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 20 of 139 for “"Binding Motif"”.
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Structural basis of membrane targeting and regulation of the innate immunity adaptor TIRAP by its phosphoinositide-binding motif
… proteins; and a N-terminal phosphoinositide-binding motif (PBM) that mediates the membrane recruitment of TIRAP. Upon ligand activation, TLRs are recruited to the phosphoinositide (PIP)-enriched region in the membrane, where TIRAP recruits other adaptors to the membrane to activate TLR …
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Global Optimization in Systems Biology and Bioinformatics
Identification of transcription factor binding motif and sites is a crucial effort to elucidate gene regulatory networks and its combinatorial problem is NP -hard. In this thesis, the problem is modeled as an integer linear program with weak assumptions on the binding pattern. A computationally …
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Characterisation of the virulence-related, outer-membrane proteins of B. pertussis
… the Bordetella autotransporter protein family. Motif analysis revealed an RGD integrin-binding motif and an SGSG glycosaminoglycan-binding motif, which implicates this protein as a putative adhesin. Although not begun at the start of this study, the B. pertussis genome sequence was near …
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Understanding the activation mechanism of the Chk1 kinase
… of the Chk1RD with the Chk1KD. A putative Chk1RD-binding site on the Chk1KD surface was identified and disrupted by mutagenesis, resulting in partial increase of Chk1FL kinase activity, thus supporting an inhibitory role of the Chk1RD in controlling kinase activity. Activation of Chk1 requires its …
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Theoretical investigation of polar zinc oxide surface modification via phosphonic acid self-assembled monolayers
… that there is a substantial change in the binding energies and work function modification depending on the binding motif. The results also indicate that there is a pronounced difference in the magnitude and trends of the factors determining the total change in work function. The oxygen …
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Molecular mechanisms of pioneer factor ELF2 interactions with the nucleosome
… of TFs consisting of 29 members. The DNA binding domains (DBD) of ETS family TFs are highly conserved. ELF2 is a ETS family pioneer factor that has a strong preference for oriented binding on nucleosomes. The functionality of ELF2 in genome is, however, unknown. In this study, by further …
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Trim28 Interacts With Ezh2 to Regulate Its Activity
… manner. Genome-wide TRIM28 binding profile analysis revealed transcription factor binding motifs, including TCF4 and RBP-J (a Notch effector), at TRIM28 binding sites. The promoter of <em>AXIN2</em>, which encompasses a TCF4 binding motif, is a direct transcriptional …
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Dibenzo-30-crown-10: Synthetic optimization and studies of the binding conformation
… Four new rotaxanes based on the DB30C10-paraquat binding motif were used to investigate the binding conformation of DB30C10 and paraquat. The new rotaxanes were characterized by 1H, 13C and 2D-NOESY NMR, mp, and HRMS. A single crystal X-ray structure of one of the [2]rotaxanes was obtained. To our …
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A Novel Switch-Like Function of Delta-Catenin In Dendrite Development
… a central Armadillo domain and a C-terminal PDZ-binding motif. This motif associates with PDZ domain-containing proteins, and is crucial for the neuronal functions of delta-catenin. My research has revealed two novel interactions between delta-catenin and the PDZ domain-containing proteins Magi1 …
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Functional significance of unique sequences in Mycobaterium smegmatis Ku proteins
… extension at the C-terminus and a zinc-binding motif in the DNA-binding bridge-region. The unique C-terminal tail of M. smegmatis Ku contains several lysine-rich low-complexity PAKKA repeats that are absent from homologs encoded by obligate parasitic mycobacteria, but present in other …
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Synthesis of charged receptors selective for anionic components of bacterial membranes
… bacterial membrane component, is to create a binding motif that will complex a phosphorus anion, along with hydroxyl functionality, strongly and selectively in an aqueous environment. This study reports the synthesis and characterization of two families of charged hydrogen-bonding receptors. …
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DESIGN AND DEVELOPMENT OF RNA-BASED DRUGS USING MOLECULAR DYNAMICS SIMULATIONS AND ARTIFICIAL INTELLIGENCE METHODS
… inhibition was pursued by targeting the LC3B RNA-binding motif using novel Peptide Nucleic Acids (PNAs) to disrupt cancer cell survival mechanisms. Second, XNA sequences were optimized to target the DNA-binding domain of the oncogenic protein HMGB1. Third, aptamers were designed to bind the …
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Investigation of peptide-lipid interaction by fluorescence correlation spectroscopy
… to original V4, which originated from a LPS-binding motif. The interaction between MV4s and different lipid model membranes was investigated using fluorescence correlation spectroscopy (FCS) and laser scanning confocal imaging. A similar mechanism of MV4s was observed as compared to V4. MV4s …
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Determination and Dissection of DNA-binding Specificity for the Thermus thermophilus HB8 Transcriptional Regulator TTHB099
… (REPSA), we identified the preferred DNA-binding motif for TTHB099, 5'-TGT(A/g)n(t/c)c(t/c)(a/g)g(a/g)n(T/c)ACA-3', and mapped potential binding sites, and regulated genes within the <em>T. thermophilus</em> HB8 genome. Comparisons with expression profile data in TTHB099-deficient and wild …
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Investigations into the molecular basis of enzyme-catalyzed reactions in natural product biosynthesis
… that split-B lasso peptides possess a conserved motif in their leader peptides that are key to recognition element binding. In this chapter, I investigate the prevalence of this binding motif across split-B lasso peptide biosynthetic gene clusters. I then elaborate on a series of experiments that …
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Exploration of Small Peptide Binding Interactions with Inorganic Surfaces Across Timescales
Peptide adhesion presents a novel method of binding surfaces which could not otherwise be permanently bound through conventional methods. Two such surfaces of practical interest are titanium dioxide (the surface of osseous implants) and hydroxyapatite (the primary mineral component of bone). The …
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Ehrlichia chaffeensis Type 1 Secreted Effector TRP47 is a Novel SUMOylated Nucleomodulin
… and as a novel nucleomodulin with DNA-binding activity and host nuclear localization. Using a microfluidic chip peptide array, a SUMOylation site in the TRP47 N-terminal domain was identified. A SUMO-2 modification was further confirmed using an in vitro SUMOylation assay with …
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Histone H3 K4 Methylation Regulates The Spindle Assembly Checkpoint Through Direct Binding of Multiple Checkpoint Components and Cdc20
… domain, which I identify as a novel histone binding motif. Mad2 maintains two differing conformations, closed Mad2 (C-Mad2) and open Mad2 (O-Mad2). We find C-Mad2 increases the Mad2-H3 interaction. In addition, O-Mad2 limits the H3-Mad2 interaction. Further analysis, shows C-Mad2 can bind to …
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INVESTIGATING POST-TRANSCRIPTIONAL REGULATION OVER MRNA FATE ACROSS THE MITOTIC-TO-MEIOTIC TRANSITION IN MALE GERM CELLS
… critiqued (Chapter II). Second, ‘RNA-binding motif protein 46’ (RBM46) is characterized as an essential RNA-binding protein during the late stages of the mitotic spermatogonial differentiation program. In these male germ cells, RBM46 negatively regulates meiotic mRNAs, thus …
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Role of the LPA2 Receptor in Protecting Against Apoptosis
… receptor subtype. </p> <p>Unique sequence motifs in the LPA<sub>2</sub> carboxyl-terminal (CT) enable it to form macromolecular complexes with PDZ and LIM domain proteins, which link it to G protein-independent signaling networks. Using deletion and site-specific mutagenesis, we mapped out …
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