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Showing 1 to 20 of 23 for “"protein structure determination"”.
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Protein structure determination using evolutionary information
… to optimize its sequence to perform a task. For protein-coding genes, the task includes folding, stability, and function. The record of the evolutionary process, which in itself is probabilistic, is contained within a multiple sequence alignment. A statistical model that accurately describes …
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Novel Algorithms for Automated NMR Assignment and Protein Structure Determination
<p>High-throughput structure determination based on solution nuclear magnetic resonance (NMR) spectroscopy plays an important role in structural genomics. Unfortunately, current NMR structure determination is still limited by the lengthy time required to process and analyze the experimental data. A …
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Applications of DNP and solid-state NMR for protein structure determination
… is a developing method for determining the structures and studying the dynamics and functions of biological molecules. This method is particularly important for systems, such as amyloidogenic fibrous proteins, that do not crystallize or dissolve well and are therefore not amendable to X-ray …
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Advances In Computer Aided Protein Structure Determination From Sparse Cryo Electron Microscopy Data
… a powerful tool for determining macromolecular structures. Thanks to recent advances in direct electron detectors and motion correction algorithms it can frequently deliver electron density maps in the range of 3-5Å resolution. To obtain as much atomic level detail of the structure as possible …
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Geometric Algorithms for Protein Structure Determination Using Measurements From Nuclear Magnetic Resonance Spectroscopy
… such as a cell, the three-dimensional structure of a protein entirely determines its function. Hence, to understand the mechanics of biochemical processes necessary to sustain life, it is crucial to study the structures of proteins at atomic detail. When life is threatened by viral and …
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PASSS: Protein Active Site Structure Search
The Protein Structure Initiative, a project on the scale of the Human Genome Project aimed at protein structure determination, has successfully identified the structure of multiple human proteins. Unfortunately, knowledge of structure alone provides little insight into a protein's function within …
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Deep Neural Networks for Learning Protein Vibrational Behaviors to Characterize Structure and Function
Proteins’ structures and motions are essential for nearly all biological functions and malfunctions, making them prime targets for uncovering and controlling processes associated with metabolism and disease. Normal mode analysis is a powerful method that allows us to understand the mechanisms of …
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Approaches to determining the three-dimensional structure and dynamics of bacterial chromosomes
… Their folding into dynamic three-dimensional structures creates spatial relationships between loci that likely play important functional roles. Yet so far only the broad outlines of this spatial organization have been discerned. In chapter 2 of this thesis I describe a general constraint-based …
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Scope: A Protein Force Field With An Artificial Neural Network Approach to Protein Refinement
<p>Protein folding is the one of the most important topics of research in Biochemistry. The understanding of how a protein folds into its three dimensional shape from its amino acid sequence is of extreme importance in medicine today because proteins play important roles in diseases such as sickle …
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The Application of Pulsed Electron Paramagnetic Resonance to the Investigation of Protein Structure
… rare occasions orientations within biomolecular structures. Site directed spin labelling (SDSL) has provided a method for introducing EPR active species into protein structures, the majority of these species are too flexible for the use of orientation measurements unless their introduced into …
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Machine learning for understanding protein sequence and structure
Proteins are the fundamental building blocks of life, carrying out a vast array of functions at the molecular level. Understanding these molecular machines has been a core problem in biology for decades. Recent advances in cryo-electron microscopy (cryoEM) has enabled high resolution experimental …
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Improving Structural Features Prediction in Protein Structure Modeling
<p>Proteins play a vital role in the biological activities of all living species. In nature, a protein folds into a specific and energetically favorable three-dimensional structure which is critical to its biological function. Hence, there has been a great effort by researchers in both …
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Microfluidic platforms for protein crystallization and in situ X-ray analysis
"Recent efforts associated with the Protein Structure Initiative from the National Institutes of Health (NIH) have eased the bottlenecks associated with protein expression, purification, and crystallization for structural analysis. While strategies have been developed for dealing with each of these …
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Structural And Mechanistic Elucidation Of The EF-hand In LETM1 Ca2+/H+ Antiporter Function
… Leucine zipper EF-hand containing transmembrane protein-1 (LETM1) is an essential inner-mitochondrial membrane protein that regulates Ca2+ through exchange for protons (H+). LETM1 is an essential gene where haploinsufficiency is associated with Wolf-Hirschhorn syndrome (WHS), characterized by …
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Intrinsically Disordered Proteins within the Genome
… nuclei through the formation of a macromolecular structure known as chromatin. Chromatin consists of a chain of nucleosomes – nucleoprotein complexes where the DNA makes ∼1.75 turns around a protein octamer core composed of two copies each of H2A, H2B, H3 and H4 histones. A fifth histone H1 binds …
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Dynafold: A Dynamic Programming Approach to Protein Structure Calculation From Residual Dipolar Couplings
… involves the interactions of one or more proteins. As a result, methods for determining the three dimensional structure of proteins are of tremendous interest to researchers in a variety of fields. Presently, methods of protein structure determination are dominated by X-ray crystallography …
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De Novo Protein Structure Modeling from Cryoem Data Through a Dynamic Programming Algorithm in the Secondary Structure Topology Graph
<p>Proteins are the molecules carry out the vital functions and make more than the half of dry weight in every cell. Protein in nature folds into a unique and energetically favorable 3-Dimensional (3-D) structure which is critical and unique to its biological function. In contrast to other methods …
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State-of-the-art REDOR and TEDOR methods for elucidation of protein structure and interactions
Protein structure determination is vital for elucidating their function, folding or misfolding pathways, and their interaction with other biomolecules, small molecules and membranes. In the field of neurodegenerative disorders like Parkinson’s Disease and Alzheimer’s Disease, amyloid fibrils that …
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Microfluidic platforms for membrane protein crystallization and in situ crystallography
Membrane proteins, biological macromolecules that reside in cellular membranes, play critical roles in many biological process, including signaling, transport, and intercellular communication. The malfunction of membrane proteins has been linked to the initiation or progression of many diseases …
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