Search Results - "Gosavi, Shachi"

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  1. 1

    Understanding the folding-function tradeoff in proteins by Gosavi, Shachi

    Published in PloS one (12-04-2013)
    “…When an amino-acid sequence cannot be optimized for both folding and function, folding can get compromised in favor of function. To understand this tradeoff…”
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  2. 2

    A five-residue motif for the design of domain swapping in proteins by Nandwani, Neha, Surana, Parag, Negi, Hitendra, Mascarenhas, Nahren M., Udgaonkar, Jayant B., Das, Ranabir, Gosavi, Shachi

    Published in Nature communications (28-01-2019)
    “…Domain swapping is the process by which identical monomeric proteins exchange structural elements to generate dimers/oligomers. Although engineered domain…”
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  3. 3

    The diversity of protein-protein interaction interfaces within T=3 icosahedral viral capsids by Prakash, Digvijay Lalwani, Gosavi, Shachi

    Published in Frontiers in molecular biosciences (20-10-2022)
    “…Some non-enveloped virus capsids assemble from multiple copies of a single type of coat-protein (CP). The comparative energetics of the diverse CP-CP…”
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  4. 4

    Amino‐acid composition after loop deletion drives domain swapping by Nandwani, Neha, Surana, Parag, Udgaonkar, Jayant B., Das, Ranabir, Gosavi, Shachi

    Published in Protein science (01-10-2017)
    “…Rational engineering of a protein to enable domain swapping requires an understanding of the sequence, structural and energetic factors that favor the…”
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  5. 5

    Designed protein reveals structural determinants of extreme kinetic stability by Broom, Aron, Ma, S. Martha, Xia, Ke, Rafalia, Hitesh, Trainor, Kyle, Colón, Wilfredo, Gosavi, Shachi, Meiering, Elizabeth M.

    “…The design of stable, functional proteins is difficult. Improved design requires a deeper knowledge of the molecular basis for design outcomes and properties…”
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  6. 6

    A Method for Assessing the Robustness of Protein Structures by Randomizing Packing Interactions by Yadahalli, Shilpa, Jayanthi, Lakshmi P, Gosavi, Shachi

    Published in Frontiers in molecular biosciences (27-06-2022)
    “…Many single-domain proteins are not only stable and water-soluble, but they also populate few to no intermediates during folding. This reduces interactions…”
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  7. 7

    In the multi-domain protein adenylate kinase, domain insertion facilitates cooperative folding while accommodating function at domain interfaces by Giri Rao, V V Hemanth, Gosavi, Shachi

    Published in PLoS computational biology (01-11-2014)
    “…Having multiple domains in proteins can lead to partial folding and increased aggregation. Folding cooperativity, the all or nothing folding of a protein, can…”
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  8. 8

    Extracting function from a β-trefoil folding motif by Gosavi, Shachi, Whitford, Paul C, Jennings, Patricia A, Onuchic, José N

    “…Despite having remarkably similar three-dimensional structures and stabilities, IL-1β promotes signaling, whereas IL-1Ra inhibits it. Their energy landscapes…”
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  9. 9

    Engineering the kinetic stability of a β-trefoil protein by tuning its topological complexity by Anderson, Delaney M, Jayanthi, Lakshmi P, Gosavi, Shachi, Meiering, Elizabeth M

    Published in Frontiers in molecular biosciences (08-02-2023)
    “…Kinetic stability, defined as the rate of protein unfolding, is central to determining the functional lifetime of proteins, both in nature and in wide-ranging…”
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  10. 10

    Structure dictates the mechanism of ligand recognition in the histidine and maltose binding proteins by Jayanthi, Lakshmi P., Mascarenhas, Nahren Manuel, Gosavi, Shachi

    Published in Current research in structural biology (01-01-2020)
    “…Two mechanisms, induced fit (IF) and conformational selection (CS), have been proposed to explain ligand recognition coupled conformational changes. The…”
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  11. 11

    Nonadiabatic Electron Transfer at Metal Surfaces by Gosavi, Shachi, Marcus, R. A

    Published in The journal of physical chemistry. B (09-03-2000)
    “…The present article treats the role of the density of electronic states ρF at the Fermi level of a metal in affecting the rate of nonadiabatic electron…”
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  12. 12

    β-Bulge triggers route-switching on the functional landscape of interleukin-1β by Capraro, Dominique T, Roy, Melinda, Onuchic, José N, Gosavi, Shachi, Jennings, Patricia A

    “…Proteins fold into three-dimensional structures in a funneled energy landscape. This landscape is also used for functional activity. Frustration in this…”
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  13. 13

    Folding circular permutants of IL-1β: route selection driven by functional frustration by Capraro, Dominique T, Gosavi, Shachi, Roy, Melinda, Onuchic, José N, Jennings, Patricia A

    Published in PloS one (05-06-2012)
    “…Interleukin-1β (IL-1β) is the cytokine crucial to inflammatory and immune response. Two dominant routes are populated in the folding to native structure. These…”
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  14. 14

    Multiple Routes Lead to the Native State in the Energy Landscape of the β-Trefoil Family by Chavez, Leslie L., Gosavi, Shachi, Jennings, Patricia A., Onuchic, José N.

    “…In general, the energy landscapes of real proteins are sufficiently well designed that the depths of local energetic minima are small compared with the global…”
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  15. 15

    dual-basin landscape in GFP folding by Andrews, Benjamin T, Gosavi, Shachi, Finke, John M, Onuchic, José N, Jennings, Patricia A

    “…Recent experimental studies suggest that the mature GFP has an unconventional landscape composed of an early folding event with a typical funneled landscape,…”
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    Potential Self-Peptide Inhibitors of the SARS-CoV‑2 Main Protease by Banerjee, Arkadeep, Gosavi, Shachi

    Published in The journal of physical chemistry. B (02-02-2023)
    “…The SARS-CoV-2 main protease (Mpro) plays an essential role in viral replication, cleaving viral polyproteins into functional proteins. This makes Mpro an…”
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    Conformational Transitions in Adenylate Kinase by Whitford, Paul C., Gosavi, Shachi, Onuchic, José N.

    Published in The Journal of biological chemistry (25-01-2008)
    “…Large conformational changes in the LID and NMP domains of adenylate kinase (AKE) are known to be key to ligand binding and catalysis, yet the order of binding…”
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  20. 20

    Functionally Relevant Specific Packing Can Determine Protein Folding Routes by Yadahalli, Shilpa, Gosavi, Shachi

    Published in Journal of molecular biology (29-01-2016)
    “…Functional residues can modulate the folding mechanisms of proteins. In some proteins, mutations to such residues can radically change the primary folding…”
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