Search Results - "Litman, Jacob M."

Crystal structures of PCNA mutant proteins defective in gene silencing suggest a novel interaction site on the front face of the PCNA ring by Kondratick, Christine M, Litman, Jacob M, Shaffer, Kurt V, Washington, M Todd, Dieckman, Lynne M

“…Proliferating cell nuclear antigen (PCNA), a homotrimeric protein, is the eukaryotic sliding clamp that functions as a processivity factor for polymerases…”
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Dead-End Elimination with a Polarizable Force Field Repacks PCNA Structures by LuCore, Stephen D., Litman, Jacob M., Powers, Kyle T., Gao, Shibo, Lynn, Ava M., Tollefson, William T.A., Fenn, Timothy D., Washington, M. Todd, Schnieders, Michael J.

“…A balance of van der Waals, electrostatic, and hydrophobic forces drive the folding and packing of protein side chains. Although such interactions between…”
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Atomic Polarizabilities for Interactive Dipole Induction Models by Litman, Jacob M, Liu, Chengwen, Ren, Pengyu

“…Thole-style mutual induction models for molecular polarization have been adopted by several popular polarizable force fields (FFs) for their simplicity and…”
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Force Field X: A computational microscope to study genetic variation and organic crystals using theory and experiment by Gogal, Rose A, Nessler, Aaron J, Thiel, Andrew C, Bernabe, Hernan V, Corrigan Grove, Rae A, Cousineau, Leah M, Litman, Jacob M, Miller, Jacob M, Qi, Guowei, Speranza, Matthew J, Tollefson, Mallory R, Fenn, Timothy D, Michaelson, Jacob J, Okada, Okimasa, Piquemal, Jean-Philip, Ponder, Jay W, Shen, Jana, Smith, Richard J H, Yang, Wei, Ren, Pengyu, Schnieders, Michael J

“…Force Field X (FFX) is an open-source software package for atomic resolution modeling of genetic variants and organic crystals that leverages advanced…”
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Structural Insights into Hearing Loss Genetics from Polarizable Protein Repacking by Tollefson, Mallory R., Litman, Jacob M., Qi, Guowei, O’Connell, Claire E., Wipfler, Matthew J., Marini, Robert J., Bernabe, Hernan V., Tollefson, William T.A., Braun, Terry A., Casavant, Thomas L., Smith, Richard J.H., Schnieders, Michael J.

“…Hearing loss is associated with ∼8100 mutations in 152 genes, and within the coding regions of these genes are over 60,000 missense variants. The majority of…”
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Characterization of a TP53 Somatic Variant of Unknown Function From an Ovarian Cancer Patient Using Organoid Culture and Computational Modeling by BI, JIANLING, THIEL, KRISTINA W., LITMAN, JACOB M., ZHANG, YUPING, DEVOR, ERIC J., NEWTSON, ANDREEA M., SCHNIEDERS, MICHAEL J., GONZALEZ BOSQUET, JESUS, LESLIE, KIMBERLY K.

“…In our proof-of-concept study of 1 patient with stage IIIC carcinosarcoma of the ovary, we discovered a rare mutation in the tumor suppressor, TP53, that…”
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Polarizable Amoeba Force Field Metadynamics with Minimization Predicts Missing Protein Loops by Avdic, Armin, Tollefson, Mallory R., Tatro, Nicole, LuCore, Stephen D., Litman, Jacob M., Fenn, Timothy D., Schnieders, Michael J.

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Protein Sequence Optimization with a Polarizable Force Field: Insights from PDZ Domains by Litman, Jacob M., Joo Sun, Young, Hou, Titus, LuCore, Stephen D., Panel, Nicolas, Simonson, Thomas, Fuentes, Ernesto J., Schnieders, Michael J.

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