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.
Results
Showing 1 to 20 of 23 for “"Salt Bridges"”.
-
Structural Basis of the Tensile Strength of Protein Complexes Mediating Cell Adhesion
… the adaptive immune response, contains several salt-bridges in the adhesive interface. SMD simulations showed that these inter-protein salt bridges contribute independently to the tensile strength of the complex. Consistent with this, force measurements with the Surface Force Apparatus (SFA) …
-
Evolution as a design tool to inform biomolecular engineering
… by engineering disulfide bonds and electrostatic salt bridges on the surface of the enzyme. Two methods to assist disulfide engineering were developed- 1) A neural network model to predict disulfide bonds within existing structures from mutual information and a continuous distributed …
-
The design of an instrument to measure vertically averaged oceanic currents using geomagnetic electric fields
… of the electric field, Ex, Ey, and Ez. Salt bridges used with switched electrodes permit the induced e1ectromotive forces to be measured with only a short baseline; eight foot arms are planned. The first part of this report covers the theory behind the bottom mounted electric field …
-
Ligand Binding and Structural Dynamics in C-Type Cytochromes
… reveal multiple dynamic hydrogen bonds and salt bridges in the cyt c-c 1 interface. A novel structural change in cyt c is also reported, involving residues 25--30, which may be responsible for cyt c destabilization. An interaction between cyt c1 monomers is proposed to be responsible for …
-
Molecular Dynamics Simulations Provide Insight into Stability of Hyperthermophilic Endoglucanases
… RMSD, RMSF, PCA, hydrogen bonding and salt bridges were analyzed. Finally, protein energy networks were constructed from nonbonded interaction potentials and analysis was performed using hub population, cluster population, largest community transition profiles and LCC profiles. It was …
-
Examining Molecular Interactions of Proteins by Isotopic Labeling, Sample Formulation and Solid-State NMR Spectroscopy
… among microcrystalline formulations reported on salt bridges, intermolecular contacts and solvent interactions. For one microcrystalline form, acidic pKa values were determined, indicating their role in protein crystal stability. To apply these new techniques to large membrane proteins, we …
-
Force-dependent changes in alpha-catenin conformation
… studies found that a cooperative network of salt bridges stabilizes the autoinhibited conformation of the M domain. Studies described in this dissertation established that disruption of salt bridges within the M domain triggers the activation (unfurling) of α-catenin to bind vinculin, both at …
-
Examination of intramolecular interactions between residues of the cys-loop GABA receptor Hco-UNC-49 from Haemonchus contortus
… a template. These residues are predicted to form salt bridges in Hco-UNC-49B which may contribute to structure, function, and molecular interactions with ligands. Each amino acid was mutated to an alanine, followed by a mutation to a similar charged amino acid, and finally a swap between the two …
-
Mechanotransduction by talin : a molecular dynamics study of force-induced recruitment of vinculin to a focal adhesion complex
… torque transmitted through hydrogen-bonds and salt bridges. Activation was observed with mean force of 13.2±8.0pN during constant velocity simulation and with steady force greater than 18.0pN. The crystal structure of vinculin head subdomain (Vhl) bound to the talin VBS1 implies that vinculin …
-
Redox active tyrosine residues in biomimetic beta hairpins
… that stabilize hairpin formation include salt bridges, pi-stacked aromatic interactions, cation-pi interactions, and hydrophobic interactions. The optimal strand length for beta hairpins depends on the numbers of stabilizing non-covalent interactions and high hairpin propensity amino acids …
-
Understanding the biological barriers to Jurkat Transfection using non-viral peptides
… Peptide simulations by I-Tasser suggested that salt bridges between glutamic acid and cationic residues may determine the pH sensitiveness of RALA series peptides.<br/><br/>Although RALA peptide has got 25-30% transfection efficiencies in Jurkat cell transfection, such a low rate and an …
-
Structural Comparison of Denatured and Supercharged Proteins in Gas and Solution Phases
… without additives or the disruption of native salt bridges and inter- and intra- molecular bonds. However, more work is needed on non-native proteins. This work analyzes denatured and supercharged proteins using different mass spectrometry techniques to compare the solution and gas phase …
-
Improving of the accuracy and efficiency of implicit solvent models in Biomolecular Modeling
… of alpha helical secondary structures and salt bridges. In this dissertation we present two new GB models aimed at computing solvation properties with a reasonable compromise between accuracy and speed. The first GB model, called NSR6, is based on a numerically surface integration over the …
-
Solution and solid-state NMR studies of amphotericin B
… ion gradients and cause cell death. A ring of salt bridges and/or hydrogen bonds at the channel periphery are proposed to stabilize the channel assembly. These polar interactions are proposed to form between the C41 carboxylate and C3' amine of adjacent AmB molecules within the channel …
-
Single-molecule studies of unconventional motor protein myosin VI
… our collaborators suggest that electrostatic salt bridges formed between positive and negative amino acid residues are mainly responsible for the MT domain dimerization. After resolving this, we are left with another important question which is how myosin VI can take such a large step. Recent …
-
Investigation of the determinants of thermal stability of the nitrile hydratase from Geobacillus pallidus RAPc8
… interactions through hydrogen bonds and salt bridges are especially important for contributing towards thermal stability of tetrameric nitrile hydratases. Hydrophobic interaction through the formation of a water shell around hydrophobic side-chains and packing of hydrophobic side-chains …
-
Structural and functional role of the extracellular loops and C-terminal domain of the voltage-gated sodium ion channel
… to some of these mutants form a complex salt bridge at the interface between the DII and DIII turret loops. Furthermore, adjacent aromatic residues could potentially form cation-π interactions with the complex salt bridge. This region was examined using site-directed mutagenesis, …
-
Analysis and Error Correction in Structures of Macromolecular Interiors and Interfaces
… amino acid pairing preferences. As expected, salt-bridges and hydrophobic patches are prevalent, but likelihood correction of observed pairing frequencies reveals some surprising pairing preferences, such as Cys-His interchain pairs and Met-Met intrachain pairs. To complement my statistical …
-
A path to biodiscovery: isolating Antarctic ascidian-associated bacteria and screening genomes for secondary metabolite-encoded biosynthetic gene clusters and signatures of cold adaptation
… content, which form protein-stabilizing salt bridges believed to hinder protein function at low temperatures were reduced. The predicted Antarctic proteins also followed the established trend of increased glycine and serine content in cold adapted proteins, understood to increase protein …
-
The relationship between structure and thermostability of a nitrile hydratase from Goebacillus pallidus RAPc8
… of electrostatic interactions, particularly salt bridges and hydrogen bonds in enhancing the thermostability of the mutant NHases. The difference in the free energy of activation of thermal unfolding (DDG) was used to compare the wild-type and mutant NHases thermostability. The most improved …
Page 1 of 2