Brian N Dominy

TitleAssociate Professor
InstitutionClemson University
DepartmentDepartment of Chemistry
Address223 Hunter Hall
Clemson, South Carolina 29634
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Jia Z, Ackroyd C, Han T, Agrawal V, Liu Y, Christensen K, Dominy B. Effects from metal ion in tumor endothelial marker 8 and anthrax protective antigen: BioLayer Interferometry experiment and molecular dynamics simulation study. J Comput Chem. 2017 06 05; 38(15):1183-1190. PMID: 28437008.
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    2. Xia B, Liu Y, Guevara J, Li J, Jilich C, Yang Y, Wang L, Dominy BN, Cao W. Correlated Mutation in the Evolution of Catalysis in Uracil DNA Glycosylase Superfamily. Sci Rep. 2017 04 11; 7:45978. PMID: 28397787.
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    3. Lee DH, Liu Y, Lee HW, Xia B, Brice AR, Park SH, Balduf H, Dominy BN, Cao W. A structural determinant in the uracil DNA glycosylase superfamily for the removal of uracil from adenine/uracil base pairs. Nucleic Acids Res. 2015 Jan; 43(2):1081-9. PMID: 25550433.
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    4. Xia B, Liu Y, Li W, Brice AR, Dominy BN, Cao W. Specificity and catalytic mechanism in family 5 uracil DNA glycosylase. J Biol Chem. 2014 Jun 27; 289(26):18413-26. PMID: 24838246.
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    5. Singh MK, Dominy BN. The evolution of cefotaximase activity in the TEM ß-lactamase. J Mol Biol. 2012 Jan 06; 415(1):205-20. PMID: 22075446.
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    6. Lee HW, Dominy BN, Cao W. New family of deamination repair enzymes in uracil-DNA glycosylase superfamily. J Biol Chem. 2011 Sep 09; 286(36):31282-7. PMID: 21642431.
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    7. Singh MK, Streu K, McCrone AJ, Dominy BN. The evolution of catalytic function in the HIV-1 protease. J Mol Biol. 2011 May 13; 408(4):792-805. PMID: 21376058.
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    8. Brice AR, Dominy BN. Analyzing the robustness of the MM/PBSA free energy calculation method: application to DNA conformational transitions. J Comput Chem. 2011 May; 32(7):1431-40. PMID: 21284003.
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    9. Lee HW, Brice AR, Wright CB, Dominy BN, Cao W. Identification of Escherichia coli mismatch-specific uracil DNA glycosylase as a robust xanthine DNA glycosylase. J Biol Chem. 2010 Dec 31; 285(53):41483-90. PMID: 20852254.
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    10. Singh MK, Dominy BN. Thermodynamic resolution: how do errors in modeled protein structures affect binding affinity predictions? Proteins. 2010 May 15; 78(7):1613-7. PMID: 20201067.
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    11. Mi R, Dong L, Kaulgud T, Hackett KW, Dominy BN, Cao W. Insights from xanthine and uracil DNA glycosylase activities of bacterial and human SMUG1: switching SMUG1 to UDG. J Mol Biol. 2009 Jan 23; 385(3):761-78. PMID: 18835277.
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    12. Dominy BN. Molecular recognition and binding free energy calculations in drug development. Curr Pharm Biotechnol. 2008 Apr; 9(2):87-95. PMID: 18393865.
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    13. Sun Y, Dominy BN, Latour RA. Comparison of solvation-effect methods for the simulation of peptide interactions with a hydrophobic surface. J Comput Chem. 2007 Aug; 28(11):1883-92. PMID: 17405115.
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    14. Dominy BN, Minoux H, Brooks CL. An electrostatic basis for the stability of thermophilic proteins. Proteins. 2004 Oct 01; 57(1):128-41. PMID: 15326599.
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    15. Dominy BN, Shakhnovich EI. Native atom types for knowledge-based potentials: application to binding energy prediction. J Med Chem. 2004 Aug 26; 47(18):4538-58. PMID: 15317465.
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    16. Liu Z, Dominy BN, Shakhnovich EI. Structural mining: self-consistent design on flexible protein-peptide docking and transferable binding affinity potential. J Am Chem Soc. 2004 Jul 14; 126(27):8515-28. PMID: 15238009.
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    17. Dominy BN, Perl D, Schmid FX, Brooks CL. The effects of ionic strength on protein stability: the cold shock protein family. J Mol Biol. 2002 May 31; 319(2):541-54. PMID: 12051927.
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    18. Dominy BN, Brooks CL. Identifying native-like protein structures using physics-based potentials. J Comput Chem. 2002 Jan 15; 23(1):147-60. PMID: 11913380.
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    19. Dominy BN, Brooks CL. Methodology for protein-ligand binding studies: application to a model for drug resistance, the HIV/FIV protease system. Proteins. 1999 Aug 15; 36(3):318-31. PMID: 10409825.
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    20. Mohanty D, Dominy BN, Kolinski A, Brooks CL, Skolnick J. Correlation between knowledge-based and detailed atomic potentials: application to the unfolding of the GCN4 leucine zipper. Proteins. 1999 Jun 01; 35(4):447-52. PMID: 10382672.
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