very few splicing factors have been identified and characterized in chloroplasts and mitochondria. Many RNA binding proteins have acquired roles in RNA splicing, and indeed a variety of often unrelated RNA binding proteins have essential functions in splicing of many plastid introns in plants, with varying degrees of specificity. The largest family of RNA binding proteins in plant organelles is the pentatricopeptide repeat (PPR) family. PPR proteins are involved in diverse post-transcriptional processes in organelles. In 2006, among hundreds of higher plant proteins of this family, only one was described as being required for a splicing event - PPR4 was shown to be absolutely and specifically required for the trans-splicing of the rps12 intron 1 in plastids (Schmitz-Linneweber et al., 2006). The main purpose of this PhD thesis was to characterize other PPR proteins involved in this process. By using a reverse genetics approach and by developing tools for the detection of splicing defects, seven new PPR proteins involved in RNA splicing of a subset of chloroplast or mitochondria introns have been characterized. In parallel, in order to characterize proteins involved in PPR-containing complexes, a TAP-TAG approach has been carried out on a few PPR proteins involved in splicing or editing of organellar RNA. The identification of partner proteins of 3 PPR proteins allows us to draw new mechanistic models and new hypotheses. Finally, the final part of the manuscript describes the discovery of splicing isoforms of PPR-encoding mRNAs. Alternative splicing may be involved in regulation of PPR gene expression and/or in increasing the diversity of the PPR protein family
Cirillo, Davide. "Prediction of protein and nucleic acid interactions." Doctoral thesis, Universitat Pompeu Fabra, 2016. http://hdl.handle.net/10803/403537.
Повний текст джерелаMis estudios de doctorado han tenido como propósito principal el desarrollo de herramientas bioinformáticas para la evaluación de interacciones entre proteínas y ácidos nucleicos (ANs) de forma cuantitativa. Por consiguiente, esta tesis apunta a proporcionar conocimientos sobre características moleculares y mecanismos de asociación proteína-AN aún relativamente desconocidos; concretamente, la asociación de proteínas a ARNs y ARNs no codificantes, a la vez que factores de transcripción y elementos de regulación del ADN. En este proyecto presento dos algoritmos: catRAPIDomics express y PAnDA, cuyas finalidades son las de predecir interacciones proteína-ARN y proteína-ADN respectivamente. Dichos métodos computacionales ofrecen la posibilidad de abordar problemas experimentales, así como de guiar el diseño y procedimiento de nuevas estrategias para su resolución.
Mason, Aaron Charles. "Functional analysis of an alternative Replication Protein A complex containing RPA4." Diss., University of Iowa, 2010. https://ir.uiowa.edu/etd/1020.
Повний текст джерелаYavrom, Sheena. "Evidence that ARNT plays a role in the regulation of the immunoglobulin heavy chain enhancer and identification of a putative ARNT ligand." Scholarly Commons, 1998. https://scholarlycommons.pacific.edu/uop_etds/516.
Повний текст джерелаHolla, Andrea Dorothee [Verfasser], Arne [Akademischer Betreuer] Skerra, and Dirk [Akademischer Betreuer] Haller. "Protein-Engineering eines Anticalins mit Bindungsspezifität für DC-SIGN / Andrea Dorothee Holla. Gutachter: Arne Skerra ; Dirk Haller. Betreuer: Arne Skerra." München : Universitätsbibliothek der TU München, 2012. http://d-nb.info/1031075763/34.
Повний текст джерелаSerfiotis-Mitsa, Dimitra. "Biophysical and structural studies of the antirestriction proteins ArdA and KlcA." Thesis, University of Edinburgh, 2009. http://hdl.handle.net/1842/4358.
Повний текст джерелаCid, Samper Fernando 1991. "Computational approaches to characterize RNP granules." Doctoral thesis, Universitat Pompeu Fabra, 2020. http://hdl.handle.net/10803/668449.
Повний текст джерелаLos gránulos ribonucleoproteicos (gránulos RNP, por sus siglas en inglés) son complejos producidos mediante separación líquido-líquido y están constituidos principalmente por proteínas y ARN. Son responsables de numerosos procesos involucrados con la regulación del ARN. Alteraciones en la dinámica de estos complejos de proteínas y ARN están asociadas con la aparición de diversas enfermedades neurodegenerativas como el ELA o FXTAS. Sin embargo, todavía se desconocen muchos aspectos relativos a su organización interna así como las contribuciones específicas del RNA en la formación y funcionamiento de estos complejos. A fin de estudiar la estructura y formación de los gránulos RNP, hemos integrado varias bases de datos de alto rendimiento de reciente aparición. Esto incluye datos sobre la composición proteica y en ARN de los RNP, sobre la interacción de proteínas y ARN extraída de experimentos de eCLIP y sobre la estructura secundaria del transcriptoma (producida mediante PARS). Todos estos datos han sido procesados para comprender las propiedades fundamentales de los ARNs que integran los gránulos, mediante el empleo de métodos computacionales como el análisis de redes o algoritmos de agrupamiento. De esta manera, hemos producido un modelo que integra varias de estas propiedades e identifica candidatos denominados ARNs de andamiaje. Definimos ARNs de andamiaje como moléculas de ARN con una alta propensión a formar gránulos y reclutar un gran número de componentes proteicos a los gránulos RNP. También hemos encontrado que las interacciones proteína-ARN conectan los principales componentes proteicos de consenso de los gránulos de estrés (un tipo específico de gránulos RNP). También hemos estudiado la contribución de las interacciones ARN-ARN y las modificaciones post-transcriptionales del RNA en la organización interna del gránulo. Hemos aplicado estos resultados para la comprensión de la fisiopatología molecular de FXTAS, empleando también algunos datos experimentales originales. En FXTAS, una mutación en el gen FMR1 produce una repetición de microsatélite en 5´ que incrementa su capacidad como ARN de andamiaje. Este mARN mutado es capaz de secuestrar algunas proteínas importantes como TRA2A (un factor de ayuste alternativo) en gránulos RNP nucleares, impidiendo su normal funcionamiento y por consiguiente produciendo algunos síntomas asociados con el progreso de la enfermedad. Una mejor comprensión de los principios que gobiernan la formación y estructura de los gránulos puede permitir desarrollar nuevas terapias (ej: aptámeros) para mitigar el desarrollo de diversas enfermedades neurodegenerativas.
Christians, Arne [Verfasser], and Stefan [Akademischer Betreuer] Wiemann. "Funktionelle Charakterisierung des putativen Tumorsuppressors "Epithelial Membrane Protein 3" / Arne Christians ; Betreuer: Stefan Wiemann." Heidelberg : Universitätsbibliothek Heidelberg, 2014. http://d-nb.info/1180300955/34.
Повний текст джерелаRall, Nils Arne [Verfasser], Heinz [Akademischer Betreuer] Neumann, and Henning [Akademischer Betreuer] Urlaub. "A Method for the Quantitative Analysis of Protein-Protein Interactions In Vivo / Nils Arne Rall. Betreuer: Heinz Neumann. Gutachter: Heinz Neumann ; Henning Urlaub." Göttingen : Niedersächsische Staats- und Universitätsbibliothek Göttingen, 2016. http://d-nb.info/1096752069/34.
Повний текст джерелаStefani, Arno Gert [Verfasser], and Johannes [Gutachter] Huber. "Nonparametric and Nonasymptotic Confidence Intervals for Estimation of Mutual Information with Applications in Protein-Protein Docking Analysis / Arno Gert Stefani ; Gutachter: Johannes Huber." Erlangen : Friedrich-Alexander-Universität Erlangen-Nürnberg (FAU), 2018. http://d-nb.info/115500616X/34.
Повний текст джерелаMayer, Jan-Peter Andreas [Verfasser], Arne [Akademischer Betreuer] Skerra, Wolfgang [Akademischer Betreuer] Liebl, and Bernhard [Akademischer Betreuer] Küster. "Rationales und kombinatorisches Protein-Engineering mit Lipocalinen / Jan-Peter Andreas Mayer. Gutachter: Wolfgang Liebl ; Arne Skerra ; Bernhard Küster. Betreuer: Arne Skerra." München : Universitätsbibliothek der TU München, 2013. http://d-nb.info/1036262170/34.
Повний текст джерелаFichera, Claudia Annunziata. "Building a ¦Â-structured artificial pore-forming protein by PA83 Bacillus anthracis toxin." Doctoral thesis, Università di Catania, 2014. http://hdl.handle.net/10761/1573.
Повний текст джерелаBelfiore, Ramona. "Protein Misfolding and Aggregation in Neurodegeneration: In Vitro And In Vivo Study Cases." Doctoral thesis, Università di Catania, 2018. http://hdl.handle.net/10761/4178.
Повний текст джерелаBourdeau-Julien, Isabelle. "ALS-associated RNA-binding protein FUS and mRNA translation regulation." Master's thesis, Université Laval, 2020. http://hdl.handle.net/20.500.11794/68742.
Повний текст джерелаMutations in several genes have been linked to amyotrophic lateral sclerosis (ALS),particularly in the gene coding for the Fused in Sarcoma protein (FUS). Those mutations are found in the part encoding for the nuclear localization signal, making the protein abnormallyabundant in the cytoplasm. Combined with other observations, it suggests that a toxic gainof function of FUS in the cytoplasm would be the cause of the neurodegeneration. ALS is a neurodegenerative disease that affects motor neurons and causes progressive paralysis. The molecular mechanisms causing the disease are still unknown. One of the hypotheses is the disruption of local translation of mRNAs, which allows synapses to respond quickly and independently from the cell body. Insufficient local translation to support long-term synapticactivity would lead to synaptic loss and neurodegeneration. Thereby, the objective of mystudy is to determine the role of FUS in the regulation of mRNA translation by characterizing its interaction with translational components and evaluate its function in an ALS-linked condition. I have shown that FUS is associated with stalled polyribosomes, which suggests that it plays a role in regulating mRNA translation by interacting with the core of translation.There is also an increase in the presence of FUS in the cytoplasm and in its interaction with polyribosomes following inhibition of translation through mTOR, suggesting its role as anegative regulator. In addition, ALS-related mutations amplify FUS inhibitory function bymaking FUS cytoplasmic and reducing protein synthesis. My results show that the FUSprotein would have a role as a translation inhibitor when it is cytoplasmic. There fore, increasing the presence of FUS in the cytoplasm in ALS would result in significant translation inhibition, at a level insufficient to support synaptic activity.
Konji, Sandra. "Gestational and Postnatal Exposure to a Contaminant Mixture: Effects on Estrogen Receptor Protein Expression In the Postpartum Maternal Brain." Thesis, Université d'Ottawa / University of Ottawa, 2019. http://hdl.handle.net/10393/38792.
Повний текст джерелаSharma, Kamal Kant. "Molecular mechanism of the hepatitis C virus core protein chaperone properties : Physicochemical investigation by fluorescence and surface plasmon resonance." Strasbourg, 2011. https://publication-theses.unistra.fr/public/theses_doctorat/2011/SHARMA_Kamal_Kant_2011.pdf.
Повний текст джерелаOpen reading frame (ORF) of 9. 6kb HCV genomic RNA encodes at least 10 proteins, 4 structural and 6 non-structural, during translation process. The core is one of those 4 structural proteins and considered as a multifunctional chaperone involving in several viral processes like cell proliferation, differentiation, RNA packaging, nucleocapsid formation and recombinant genetic variability. With the virtue of its chaperone properties, Domain D1 dimerises the 3’ untranslated region (3’ UTR) of the genomic RNA. However, the mechanism of the core chaperone activity in the dimerisation of the genomic RNA and in binding with its target nucleic acids are still unknown and were investigated in this present project. To reach this objective, we used fluorescence and surface plasmon resonance (SPR) techniques. By using the native D1 domain and peptides derived from this domain, we first characterized the binding parameters and the conformational changes associated with the binding of these peptides to the native and mutated sequences from HCV 3’ UTR sequences. Next, we investigated the destabilization of model and HCV ODNs secondary structure by the D1 domain and its mutants and found that core peptides only marginally destabilise the secondary structures of ODNs. In a last step, we described the molecular mechanisms of the core chaperone properties based on the hybridization kinetics of various HCV and model oligonucleotides. These chaperone properties of core are thought to intervene in processes like the encapsidation, the synthesis of the complementary strand of the genomic RNA and the recombination mechanisms participating to the genetic variability of the virus
Pintard, Lionel. "Spb1p est une méthylase de levure impliquée dans la maturation des ARNr." Montpellier 1, 2000. http://www.theses.fr/2000MON1T019.
Повний текст джерелаOrelle, Béatrice. "Pancreatitis associated protein (PAP) : clonage, séquençage et expression de l'ARN messager chez le rat et l'homme." Lyon 1, 1991. http://www.theses.fr/1991LYO10069.
Повний текст джерелаKirchner, Christian Oliver [Verfasser], Arne [Akademischer Betreuer] [Gutachter] Skerra, and Wolfgang [Gutachter] Liebl. "Protein-Engineering eines Anticalins mit Bindungsspezifität für das Anthrazyklin-Zytostatikum Doxorubicin / Christian Oliver Kirchner. Betreuer: Arne Skerra. Gutachter: Wolfgang Liebl ; Arne Skerra." München : Universitätsbibliothek der TU München, 2016. http://d-nb.info/1113181958/34.
Повний текст джерелаSessa, Gaetana. "Role of the Interaction of BRCA2 and DDX5 in the DNA Damage Response BRCA2 promotes DNA-RNA hybrid resolution by DDX5 at DNA double strand breaks to facilitate homologous recombination Proper chromosome alignment depends on BRCA2 phosphorylation by PLK1." Thesis, université Paris-Saclay, 2020. http://www.theses.fr/2020UPASS116.
Повний текст джерелаIncreasing evidence support the idea that proteins involved in RNA metabolism such as RNA binding proteins (RBPs) and RNA helicases are directly implicated in the DNA damage response (DDR). This activity is generally achieved through their interaction with DNA repair factors.BRCA2 is a tumor suppressor protein that plays an important role in the repair of DNA double-strand breaks (DSBs) by homologous recombination (HR) as well as protecting stalled replication forks from unscheduled degradation; therefore, it is essential to maintain genome integrity. Interestingly, BRCA2 deficient cells accumulate DNA-RNA hybrids or R-loops, a known source of DNA damage and genome instability, providing evidence for its role in either R-loop prevention or processing. However, the specific role of BRCA2 on these structures remains poorly understood.A mass spectrometry screen to identify partners of BRCA2 performed in our laboratory revealed an enrichment of proteins involved in RNA metabolism such as RNA helicases. These findings led us to investigate whether BRCA2 could cooperate with these candidate interacting RNA helicases in processing DNA-RNA structures. First, we confirmed the interaction of BRCA2 and the DEAD-box RNA helicase DDX5, which we found is enhanced in cells exposed to -irradiation. Then, we narrowed down the interaction to the first 250 aa of BRCA2 (BRCA2T1) and found that it is direct using purified proteins. In collaboration with A. Aguilera lab (Cabimer, SP), we could show that depletion of DDX5 leads to a genome-wide accumulation of DNA-RNA hybrids that is particularly enriched at DNA damage sites. DDX5 associates with DNA-RNA hybrids that form in the vicinity of DSBs. Interestingly, we found that BRCA2 is important for the retention of DDX5 at laser irradiation-induced DNA damage. Notably, in vitro R-loop unwinding assays using purified DDX5 and BRCA2 proteins revealed that BRCA2 stimulates the R-loop helicase activity of DDX5.A breast cancer variant of unknown clinical significance (VUS) located in BRCA2T1 (T207A) reduced the interaction between BRCA2 and DDX5 and led to the accumulation of DNA-RNA hybrids. Cells stably expressing BRCA2-T207A also showed a decreased association of DDX5 with DNA-RNA hybrids, especially upon irradiation. Notably, monitoring RAD51 foci to evaluate HR-mediated DSBs repair efficiency in either DDX5-depleted cells or in BRCA2-T207A cells resulted in a delayed kinetics of appearance of RAD51 foci upon irradiation suggesting an active role of BRCA2-DDX5 interaction in ensuring timely HR repair. In agreement with this, overexpression of the RNAseH1 ribonuclease, that specifically degrades the RNA moiety in DNA-RNA structures, partially restored RAD51 kinetics phenotype of BRCA2-T207A cells. Moreover, cells bearing BRCA2-T207A variant also showed a reduced number of RPA foci compared to BRCA2 WT expressing cells, a step that precedes RAD51 loading at DSBs.Taken together, our results are consistent with DNA-RNA hybrids being an impediment for the repair of DSBs by HR and reveal BRCA2 and DDX5 as active players in their removal
Soicke, Arne [Verfasser]. "Stereoselektive Synthese neuartiger Prolin- und Pseudoprolin-Dipeptidmimetika zur Modulation von Peptid-Protein-Wechselwirkungen / Arne Soicke." München : Verlag Dr. Hut, 2014. http://d-nb.info/1067707913/34.
Повний текст джерелаReynolds, Lindsey. "DNA binding and structural studies of truncated forms of the AreA protein from Aspergillus nidulans." Thesis, University of Portsmouth, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.264456.
Повний текст джерелаFournier, Cécile. "Caractérisation de la fixation de la protéine NEF du virus HIV-1 à l'ARN et mise en évidence de son rôle dans la rétrotranscription." Montpellier 1, 2000. http://www.theses.fr/2000MON1T015.
Повний текст джерелаDi, Battista Maria Elena. "Dementia in Parkinson s Disease: relationship between clinical and neurobiological aspects." Doctoral thesis, Università di Catania, 2015. http://hdl.handle.net/10761/3836.
Повний текст джерелаBESSE, LAURENT. "Mise au point d'un reactif chimique permettant l'etude des interactions proteine-proteine. Application aux arn polymerases de levure." Paris 11, 1996. http://www.theses.fr/1996PA112232.
Повний текст джерелаCollet, Axelle. "Caractérisation des enzymes de formation de la coiffe du virus du Nil Occidental et du métapneumovirus humain." Thesis, Aix-Marseille, 2015. http://www.theses.fr/2015AIXM4087.
Повний текст джерелаMy PhD project is focus on the study of the enzymatic activities involved in the RNA capping pathway of two RNA viruses: the West Nile Virus (WNV) and the human metapneumovirus (hMPV). These viruses encode for enzymes allowing the addition of a cap-1 structure (m7GpppN2’Om) to their mRNA 5’ ends. The NS5 N-terminal domain (NS5MTase) of WNV harbours the N7- and 2’O-methyltransferase activities (N7- and 2’O-MTase); and it has been proposed that NS5MTase also bears a guanylyltransferase activity (GTase). I have identified residues involved in the NS5MTase interaction sites with their RNAs substrate. My assays demonstrate the importance of the cap-binding site for the 2’O-methylation but not for the N7-methylation. In parallel, I have tried to identify putative catalytic residues of the GTase activity by reverse genetics. Preliminary results suggest that NS5MTase K29 could be a catalytic residue.Concerning hMPV, I performed a functional analysis of CR-VI+ domain of the protein L. I demonstrated that the CR-VI+ domain harbours the N7- and 2’O-MTase activities and identified the residues involved in the mRNA recruitment. I showed that the methylation order is not canonical with the 2’O-methylation preceding the N7-methylation. Finally, I showed that the domain harbours an additional GTP hydrolysis activity, representing the first step of RNA cap formation for Mononegavirales.This work demonstrates that this MTase domains harbour 2 or 3 of the enzymatic activities required for viral RNA cap synthesis and represent attractive targets for the development of antivirals
Barkovskiy, Mikhail [Verfasser], Arne [Akademischer Betreuer] Skerra, Arne [Gutachter] Skerra, and Kay H. [Gutachter] Schneitz. "Protein design of hapten-specific Anticalins as therapeutic antidotes and biochemical reagents / Mikhail Barkovskiy ; Gutachter: Arne Skerra, Kay H. Schneitz ; Betreuer: Arne Skerra." München : Universitätsbibliothek der TU München, 2020. http://d-nb.info/1216626367/34.
Повний текст джерелаCarlton, Morgan. "Saliva biomarkers for physical healing and psychological wellbeing in paediatric small area thermal burns." Thesis, Queensland University of Technology, 2022. https://eprints.qut.edu.au/228564/8/Morgan%20Carlton%20Thesis.pdf.
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