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Taras V. Pogorelov, Ph.D. - Publications

Affiliations: 
Chemistry, Biophysics University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
cell signaling, protein dynamics in complex environments, membrane-associated phenomena
Website:
http://pogorelov.scs.illinois.edu
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43 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Samuel Russell PP, Maytin AK, Rickard MM, Russell MC, Pogorelov TV, Gruebele M. Metastable States in the Hinge-Bending Landscape of an Enzyme in an Atomistic Cytoplasm Simulation. The Journal of Physical Chemistry Letters. 940-946. PMID 38252018 DOI: 10.1021/acs.jpclett.3c03134  0.768
2023 Samuel Russell PP, Alaeen S, Pogorelov TV. In-Cell Dynamics: The Next Focus of All-Atom Simulations. The Journal of Physical Chemistry. B. 127: 9863-9872. PMID 37793083 DOI: 10.1021/acs.jpcb.3c05166  0.424
2023 Russell PPS, Rickard MM, Boob M, Gruebele M, Pogorelov TV. In silico protein dynamics in the human cytoplasm: Partial folding, misfolding, fold switching, and non-native interactions. Protein Science : a Publication of the Protein Society. 32: e4790. PMID 37774143 DOI: 10.1002/pro.4790  0.761
2023 Cheng KJ, De Lio AM, Jain R, Paul D, Morrissey JH, Pogorelov TV. Lactadherin's Multistate Binding Predicts Stable Membrane-Bound Conformations of Factors V and VIII's C Domains. Biochemistry. PMID 37747791 DOI: 10.1021/acs.biochem.3c00274  0.796
2023 Della Ripa LA, Courtney JM, Phinney SM, Borcik CG, Burke MD, Rienstra CM, Pogorelov TV. Segmental Dynamics of Membranous Cholesterol are Coupled. Journal of the American Chemical Society. PMID 37410392 DOI: 10.1021/jacs.3c01775  0.42
2023 Boob MM, Sukenik S, Gruebele M, Pogorelov TV. TMAO: Protecting proteins from feeling the heat. Biophysical Journal. 122: 1414-1422. PMID 36916005 DOI: 10.1016/j.bpj.2023.03.008  0.798
2022 Rickard MM, Luo H, De Lio A, Gruebele M, Pogorelov TV. Impact of the Cellular Environment on Adenosine Triphosphate Conformations. The Journal of Physical Chemistry Letters. 9809-9814. PMID 36228115 DOI: 10.1021/acs.jpclett.2c02375  0.767
2022 Gu W, Zheng Y, Pogorelov T, Nair SK, Schmidt EW. Control of Nucleophile Chemoselectivity in Cyanobactin YcaO Heterocyclases PatD and TruD. Acs Chemical Biology. PMID 35420020 DOI: 10.1021/acschembio.2c00147  0.293
2021 Lewandowska A, Soutar CP, Greenwood AI, Nimerovsky E, De Lio AM, Holler JT, Hisao GS, Khandelwal A, Zhang J, SantaMaria AM, Schwieters CD, Pogorelov TV, Burke MD, Rienstra CM. Fungicidal amphotericin B sponges are assemblies of staggered asymmetric homodimers encasing large void volumes. Nature Structural & Molecular Biology. 28: 972-981. PMID 34887566 DOI: 10.1038/s41594-021-00685-4  0.783
2021 Ramesh S, Guo X, DiCaprio AJ, De Lio AM, Harris LA, Kille BL, Pogorelov TV, Mitchell DA. Bioinformatics-Guided Expansion and Discovery of Graspetides. Acs Chemical Biology. 16: 2787-2797. PMID 34766760 DOI: 10.1021/acschembio.1c00672  0.758
2021 Hudson GA, Burkhart BJ, DiCaprio AJ, Schwalen CJ, Kille B, Pogorelov TV, Mitchell DA. Correction to "Bioinformatic Mapping of Radical -Adenosylmethionine-Dependent Ribosomally Synthesized and Post-Translationally Modified Peptides Identifies New Cα, Cβ, and Cγ-Linked Thioether-Containing Peptides". Journal of the American Chemical Society. PMID 34197098 DOI: 10.1021/jacs.1c06285  0.212
2021 Light TP, Gomez-Soler M, Wang Z, Karl K, Zapata-Mercado E, Gehring MP, Lechtenberg BC, Pogorelov TV, Hristova K, Pasquale EB. A Cancer Mutation Promotes EphA4 Oligomerization and Signaling by Altering the Conformation of the SAM Domain. The Journal of Biological Chemistry. 100876. PMID 34139238 DOI: 10.1016/j.jbc.2021.100876  0.276
2020 Song J, Malwal SR, Baig N, Schurig-Briccio LA, Gao Z, Vaidya GS, Yang K, Abutaleb NS, Seleem MN, Gennis RB, Pogorelov TV, Oldfield E, Feng X. Discovery of Prenyltransferase Inhibitors with and Antibacterial Activity. Acs Infectious Diseases. PMID 33085463 DOI: 10.1021/acsinfecdis.0c00472  0.236
2020 Rickard MM, Zhang Y, Pogorelov TV, Gruebele M. Crowding, Sticking, and Partial Folding of GTT WW Domain in a Small Cytoplasm Model. The Journal of Physical Chemistry. B. 124: 4732-4740. PMID 32463238 DOI: 10.1021/Acs.Jpcb.0C02536  0.709
2019 Wang Z, Fan H, Hu X, Khamo J, Diao J, Zhang K, Pogorelov TV. Coaction of Electrostatic and Hydrophobic Interactions: Dynamic Constraints on Disordered TrkA Juxtamembrane Domain. The Journal of Physical Chemistry. B. PMID 31751135 DOI: 10.1021/Acs.Jpcb.9B09352  0.521
2019 Singharoy A, Maffeo C, Delgado-Magnero KH, Swainsbury DJK, Sener M, Kleinekathöfer U, Vant JW, Nguyen J, Hitchcock A, Isralewitz B, Teo I, Chandler DE, Stone JE, Phillips JC, Pogorelov TV, et al. Atoms to Phenotypes: Molecular Design Principles of Cellular Energy Metabolism. Cell. 179: 1098-1111.e23. PMID 31730852 DOI: 10.1016/J.Cell.2019.10.021  0.738
2019 Rickard MM, Zhang Y, Gruebele M, Pogorelov TV. In-Cell Protein-Protein Contacts: Transient Interactions in the Crowd. The Journal of Physical Chemistry Letters. 5667-5673. PMID 31483661 DOI: 10.1021/Acs.Jpclett.9B01556  0.797
2019 Hudson GA, Burkhart BJ, DiCaprio AJ, Schwalen C, Kille B, Pogorelov TV, Mitchell DA. Bioinformatic mapping of radical SAM-dependent RiPPs identifies new Cα, Cβ, and Cγ-linked thioether-containing peptides. Journal of the American Chemical Society. PMID 31059252 DOI: 10.1021/Jacs.9B01519  0.35
2019 Prigozhin MB, Zhang Y, Schulten K, Gruebele M, Pogorelov TV. Fast pressure-jump all-atom simulations and experiments reveal site-specific protein dehydration-folding dynamics. Proceedings of the National Academy of Sciences of the United States of America. PMID 30837309 DOI: 10.1073/Pnas.1814927116  0.726
2018 Hallock MJ, Greenwood AI, Wang Y, Morrissey JH, Tajkhorshid E, Rienstra CM, Pogorelov TV. Calcium-induced lipid nanocluster structures: sculpturing of the plasma membrane. Biochemistry. PMID 30456950 DOI: 10.1021/Acs.Biochem.8B01069  0.618
2018 Boob MM, Sukenik S, Pogorelov TV, Gruebele M. The Role of TMAO in Protein Folding: A Joint Experimental and Simulation Study Biophysical Journal. 114: 51a. DOI: 10.1016/J.Bpj.2017.11.332  0.609
2018 Hallock MJ, Golubeva YA, Pogorelov TV. Anionic Lipids Take Charge: Juxtamembrane Domain Interactions with Cellular Membrane Biophysical Journal. 114: 463a. DOI: 10.1016/J.Bpj.2017.11.2556  0.364
2017 Cogan DP, Hudson GA, Zhang Z, Pogorelov TV, van der Donk WA, Mitchell DA, Nair SK. Structural insights into enzymatic [4+2] aza-cycloaddition in thiopeptide antibiotic biosynthesis. Proceedings of the National Academy of Sciences of the United States of America. PMID 29158402 DOI: 10.1073/Pnas.1716035114  0.452
2017 Vermaas JV, Pogorelov TV, Tajkhorshid E. Extension of the Highly Mobile Membrane Mimetic to Transmembrane Systems through Customized in Silico Solvents. The Journal of Physical Chemistry. B. PMID 28241729 DOI: 10.1021/Acs.Jpcb.6B11378  0.804
2017 Hallock MJ, Greenwood A, Wang Y, Morrissey JH, Tajkhorshid E, Rienstra C, Pogorelov TV. Calcium-Induced Sculpturing of the Plasma Membrane: Lipid Microclusters Cast by Anionic Lipids Biophysical Journal. 112: 467a-468a. DOI: 10.1016/J.Bpj.2016.11.2508  0.568
2016 Sukenik S, Pogorelov TV, Gruebele M. Can Local Probes Go Global? A Joint Experiment-Simulation Analysis of λ6-85 Folding. The Journal of Physical Chemistry Letters. PMID 27101436 DOI: 10.1021/Acs.Jpclett.6B00582  0.633
2016 Skeby KK, Andersen OJ, Pogorelov TV, Tajkhorshid E, Schiøtt B. Conformational Dynamics of the Human Islet Amyloid Polypeptide in a Membrane Environment - towards the Aggregation Prone Form. Biochemistry. PMID 26953503 DOI: 10.1021/Acs.Biochem.5B00507  0.624
2016 Baylon JL, Vermaas JV, Muller MP, Arcario MJ, Pogorelov TV, Tajkhorshid E. Atomic-Level Description of Protein-Lipid Interactions Using an Accelerated Membrane Model. Biochimica Et Biophysica Acta. PMID 26940626 DOI: 10.1016/J.Bbamem.2016.02.027  0.805
2015 Qi Y, Cheng X, Lee J, Vermaas JV, Pogorelov TV, Tajkhorshid E, Park S, Klauda JB, Im W. CHARMM-GUI HMMM Builder for Membrane Simulations with the Highly Mobile Membrane-Mimetic Model. Biophysical Journal. 109: 2012-2022. PMID 26588561 DOI: 10.1016/J.Bpj.2015.10.008  0.775
2015 Davis SA, Della Ripa LA, Hu L, Cioffi AG, Pogorelov TV, Rienstra CM, Burke MD. The C3-OH of Amphotericin B Plays an Important Role in Ion Conductance. Journal of the American Chemical Society. PMID 26580003 DOI: 10.1021/Jacs.5B05766  0.382
2015 Prigozhin MB, Chao SH, Sukenik S, Pogorelov TV, Gruebele M. Mapping fast protein folding with multiple-site fluorescent probes. Proceedings of the National Academy of Sciences of the United States of America. 112: 7966-71. PMID 26080403 DOI: 10.1073/Pnas.1422683112  0.663
2015 Vermaas JV, Baylon JL, Arcario MJ, Muller MP, Wu Z, Pogorelov TV, Tajkhorshid E. Efficient Exploration of Membrane-Associated Phenomena at Atomic Resolution. The Journal of Membrane Biology. 248: 563-82. PMID 25998378 DOI: 10.1007/S00232-015-9806-9  0.789
2015 Anisimov VM, Hallock MJ, Pogorelov TV. CDD: Computational discovery desktop Acm International Conference Proceeding Series. 2015. DOI: 10.1145/2792745.2792788  0.209
2014 Goodman JS, Chao SH, Pogorelov TV, Gruebele M. Filling up the heme pocket stabilizes apomyoglobin and speeds up its folding. The Journal of Physical Chemistry. B. 118: 6511-8. PMID 24456280 DOI: 10.1021/Jp412459Z  0.671
2014 Pogorelov TV, Vermaas JV, Arcario MJ, Tajkhorshid E. Partitioning of amino acids into a model membrane: capturing the interface. The Journal of Physical Chemistry. B. 118: 1481-92. PMID 24451004 DOI: 10.1021/Jp4089113  0.785
2012 Ohkubo YZ, Pogorelov TV, Arcario MJ, Christensen GA, Tajkhorshid E. Accelerating membrane insertion of peripheral proteins with a novel membrane mimetic model. Biophysical Journal. 102: 2130-9. PMID 22824277 DOI: 10.1016/J.Bpj.2012.03.015  0.65
2012 Pogorelov TV, Tajkhorshid E. Glycophorin a Helix Insertion, Positioning, and Dimerization in Model Membranes Biophysical Journal. 102: 413a. DOI: 10.1016/J.Bpj.2011.11.2260  0.624
2011 Tavoosi N, Davis-Harrison RL, Pogorelov TV, Ohkubo YZ, Arcario MJ, Clay MC, Rienstra CM, Tajkhorshid E, Morrissey JH. Molecular determinants of phospholipid synergy in blood clotting. The Journal of Biological Chemistry. 286: 23247-53. PMID 21561861 DOI: 10.1074/Jbc.M111.251769  0.667
2010 Morrissey JH, Davis-Harrison RL, Tavoosi N, Ke K, Pureza V, Boettcher JM, Clay MC, Rienstra CM, Ohkubo YZ, Pogorelov TV, Tajkhorshid E. Protein-phospholipid interactions in blood clotting. Thrombosis Research. 125: S23-5. PMID 20129649 DOI: 10.1016/J.Thromres.2010.01.027  0.701
2009 Virshup AM, Punwong C, Pogorelov TV, Lindquist BA, Ko C, Martínez TJ. Photodynamics in complex environments: ab initio multiple spawning quantum mechanical/molecular mechanical dynamics. The Journal of Physical Chemistry. B. 113: 3280-91. PMID 19090684 DOI: 10.1021/Jp8073464  0.752
2007 Pogorelov TV, Autenrieth F, Roberts E, Luthey-Schulten ZA. Cytochrome c(2) Exit Strategy: Dissociation Studies and Evolutionary Implications. The Journal of Physical Chemistry. B. 111: 618-34. PMID 17228920 DOI: 10.1021/Jp064973I  0.728
2004 Pogorelov TV, Luthey-Schulten Z. Variations in the fast folding rates of the lambda-repressor: a hybrid molecular dynamics study. Biophysical Journal. 87: 207-14. PMID 15240458 DOI: 10.1529/Biophysj.104.042861  0.675
2002 Hardin C, Pogorelov TV, Luthey-Schulten Z. Ab initio protein structure prediction. Current Opinion in Structural Biology. 12: 176-81. PMID 11959494 DOI: 10.1016/S0959-440X(02)00306-8  0.676
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