The chloride intracellular channel (CLIC) family of proteins are an unusual class of chloride channels that possess the ability to auto-insert into cellular membranes. The CLICs exhibit ubiquitous tissue and cellular distributions and adopt a glutathione S-transferase fold in the soluble form that is highly conserved in vertebrates. CLIC homologues have been identified in the model organisms C. elegans and D. melanogaster, and in the former case have been extensively characterised in regards to function. In this thesis, we present the crystal structure of the D. melanogaster CLIC, revealing several unique features in the conserved invertebrate CLIC fold including an elongated C-terminal extension and metal binding site. The bound metal is identified as the potassium cation, resolving concerns regarding previously published work that assign the metal as the isoelectronic calcium cation. It has been reported that a human CLIC protein, CLIC4, translocates to the nucleus in response to cellular stress, facilitated by a putative CLIC4 nuclear localisation signal (NLS). The CLIC4 NLS adopts α-helical structure in the native CLIC4 structural fold. It is proposed that CLIC4 is transported to the nucleus via the classical nuclear import pathway after binding the import receptor, importin-α. We have determined the X-ray crystal structure of a truncated form of importin-α bound to a CLIC4 NLS bearing peptide. The NLS peptide binds the major binding site in an extended conformation similar to that observed for the classical SV40 large T-antigen NLS. A tyrosine residue within the CLIC4 NLS makes surprisingly favourable interactions by forming side chain hydrogen bonds to the importin-α backbone. This structural evidence supports the hypothesis that CLIC4 translocation to the nucleus is governed by the importin-α nuclear import pathway, providing it can undergo a conformational rearrangement that exposes the NLS in an extended conformation. We further analyse importin-α:NLS binding interactions by solving high resolution structures of truncated importin-α containing an empty binding site and bound to the SV40 NLS. A surprising interaction is discovered between importin-α and an NLS-like motif in the endogenous E. coli 30S ribosomal subunit S21, revealing new insight into importin-α recognition of full length cargo.

Thesis advisor: Junona Moroianu / Human papillomaviruses (HPVs) are the most common sexually transmitted infection in the United States. High risk HPV types, including HPV 16, can cause cervical carcinomas upon infecting squamous basal epithelial cells. The HPV E2 protein is a multifunctional protein that regulates viral DNA replication and expression of a large number of cellular and viral genes, including the E6 and E7 viral oncogenes. Previous research in the Moroianu lab has identified a novel alpha-helical nuclear localization signal (NLS) in the C-terminal domain of HPV 16 E2 protein (75). Here, we focused on continuing the dissection of the HPV 16 E2 NLS and on identification of the nuclear import mechanism used by this protein. We identified several residues in the C-terminal domain of HPV 16 E2 (327KHK329) and within the NLS (K299, C300) that enhance the function of the NLS. Additionally, we determined that dimerization of the C-terminal domain plays an important role in the nuclear import of HPV 16 E2 as a mutation that disrupted it led to a significant decrease in the nuclear localization of the protein. We discovered that importin 11 karyopherin is a nuclear import receptor for HPV 16 E2. Our data suggest a nuclear import mechanism for HPV 16 E2 whereby UbcM2/UBE2E3 E2-type ubiquitin-conjugating enzyme acts as an adapter to bind HPV 16 E2 to importin 11 karyopherin for its nuclear import. This is a previously undescribed nuclear import mechanism which may have implications for the control of HPV 16 E2 functions. / Thesis (PhD) — Boston College, 2014. / Submitted to: Boston College. Graduate School of Arts and Sciences. / Discipline: Biology.

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Dans cette étude, nous avons démontré par des essais de type Pull-Down la capacité de la queue C-terminale du CysLT1 d'interagir in vitro avec les importines [alpha]1, [alpha]4 et [alpha]5. Cette interaction est comparable à celle du NLS de l'antigène grand T du SV40 et du NLS de la nucléoplasmine de Xenopus laevis avec les mêmes importines. Nos études démontrent aussi que les déterminants structuraux de l'interaction ne sont pas limités seulment au NLS: des mutations dirigées contre les résidus-clé qui forment le NLS n'ont pas empêché l'interaction entre la queue C-terminale et les importines. Nos résultats suggèrent que d'autres résidus que ceux qui forment le NLS potentiel sont impliqués dans la liaison avec les importines. Nous avons démontré pour la première fois la phosphorylation in vitro de la queue C-terminale du CysLT1 par la PKA, et que cette phosphorylation peut moduler la capacité d'interaction avec l'importine [alpha]4. Nos travaux visaient aussi l'étude de l'expression cellulaire du récepteur CysLT1 et de son comportement suite à une stimulation au LTD[indice inférieur 4] .--Résumé abrégé par UMI.

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Dengue virus (DENV) is an arthropod-borne virus and has become a worldwide problem with steadily rising annual infection rates. Patients present with a range of symptoms from mild fever to, in some cases, life-threatening hemorrhagic fever and shock syndrome. The most severe cases require emergency hospital care and currently, there is no effective drug treatment or vaccine for dengue. As severe symptoms appear post-peak viremia, immuno-pathology is thought to be the cause and a potential trigger of this is differential activation of the immune response upon recognition of DENV. This could be due to a combination of factors including varying receptors, signalling pathways and immune regulation mechanisms. In order to understand DENV infection better, it is imperative to study the mechanisms of activation and control of immune responses triggered by the virus. Very early events in viral infection (after 10 min stimulation) were studied aiming to identify proteins involved in differential activation of immune responses. Phosphorylated proteins were isolated from cells post-stimulation and analysed by mass spectrometry. More than 200 proteins were differentially regulated by phosphorylation in response to DENV stimulation as compared to Mock, Influenza A virus and LPS stimulation. The effect of two specific proteins, namely Calpain-2 and Importin-5, identified to be differentially phosphorylated was investigated further. Calpain-2 was seen to be vital in the efficient production of progeny virions and the transcription of Mx1, an anti-viral interferon stimulated gene. Importin-5 is known to transport DENV NS5 into the nucleus during infection and was seen to co-precipitate with many host proteins. In summary, it is imperative that novel treatments and vaccines are developed for dengue as it is one of the world’s most prevalent arthropod-borne viruses. It was discovered here that many proteins undergo phosphorylation/de-phosphorylation in response to DENV stimulation to a differing degree than other stimuli. Calpain-2 plays a vital role DENV infection, potentially influencing the potency of immune response. Importin-5 associates with various host proteins during DENV infection, potentially altering their function or the function of Importin-5 itself. Research into targeted inhibition of Calpain-2 function or Importin-5 interaction with DENV NS5 could lead to a successful anti-viral treatment for DENV infection.

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No description available.

Der "klassische" Importweg von Proteinen wie Transkriptionsfaktoren, Kernrezeptoren oder viralen Proteinen in den Zellkern erfolgt in Abhängigkeit der Importine alpha und beta. Während nur ein Importin beta existiert, waren zu Beginn der Arbeiten zwei humane alpha-Importine bekannt. In der vorliegenden Arbeit wird die Identifikation, Klonierung und funktionelle Charakterisierung von vier neuen humanen alpha-Importinen beschrieben. Anhand ihrer Primärstruktur wurden die sechs alpha-Importine in drei Subfamilien unterteilt. Um die Hypothese zu testen, dass die verschiedenen Importin alpha Isoformen spezifische Funktionen ausüben und sich nicht vollständig gegenseitig ersetzen können, wurde zunächst ihre Expression auf RNA- und Proteinebene analysiert. Hier ließen sich differentielle Expressionsmuster in verschiedenen humanen Zellen und Geweben nachweisen. In vitro Analysen mit rekombinant exprimierten und aufgereinigten Proteinen deuteten daraufhin, dass die neu identifizierten Isoformen tatsächliche Importfunktion besitzen, dass sich jedoch die verschiedenen alpha-Importine in ihren Substratspezifitäten unterscheiden. Verschiedene neue Substrate der alpha-Importine wurden identifiziert und deren Importwege im Detail analysiert. Unterschiede in der Regulation der Expression der alpha-Importine in Abhängigkeit von Zellproliferation, Zelldifferenzierung bzw. in unterschiedlichen Diabetesmodellen der Ratte deuteten ebenfalls auf spezifische Funktionen der verschiedenen Isoformen hin. Die spezifische Inhibition der Importin alpha Expression in kultivierten HeLa-Zellen mittels RNA-Interferenz führte bei den meisten Isoformen zu einer ausgeprägten Inhibition der Zellproliferation, wodurch erstmals der Nachweis essentieller Funktionen verschiedener alpha-Importine in lebenden humanen Zellen erbracht wurde. In weiterführenden Experimenten sollen die Ursachen für die Inhibition der Zellproliferation bei Importin alpha-Mangel geklärt und die Bedeutung der unterschiedlichen alpha-Importine in vivo weiter analysiert werden. / The "classical" import of proteins like transcription factors, nuclear receptors or viral proteins into the nucleus depends on importins alpha and beta. While only one importin beta is known, two human alpha-importins had been described. In this study the identification, cloning and functional characterisation of four novel human alpha-importins is reported. Based on their primary structures the human alpha-importins can be grouped into three distinct subfamilies. To test the hypothesis that the various alpha-Importins differ in their specific functions and cannot substitute for each other first their expression at the RNA- and protein levels were analyzed. Differential expression patterns in various human cells and tissues could be demonstrated. In vitro analyses using recombinantly expressed and purified proteins indicated, that the newly identified isoforms posses import functions in deed. However, there was evidence for differences in their substrate specific import efficacies. New substrates of the alpha-importins were identified and their import pathways analyzed in detail. Differences in the expression regulation of the alpha-importins depending on cellular proliferation and differentiation as well as in different rat models of diabetes further pointed towards specific functions of the various alpha-importins. Specific expression inhibition of several isoforms of the importin alpha protein family in cultured HeLa-cells using RNA-interference technology caused a strong inhibition of cellular proliferation. This is the first proof for essential functions of different alpha-importins in living human cells. Future experiments shall identify the mechanisms involved in the cellular proliferation inhibition due to importin a deficiency and further analyze the role of the different alpha-importins in vivo.

Das Borna Disease Virus (BDV, Bornavirus) besitzt ein einzelsträngiges RNA-Genom negativer Polarität und ist innerhalb der Ordnung Mononegavirales der Prototyp einer eigenen Virusfamilie, die der Bornaviridae. Eine außergewöhnliche Eigenschaft des Virus ist seine nukleäre Transkription und Replikation, eine weitere besteht in seiner Fähigkeit, als neurotropes Virus sowohl in vivo als auch in vitro persistente Infektionen zu etablieren. Die zugrunde liegenden Mechanismen sowohl der Replikation als auch der Persistenz sind derzeit noch unzureichend verstanden, auch deshalb, weil das Virus noch relativ „jung“ ist: Erste komplette Sequenzen des RNA-Genoms wurden 1994 publiziert und erst vor einigen Monaten gelang die Generierung rekombinanter Viren auf der Basis klonierter cDNA. Im Mittelpunkt dieser Arbeit standen das p10 Protein und das Phosphoprotein (P), die von der gemeinsamen Transkriptionseinheit II in überlappenden Leserahmen kodiert werden. <br><br> Als im Kern der Wirtszelle replizierendes Virus ist das Bornavirus auf zelluläre Importmechanismen angewiesen, um den Kernimport aller an der Replikation beteiligten viralen Proteine zu gewährleisten. Das p10 Protein ist ein negativer Regulator der viralen RNA-abhängigen RNA-Polymerase (L). In vitro Importexperimente zeigten, dass p10 über den klassischen Importin alpha/beta abhängigen Kernimportweg in den Nukleus transportiert wird. Dies war unerwartet, da p10 kein vorhersagbares klassisches Kernlokalisierungssignal (NLS) besitzt und weist darauf hin, dass der zelluläre Importapparat offensichtlich flexibler ist als allgemein angenommen. Die ersten 20 N-terminalen AS vermitteln sowohl Kernimport als auch die Bindung an den Importrezeptor Importin alpha. Durch Di-Alanin-Austauschmutagenese wurden die für diesen Transportprozess essentiellen AS identifiziert und die Bedeutung hydrophober und polarer AS-Reste demonstriert. <br><br> Die Fähigkeit des Bornavirus, persistente Infektionen zu etablieren, wirft die Frage auf, wie das Virus die zellulären antiviralen Abwehrmechanismen, insbesondere das Typ I Interferon (IFN)-System, unterwandert. Das virale P Protein wurde in dieser Arbeit als potenter Antagonist der IFN-Induktion charakterisiert. Es verhindert die Phosphorylierung des zentralen Transkriptionsfaktors IRF3 durch die zelluläre Kinase TBK1 und somit dessen Aktivierung. Der Befund, dass P mit TBK1 Komplexe bildet und zudem auch als Substrat für die zelluläre Kinase fungiert, erlaubt es, erstmalig einen Mechanismus zu postulieren, in dem ein virales Protein (BDV-P) als putatives TBK1-Pseudosubstrat die IRF3-Aktivierung kompetitiv hemmt. / The Borna Disease Virus (BDV) harbors a single stranded RNA genome of negative polarity. Within the order of Mononegavirales it is the prototype of a new virus family named Bornaviridae. Unique features of this neurotrope virus are its nuclear transcription and replication as well as its ability to establish persistent infections both in vivo and in vitro. The underlying mechanisms of BDV replication and persistence are currently not well understood amongst others due to the fact that BDV is quite a young virus: First complete sequences of the RNA genome have been published in 1994. Only a few months ago the generation of a recombinant Bornavirus from cloned cDNA has been accomplished. <br><br> The work presented here focused on the viral p10 protein and the phosphoprotein P that are both encoded by two overlapping reading frames of the transcription unit II. <br><br> Nuclear replication of the Bornavirus relies on cellular import mechanisms to allow for nuclear import of viral proteins involved in viral replication. The p10 protein has been described as a negative regulator of the viral RNA dependent RNA polymerase (L). In vitro import experiments revealed that p10 translocates into the nucleus via the classical importin alpha/beta; dependent pathway. This was unexpected since p10 does not contain a predictable classical nuclear localization signal (NLS) suggesting that the cellular import machinery is more flexible than generally believed. The first 20 amino acids mediate nuclear import and binding to the import receptor importin alpha. Analysis of di-alanine-exchange mutants identified essential amino acids and furthermore revealed the impact of hydrophobic and polar side chains in receptor binding and nuclear import. <br><br> The ability of the Bornavirus to establish persistent infections rises the question of how the virus circumvents cellular antiviral defense mechanisms, in particular the type I interferon system. This work characterizes the viral P protein as a potent antagonist of IFN beta induction. It prevents the activation of the central transcription factor IRF3 by interfering with the cellular kinase TBK1. The finding that P forms complexes with TBK1 and moreover serves as a kinase substrate allows to postulate a mechanism for the first time, in which a viral protein (BDV-P) acts as a putative TBK1 pseudo-substrate and thereby competitively inhibits IRF3 activation.