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Showing 1 to 20 of 40 for “"Molecular Machines"”.
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Molecular machines constructed from multichromophore arrays
Our long-term ambitious goal is to construct molecular assemblies or machines of unprecedented complexity leading to unique function. Porphyrins and phthalocyanines have been selected as the building blocks for the construction of the targeted molecular machines. The synthesis of different …
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Controlling Molecular-Scale Motion: Exact Predictions for Driven Stochastic Systems
… and thermal fluctuations, controllable molecular devices or molecular machines are currently being synthesized around the world. Many of these molecular complexes are non-autonomous in that they are manipulated by external stimuli. As these devices become more sophisticated, the need for …
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Mechanical Processes of a Single Synthetic Molecular Machine Studied by AFM-based Force Spectroscopy
… random thermal motions. This allows these molecular machines to perform mechanical tasks such as intracellular cargo transport or muscle contraction in plants and animals. Although some artificial molecular machines have been synthesized and used collectively to perform mechanical tasks, so …
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Theoretical and computational investigations into structure-function relationships of biomolecular machines at atomic resolution
Molecular machines play vital roles in many cellular processes, including DNA replication and repair, gene expression, protein degradation, protein secretion and maintenance of pH homeostasis. Despite intense research efforts, the atomic-level mechanism transmitting other form of energy into …
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Single-molecule studies of protein degradation and kinesin-8 motility
Molecular machines drive living organisms out of equilibrium and perform critical functions in almost every aspect of cellular processes. They are mechanical enzymes transducing free energy stored in chemical forms to generate motions and forces useful in cell. How these tiny machines operate in …
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Type IA topoisomerases: a phylogenomic and biochemical analysis of Methanosarcina acetivorans C2A TopoIII
… the door to the previously unknown world of molecular machines that manipulate DNA topology. Since then, topoisomerases have been demonstrated to be vital instruments of the cellular machinery in a wide array of processes that are essential for life such as DNA synthesis, DNA repair and …
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Shape-switching studies with cyclophanes and indicator displacement assays with boronic acids
… shape-switching cyclophane hosts with a range of molecular guests. This research serves as a contribution towards the field of molecular machines and switches which may gain utility in the fields of drug delivery or catalysis.<br/>
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Data Driven Modeling of Proteins
Proteins are tiny molecular machines that perform the vast majority of the functions in living cells. In order for the protein to perform its function, it has to be able to fold from a disordered coil into a specific compact structure. Two new computational methods are developed that take advantage …
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Exploring the molecular architecture of proteins: Method developments in structure prediction and design
<p>Proteins are molecular machines of life in the truest sense. Being the expressors of genotype, proteins have been a focus in structural biology. Since the first characterization and structure determination of protein molecule more than half a century ago1, our understanding of protein structure …
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Synthesis, Monitoring, and Molechanical Action of Light-Driven Motorized Nanomachines
… the design and synthesis of a series of unimolecular nanomachines bearing a fast light-driven rotary motor (3 MHz at 25 °C) as a power unit and fluorophores for their monitoring. A well-tailored structural design that unifies the mechanism of propulsion and the requisite monitoring …
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Towards Synthetic Molecular Motors Interfaced by AFM
Molecular machines are at the ultimate limit of miniaturization. Living organisms provide a variety of examples for such molecular machines, but in order to utilize and to control them, they need to be interfaced with the macroscopic world. On the other h and, there are synthetic molecular …
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Environmental sensing and response of conserved RNA-processing machines to specific external chemical cues
Molecular mechanisms involved in sensing and responding to changes in environmental conditions are of high interest in the field of molecular biology and biochemistry because of the immediate cascade of events and macromolecular interactions that occur in a relatively short time frame to provoke a …
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The effect of oxidized guanines on DNA synthesis by DNA polymerase β
… on to a daughter cell. DNA polymerases are the molecular machines that read the parent DNA strand and instruct the addition of correct corresponding nucleotides (also termed fidelity) to form a new DNA strand. DNA replication is extremely accurate to prevent deleterious alterations to the …
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Substrate denaturation and translocation by a proteolytic machine
Many AAA+ molecular machines generate power and drive cellular processes by harnessing energy from cycles of ATP hydrolysis. ClpX is a relatively simple AAA+ ATPase that powers regulated protein degradation by binding native protein substrates, denaturing them, and translocating the unfolded …
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Machine learning for understanding protein sequence and structure
… 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 measurement of proteins in their native states. …
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Examination of two remarkable AAA+ proteases: unraveling substrate-enzyme interactions of the double-ringed ClpAP and direct thermal activation of HslUV proteolysis
… degradation enzymes, which together with other molecular machines, including disaggregases and chaperones, are critical to the maintenance of cellular protein homeostasis. Different members of this quality control network swing into action from the moment the nascent polypeptide emerges from a …
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Modeling proteins, making scientists : an ethnography of pedagogy and visual cultures in contemporary structural biology
… to interpreting the multidimensional forms of molecular life. One major hurdle they face is training a new generation of scientists to work with multi-dimensional data forms. In this study I document the formation and propagation of tacit knowledge in structural biology laboratories, in …
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Observing molecular interactions that determine stability, folding, and functional states of single Na+/H+ antiporters
… transport proteins work as membrane-embedded molecular machines, which alternately open a gate on each side of the membrane to bind and translocate specific ions. Sodium/proton exchange plays a crucial role in maintaining cytoplasmic pH and membrane potential, while, if not regulated, the …
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Expanded cyclophanes for switchable capture/release of metal complexes
… receptors and the use of cyclophanes in molecular machines and some other potential applications. Then, an introduction of molecular logic-based computation is presented. <br/><br/>The second chapter presents the design and synthesis of three novel water-soluble redox-switchable anionic …
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DNA-Based Mimics of Membrane Proteins Lipid-DNA Interactions Determine Function
… function of membrane proteins. These natural molecular machines function embedded in the lipid bilayer. Similar membrane attachment of DNA-based structures is achieved by modifying the nucleic acid with hydrophobic anchors, most commonly cholesterol. Aiming at developing a fully functional and …
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