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Oleg Y. Borbulevych - Publications

Affiliations: 
2008 University of Notre Dame, Notre Dame, IN, United States 
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24 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
2018 Borbulevych O, Martin RI, Westerhoff LM. High-throughput quantum-mechanics/molecular-mechanics (ONIOM) macromolecular crystallographic refinement with PHENIX/DivCon: the impact of mixed Hamiltonian methods on ligand and protein structure. Acta Crystallographica. Section D, Structural Biology. 74: 1063-1077. PMID 30387765 DOI: 10.1107/S2059798318012913  0.337
2016 Borbulevych O, Martin RI, Tickle IJ, Westerhoff LM. XModeScore: a novel method for accurate protonation/tautomer-state determination using quantum-mechanically driven macromolecular X-ray crystallographic refinement. Acta Crystallographica. Section D, Structural Biology. 72: 586-98. PMID 27050137 DOI: 10.1107/S2059798316002837  0.302
2016 Borbulevych OY, Westerhoff LM. The Impact of Experimental, Protein Structure on our Ability to Model Protein Function Biophysical Journal. 110: 544a. DOI: 10.1016/J.Bpj.2015.11.2911  0.367
2015 Borbulevych OY, Westerhoff LM. Accurate Determination of Tautomeric/Protonation States in Quantum-Mechanic Driven Macromolecular Crystallographic Refinement Biophysical Journal. 108: 620a. DOI: 10.1016/J.Bpj.2014.11.3374  0.322
2014 Borbulevych OY, Plumley JA, Martin RI, Merz KM, Westerhoff LM. Accurate macromolecular crystallographic refinement: incorporation of the linear scaling, semiempirical quantum-mechanics program DivCon into the PHENIX refinement package. Acta Crystallographica. Section D, Biological Crystallography. 70: 1233-47. PMID 24816093 DOI: 10.1107/S1399004714002260  0.312
2014 Borbulevych O, Westerhoff L. High-performance, quantum mechanics-based macromolecular x-ray refinement Acta Crystallographica Section a Foundations and Advances. 70: C1446-C1446. DOI: 10.1107/S2053273314085532  0.334
2013 Cole DK, Sami M, Scott DR, Rizkallah PJ, Borbulevych OY, Todorov PT, Moysey RK, Jakobsen BK, Boulter JM, Baker BM, Yi Li. Increased Peptide Contacts Govern High Affinity Binding of a Modified TCR Whilst Maintaining a Native pMHC Docking Mode. Frontiers in Immunology. 4: 168. PMID 23805144 DOI: 10.3389/Fimmu.2013.00168  0.814
2012 Kumarasiri M, Llarrull LI, Borbulevych O, Fishovitz J, Lastochkin E, Baker BM, Mobashery S. An amino acid position at crossroads of evolution of protein function: antibiotic sensor domain of BlaR1 protein from Staphylococcus aureus versus clasS D β-lactamases. The Journal of Biological Chemistry. 287: 8232-41. PMID 22262858 DOI: 10.1074/Jbc.M111.333179  0.525
2011 Scott DR, Borbulevych OY, Piepenbrink KH, Corcelli SA, Baker BM. Disparate degrees of hypervariable loop flexibility control T-cell receptor cross-reactivity, specificity, and binding mechanism. Journal of Molecular Biology. 414: 385-400. PMID 22019736 DOI: 10.1016/J.Jmb.2011.10.006  0.814
2011 Insaidoo FK, Borbulevych OY, Hossain M, Santhanagopolan SM, Baxter TK, Baker BM. Loss of T cell antigen recognition arising from changes in peptide and major histocompatibility complex protein flexibility: implications for vaccine design. The Journal of Biological Chemistry. 286: 40163-73. PMID 21937447 DOI: 10.1074/jbc.M111.283564  0.8
2011 Borbulevych OY, Santhanagopolan SM, Hossain M, Baker BM. TCRs used in cancer gene therapy cross-react with MART-1/Melan-A tumor antigens via distinct mechanisms. Journal of Immunology (Baltimore, Md. : 1950). 187: 2453-63. PMID 21795600 DOI: 10.4049/Jimmunol.1101268  0.789
2011 Borbulevych O, Kumarasiri M, Wilson B, Llarrull LI, Lee M, Hesek D, Shi Q, Peng J, Baker BM, Mobashery S. Lysine Nzeta-decarboxylation switch and activation of the beta-lactam sensor domain of BlaR1 protein of methicillin-resistant Staphylococcus aureus. The Journal of Biological Chemistry. 286: 31466-72. PMID 21775440 DOI: 10.1074/Jbc.M111.252189  0.493
2011 Borbulevych OY, Piepenbrink KH, Baker BM. Conformational melding permits a conserved binding geometry in TCR recognition of foreign and self molecular mimics. Journal of Immunology (Baltimore, Md. : 1950). 186: 2950-8. PMID 21282516 DOI: 10.4049/Jimmunol.1003150  0.82
2010 Douat-Casassus C, Borbulevych O, Tarbe M, Gervois N, Jotereau F, Baker BM, Quideau S. Crystal structures of HLA-A*0201 complexed with Melan-A/MART-1(26(27L)-35) peptidomimetics reveal conformational heterogeneity and highlight degeneracy of T cell recognition. Journal of Medicinal Chemistry. 53: 7061-6. PMID 20806940 DOI: 10.1021/Jm100683P  0.715
2010 Borbulevych OY, Do P, Baker BM. Structures of native and affinity-enhanced WT1 epitopes bound to HLA-A*0201: implications for WT1-based cancer therapeutics. Molecular Immunology. 47: 2519-24. PMID 20619457 DOI: 10.1016/J.Molimm.2010.06.005  0.739
2009 Borbulevych OY, Piepenbrink KH, Gloor BE, Scott DR, Sommese RF, Cole DK, Sewell AK, Baker BM. T cell receptor cross-reactivity directed by antigen-dependent tuning of peptide-MHC molecular flexibility. Immunity. 31: 885-96. PMID 20064447 DOI: 10.1016/J.Immuni.2009.11.003  0.73
2009 Piepenbrink KH, Borbulevych OY, Sommese RF, Clemens J, Armstrong KM, Desmond C, Do P, Baker BM. Fluorine substitutions in an antigenic peptide selectively modulate T-cell receptor binding in a minimally perturbing manner. The Biochemical Journal. 423: 353-61. PMID 19698083 DOI: 10.1042/Bj20090732  0.834
2007 Borbulevych OY, Insaidoo FK, Baxter TK, Powell DJ, Johnson LA, Restifo NP, Baker BM. Structures of MART-126/27-35 Peptide/HLA-A2 complexes reveal a remarkable disconnect between antigen structural homology and T cell recognition. Journal of Molecular Biology. 372: 1123-36. PMID 17719062 DOI: 10.1016/J.Jmb.2007.07.025  0.833
2006 Gagnon SJ, Borbulevych OY, Davis-Harrison RL, Turner RV, Damirjian M, Wojnarowicz A, Biddison WE, Baker BM. T cell receptor recognition via cooperative conformational plasticity. Journal of Molecular Biology. 363: 228-43. PMID 16962135 DOI: 10.1016/J.Jmb.2006.08.045  0.837
2006 Skrzypczak-Jankun E, Borbulevych OY, Zavodszky MI, Baranski MR, Padmanabhan K, Petricek V, Jankun J. Effect of crystal freezing and small-molecule binding on internal cavity size in a large protein: X-ray and docking studies of lipoxygenase at ambient and low temperature at 2.0 A resolution. Acta Crystallographica. Section D, Biological Crystallography. 62: 766-75. PMID 16790932 DOI: 10.1107/S0907444906016982  0.381
2005 Gagnon SJ, Borbulevych OY, Davis-Harrison RL, Baxter TK, Clemens JR, Armstrong KM, Turner RV, Damirjian M, Biddison WE, Baker BM. Unraveling a hotspot for TCR recognition on HLA-A2: evidence against the existence of peptide-independent TCR binding determinants. Journal of Molecular Biology. 353: 556-73. PMID 16197958 DOI: 10.1016/J.Jmb.2005.08.024  0.82
2005 Borbulevych OY, Baxter TK, Yu Z, Restifo NP, Baker BM. Increased immunogenicity of an anchor-modified tumor-associated antigen is due to the enhanced stability of the peptide/MHC complex: implications for vaccine design. Journal of Immunology (Baltimore, Md. : 1950). 174: 4812-20. PMID 15814707 DOI: 10.4049/Jimmunol.174.8.4812  0.75
2005 Borbulevych OY. The first crystal structure of a Meisenheimer complex with organic cation Journal of Chemical Crystallography. 35: 777-781. DOI: 10.1007/S10870-005-3887-8  0.308
1998 Borbulevych OY, Shishkin OV. Conformational flexibility of antiaromatic 1,4 heterocyclic analogues of 1,4-cyclohexadiene Journal of Molecular Structure. 446: 11-14. DOI: 10.1016/S0022-2860(97)00307-4  0.3
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