Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 14 of 14 for “"ABPs"”.
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Polynomial identity testing of read-once oblivious algebraic branching programs
… (PIT) for algebraic branching programs (ABPs) that are read-once and oblivious. This class has an efficient, deterministic, white-box polynomial identity testing algorithm (due to Raz and Shpilka [RS05]), but prior to this work there was no known such black-box algorithm. The main result …
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Motility-induced phases: out-of-equilibrium droplets, surfaces, and survival
… particles (RTPs) and active Brownian particles (ABPs) break from equilibrium by utilizing their short-time ballistic motion, which becomes diffusive on long timescales. I review some continuum descriptions that provide an effective equilibrium picture of MIPS as well as experimentally engineered …
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A Platform for Analyzing Force Sensitivity and Multivalency in Actin Networks
… filaments and numerous actin binding proteins (ABPs), many of which engage multiple filaments simultaneously to crosslink them into specific functional architectures. Mechanical force has been shown to modulate the interactions between several ABPs and individual actin filaments, but it is …
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Design and Synthesis of an E3 ligase Activity-Based Probe and its Application for the Discovery of a New Class of E3 Ligase
… E3 (RBR) E3, Parkin. Furthermore, biotin-E3 ABPs allow us to systematically discover and dissect the E3 activities of a broad spectrum of E3s that are associated with different diseases. By interfacing the ABPs with mass spectrometry, we establish an activity based protein profiling (ABPP) …
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Mechanical properties of F-actin network
… is regulated by over 100 actin binding proteins (ABPs). Although extensive measurements to estimate the mechanical properties of ABP/F-actin networks showed that they are nonlinear and viscoelastic, a full understanding of the origin of such fascinating behaviors is lacking. This thesis presents a …
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Structural Mechanisms of F-actin Mechanochemical Regulation and Flexible Network Assembly
… and endocytosis. Actin-binding proteins (ABPs) specify actin filament (F-actin) organization to build micron-scale networks which power these cell dynamics. Interactions between ABPs and F-actin are regulated by both biochemical processes and mechanical forces. The mechanisms mediating …
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Chemical Genetic Approaches for Elucidating Protease Function and Drug-Target Potential in Plasmodium Falciparum
… I develop a novel set of activity-based probes (ABPs) based on the natural product metallo-aminopeptidase (MAP) inhibitor bestatin. I show the bestatin-based ABP allows the functional characterization of MAP activity within a complex proteome. In Chapter 3, I utilize an extended library of …
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MOLECULAR MECHANISMS OF ACTIN FILAMENT ASSEMBLY AND TURNOVER
… from the myriads of actin binding proteins (ABPs) that bind to and regulate actin. A substantial proportion of these proteins modify actin turnover at filament ends, defined as the flux between actin’s monomeric G-actin state and its filamentous F-actin state. Our understanding of the …
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Investigating the ubiquitin conjugating machinery in *Plasmodium falciparum*
… of this pathway. Activity based probes (ABPs) were used to identify ubiquitin pathway enzymes expressed and active during the asexual stage of *P.falciparum*. Two ABPs Ub-Dha and Ub-PA were used co-operatively in concert with immunoprecipitation and mass spectrometry (IP-MS/MS) to …
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P21- ACTIVATED KINASE 4 AND ACTIN CYTOSKELETON DYNAMICS
… EXPLORE THE DIVERSITY OF ACTIN BINDING PROTEINS (ABPS) IN THE ACTIN POLYMERISATION AND DEPOLYMERISATION CASCADES DOWNSTREAM SIGNALLING CASCADES, SUCH AS PAK4. THE FIRST OBJECTIVE WAS ACHIEVED BY CRYSTALLISING THE PAK4: INCA COMPLEX IN VIVO. THIS NOVEL STRUCTURE OF THE PAK4 KINASE DOMAIN IN COMPLEX …
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Mapping the actin and actin binding proteins interactions : from micromechanics to single molecule force spectroscopy
… of this assay by testing it with two different ABPs: filamin, a crosslinker, and a-actinin, a bundler. We measured rupture forces of 28-73 pN and 30-56 pN for filamin/actin and a-actinin/actin respectively, suggesting that the former is a slightly stronger interaction. Moreover, since no ABP …
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The Interaction of Cofilin with the Actin Filament
… cells, understanding how actin-binding-proteins: ABPs) bind and how their regulating mechanisms work is not only important to the basics of cytoskeletal pathways, but also to understanding associated diseases and creating possible therapeutics to combat them. Cofilin is an ABP that plays an …
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Insights into protein function from evolutionary and conformational dynamics
… that allostery may be a natural feature of ABPs with tandem F-actin binding sites if nature indeed selects for sturdy F-actin bundles. The final two studies examine the impact of two structural perturbations to Factin on its mechanics. Using structure-based computer modeling we develop a …
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Calcium and actin coordinate egg activation and the metaphase-anaphase transition in Drosophila oocytes
… further demonstrate that actin-binding proteins (ABPs) play a role in regulating calcium entry, likely via mediation of cross-linking and density of the cortical actin. This data therefore supports a model in which polar waves are in part a result of a reduced cortical actin density at the poles …