Search Results - "Slusky, Joanna S. G"

Correction to “Membrane Barrels Are Taller, Fatter, Inside-Out Soluble Barrels” by Dhar, Rik, Feehan, Ryan, Slusky, Joanna S. G

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Membrane Barrels Are Taller, Fatter, Inside-Out Soluble Barrels by Dhar, Rik, Feehan, Ryan, Slusky, Joanna S. G

“…Up-and-down β-barrel topology exists in both the membrane and soluble environment. By comparing features of these structurally similar proteins, we can…”
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Colicin E1 opens its hinge to plug TolC by Budiardjo, S Jimmy, Stevens, Jacqueline J, Calkins, Anna L, Ikujuni, Ayotunde P, Wimalasena, Virangika K, Firlar, Emre, Case, David A, Biteen, Julie S, Kaelber, Jason T, Slusky, Joanna S G

“…The double membrane architecture of Gram-negative bacteria forms a barrier that is impermeable to most extracellular threats. Bacteriocin proteins evolved to…”
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Machine learning differentiates enzymatic and non-enzymatic metals in proteins by Feehan, Ryan, Franklin, Meghan W., Slusky, Joanna S. G.

“…Metalloenzymes are 40% of all enzymes and can perform all seven classes of enzyme reactions. Because of the physicochemical similarities between the active…”
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Evolutionary Engineering a Larger Porin Using a Loop-to-Hairpin Mechanism by Dhar, Rik, Bowman, Alexander M., Hatungimana, Brunojoel, SG Slusky, Joanna

“…[Display omitted] •We find evidence supporting a novel diversification mechanism in membrane β-barrels.•The mechanism is the conversion of an extracellular…”
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Modulating Integrin αIIbβ3 Activity through Mutagenesis of Allosterically Regulated Intersubunit Contacts by Tan, Sophia K, Fong, Karen P, Polizzi, Nicholas F, Sternisha, Alex, Slusky, Joanna S. G, Yoon, Kyungchul, DeGrado, William F, Bennett, Joel S

“…Integrin αIIbβ3, a transmembrane heterodimer, mediates platelet aggregation when it switches from an inactive to an active ligand-binding conformation…”
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Evolutionary pathways of repeat protein topology in bacterial outer membrane proteins by Franklin, Meghan Whitney, Nepomnyachyi, Sergey, Feehan, Ryan, Ben-Tal, Nir, Kolodny, Rachel, Slusky, Joanna Sg

“…Outer membrane proteins (OMPs) are the proteins in the surface of Gram-negative bacteria. These proteins have diverse functions but a single topology: the…”
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Machine learning for enzyme engineering, selection and design by Feehan, Ryan, Montezano, Daniel, Slusky, Joanna S G

“…Abstract Machine learning is a useful computational tool for large and complex tasks such as those in the field of enzyme engineering, selection and design. In…”
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Tight Turns of Outer Membrane Proteins: An Analysis of Sequence, Structure, and Hydrogen Bonding by Franklin, Meghan Whitney, Slusky, Joanna S.G.

“…As a structural class, tight turns can control molecular recognition, enzymatic activity, and nucleation of folding. They have been extensively characterized…”
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General features of transmembrane beta barrels from a large database by Montezano, Daniel, Bernstein, Rebecca, Copeland, Matthew M, Slusky, Joanna S G

“…Large datasets contribute new insights to subjects formerly investigated by exemplars. We used coevolution data to create a large, high-quality database of…”
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Detergent headgroups control TolC folding in vitro by Ikujuni, Ayotunde Paul, Budiardjo, S. Jimmy, Dhar, Rik, Slusky, Joanna S.G.

“…TolC is the trimeric outer membrane component of the efflux pump system in Escherichia coli that is responsible for antibiotic efflux from bacterial cells…”
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MAHOMES II: A webserver for predicting if a metal binding site is enzymatic by Feehan, Ryan, Copeland, Matthew, Franklin, Meghan W., Slusky, Joanna S. G.

“…Recent advances have enabled high‐quality computationally generated structures for proteins with no solved crystal structures. However, protein function data…”
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KIF-Key Interactions Finder: A program to identify the key molecular interactions that regulate protein conformational changes by Crean, Rory M, Slusky, Joanna S G, Kasson, Peter M, Kamerlin, Shina Caroline Lynn

“…Simulation datasets of proteins (e.g., those generated by molecular dynamics simulations) are filled with information about how a non-covalent interaction…”
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Discovery and Characterization of Two Folded Intermediates for Outer Membrane Protein TolC Biogenesis by Ikujuni, Ayotunde Paul, Dhar, Rik, Cordova, Andres, Bowman, Alexander M., Noga, Sarah, Slusky, Joanna S.G.

“…[Display omitted] •TolC is the outer membrane protein responsible for antibiotic efflux in E. coli.•TolC folding involves the formation of two folded…”
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Outer membrane protein evolution by Dhar, Rik, Slusky, Joanna SG

“…•Most OMBBs evolved from an ancestral β-hairpin structure through a distinct divergent evolutionary pathway.•Eukaryotic OMBBs evolved from that same l…”
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Efflux Pumps Represent Possible Evolutionary Convergence onto the β-Barrel Fold by Franklin, Meghan Whitney, Nepomnyachiy, Sergey, Feehan, Ryan, Ben-Tal, Nir, Kolodny, Rachel, Slusky, Joanna S.G.

“…There are around 100 varieties of outer membrane proteins in each Gram-negative bacteria. All of these proteins have the same fold—an up-down β-barrel. It has…”
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The energetics and evolution of oxidoreductases in deep time by McGuinness, Kenneth N., Fehon, Nolan, Feehan, Ryan, Miller, Michelle, Mutter, Andrew C., Rybak, Laryssa A., Nam, Justin, AbuSalim, Jenna E., Atkinson, Joshua T., Heidari, Hirbod, Losada, Natalie, Kim, J. Dongun, Koder, Ronald L., Lu, Yi, Silberg, Jonathan J., Slusky, Joanna S. G., Falkowski, Paul G., Nanda, Vikas

“…The core metabolic reactions of life drive electrons through a class of redox protein enzymes, the oxidoreductases. The energetics of electron flow is…”
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Outer membrane protein design by Slusky, Joanna SG

“…•Functional roles for β-barrel components have been elucidated.•Outer membrane enzymes have been evolved for new substrates.•New β-barrel folds have been…”
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Charge asymmetry in the proteins of the outer membrane by Slusky, Joanna S G, Dunbrack, Jr, Roland L

“…Outer membrane beta-barrels (OMBBs) are the proteins found in the outer membrane of bacteria, mitochondria and chloroplasts. There are thousands of…”
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High-Yield Preparation of Outer Membrane Protein Efflux Pumps by in Vitro Refolding is Concentration Dependent by Budiardjo, S. Jimmy, Ikujuni, Ayotunde Paul, Firlar, Emre, Cordova, Andrés, Kaelber, Jason T., Slusky, Joanna S. G.

“…Overexpression of tripartite efflux pump systems in gram-negative bacteria is a principal component of antibiotic resistance. High-yield purification of the…”
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