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 28 for “"Protein Fold"”.
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Protein Fold Recognition Using Adaboost Learning Strategy
Protein structure prediction is one of the most important and difficult problems in computational molecular biology. Unlike sequence-only comparison, protein fold recognition based on machine learning algorithms attempts to detect similarities between protein structures which might not be …
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Origin and evolution of protein fold designs
… spatial arrangements of secondary structures in proteins, irrespective of their connectivity, depict the overall shape and organization of protein domains. These features have been used in the CATH and SCOP classifications to hierarchically partition fold space and define the architectural make …
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Highly Accurate Fragment Library for Protein Fold Recognition
<p>Proteins play a crucial role in living organisms as they perform many vital tasks in every living cell. Knowledge of protein folding has a deep impact on understanding the heterogeneity and molecular functions of proteins. Such information leads to crucial advances in drug design and disease …
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Analysis of the thermodynamic determinants of protein fold specificity in the denatured state ensemble
Although the thermodynamic control of protein folding has been known for decades, a complete understanding of the thermodynamic determinants that defining protein folds is still elusive. In this regard, it is becoming clear that focusing only on the native states of protein folds will be …
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A thermodynamic definition of protein folds
… in structural biology, like homology modeling, protein threading, protein fold classification, and homology detection have proven extremely useful. For example, they have provided us with evolutionary information about protein homology which has in some many cases lead directly to therapeutics. …
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Structure determination of proteins and peptides in solution: simulation, chirality and NMR studies
The study of protein fold is a central problem in life science, leading in the last years to several attempts for improving our knowledge of the protein structures. In this thesis this challenging problem is tackled by means of molecular dynamics, chirality and NMR studies. In the last decades, …
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STRUCTURE, FUNCTION AND FOLDING OF THREE FINGER TOXINS
… of peptides in snake venom. Despite the common protein fold, they exhibit diverse pharmacological activities. Our group characterized Oh9-1, a neurotoxin from venom of Ophiophagus hannah. Although Oh9-1 binds to the same acetylcholine binding pocket as the -neurotoxins, it lacks key functional …
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Structural studies of radical enzymes in bacterial central metabolism
… human diseases. These two enzymes share a common protein fold and also utilize a similar series of steps to initiate chemistry on their substrates. However, once they have generated a radical intermediate, the enzyme active site guides very different chemical steps in these two enzymes. Class III …
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Study of Enzyme Evolution Within the MLE Subgroup Focusing on Characterizing Member Enzymes for the Purpose of Discovering Relationships Among Sequence, Structure, and Function
… superfamily possesses the most ubiquitous protein fold in Nature while the muconate lactonizing enzyme (MLE) subgroup represents the most divergent in chemical reactions in the superfamily; therefore, the MLE subgroup is an excellent candidate to appreciate chemistry driven evolution of …
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Shield and Shuttle: Importins as Protective Chaperones and the Nuclear Transport Mechanism of H2A-H2B
… shuttle positively charged DNA and RNA binding proteins prone to aggregation such as histones, ribosomal proteins, and transcription factors. Nuclear import begins in the cytoplasm where Importins typically recognize a linear pattern of sequences in disordered regions of their cargoes called …
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Superior to one of Glass: Natural Gradient index Lenses via Patchy Particle Self-Assembly
… This biological lens must also maintain low protein density fluctuation at the length-scale of a wavelength of visible light in order to maintain transparency. In squids, this sophisticated optical design emerges from the properties of a single protein fold, the S-crystallin. In this thesis, …
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STRUCTURE-FUNCTION STUDIES OF TRANSLOCATED EFFECTORS FROM THE LATE BLIGHT PATHOGEN
… pathogens is the secretion of effector proteins, many of which translocate inside host cells. These effectors manipulate host processes for the pathogen’s benefit. However, in response to this manipulation, plants have evolved to monitor for effectors and trigger defence responses. …
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STRUCTURAL AND FUNCTIONAL CHARACTERISATION OF MUCUS ADHESION PROTEINS OF LACTOBACILLUS REUTERI
… basis of adhesin interaction with mucin glycoproteins, the main component of mucus, is limited. This work describes the biochemical and structural properties of two cell-surface proteins from Lactobacillus reuteri, the mucus-binding protein (MUB) and the Lar0958 protein, and their mucin …
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Design, Structure and Applications of Collagen-Mimetic Peptides
The collagen triple helix is a unique protein fold found in all domains of life where is has diverse roles from imparting structure and strength to tissue, to initiating an immune response. While many factors affecting the structure and stability of the triple helix have previously been elucidated, …
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Structural Studies of Two Related Metallohydrolases: Human Histone Deacetylase 8 and Malarial Arginase
… of lysine residues in histones and other proteins in eukaryotic cells. Isozyme HDAC8 is perhaps the archetypical member of the class I HDAC family and serves as a paradigm for studying structure-function relationships. We report the structures of HDAC8 complexes in a new crystal form. …
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Folding patterns in protein sequences
… fruitful genome projects, a growing number of protein sequences remain uncharacterised. Generally, computational techniques have not been developed to distinguish between regions that are conserved in proteins owing to evolutionary pressures to maintain structure and those that are conserved in …
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Structural and functional investigation of the organic anion transporting polypeptide 1B1 (OATP1B1)
Membrane transport proteins are the gatekeepers of the cell membrane, transporting compounds in and out of the cell. The organic anion transporting polypeptides (OATPs) are a family of transport proteins expressed in a variety of tissues, including absorptive I excretory cells of the liver and …
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Generating artificial metalloenzymes containing new-to-nature organometallic cofactors via controlled ligand exchange and microfluidic screening technologies
… with the latter being dictated by the protein fold. Further, the development of a high-throughput microfluidic screening platform is presented, with the aim to facilitate efficient directed evolution. The first chapter gives a theoretical description of the matter covered by this thesis …
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The study of ancient viral class II envelope fusion proteins within the viral retroelements of Nematoda and the nuclear plasmids of Dictyostelium
… an ancient viral class II envelope fusion protein. Typically, retroviruses and related degenerate retrotransposons encode a hemagglutinin-like class I envelope fusion protein. A subset of Bel/Pao LTR-retrotransposons within the phylum Nematoda have acquired a phlebovirus-like env and …
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Characterisation of cytochrome c MtoD from the iron-oxidising autotroph sideroxydans lithotrophicus ES-1
… CXXCH c-type heme binding motif, but the mature protein sequence lacks methionine, which is the distal ligand to the heme iron in almost all class I cytochromes c. Biophysical characterisation using AUC and SAXS indicated MtoD behaved as a monomer in solution with an approximate molecular weight …
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