Publications

  1. Eilers G*, Gupta K*, Allen A, Montermoso S, Murali H, Sharp R, Hwang Y, Bushman FD, Van Duyne G. Structure of a HIV-1 IN-Allosteric inhibitor complex at 2.93 Å resolution: Routes to inhibitor optimization. PLoS Pathog. 2023 Mar;19(3):e1011097. doi: 10.1371/journal.ppat.1011097. (*=co-first authors)
  2. Faylo JL, van Eeuwen T, Gupta K, Murakami K, Christianson D. Order in the Core: Transient Prenyltransferase-Cyclase Association in Bifunctional Fuscoccadiene Synthase. Biochemistry 61(21):2417-2430 (2022).
  3. Cupo RR, Rizo AN, Braun GA, Tse E, Chuang E, Gupta K, Southworth DR, Shorter J. Unique structural features govern the activity of a human mitochondrial AAA+ disaggregase, Skd3. Cell Reports 40(13):111408 (2022).
  4. Doll SG, Meshkin H, Bryer AJ, Li F, Ko YH, Lokareddy RK, Gillian R, Gupta K, Perilla JR, Cingolani C. Recognition and phosphorylation of the TDP-43 Nuclear Localization Signal. Cell Reports 39(13):111007 (2022).
  5. Xia P, Dutta A, Koppula A, Gupta K, Batish M, Parashar V. Structural basis of oligoadenylate binding by Csa3 transcription factors. Journal of Biological Chemistry 298(2):101591 (2021).
  6. Gupta K, Wen Y, Ninan NS, Raimer AC, Sharp R, Spring AM, Johnson MC, Van Duyne GD, Matera AG. Assembly of higher-order SMN oligomers is essential for metazoan viability and requires an exposed structural motif present in the YG zipper dimer. Nucleic Acids Research 49(13):7644-7664 (2021).
  7. Gupta K, Allen A, Giraldo C, Eilers G, Sharp R, Hwang Y, Cruz K, Janmey P, Bushman F, Van Duyne GD. Drug-induced aggregates of HIV-1 Integrase are branched polymers with the properties of weak gels. Structure 29(3):213-225 (2021)
  8. Arturo EC, Merkel G, Hansen MR, Lisowski S, R, Almeida D, Gupta K, Jaffe EK. Manipulation of a cation-π sandwich expands knowledge of the conformational flexibility of mammalian phenylalanine hydroxylase. Accepted, Biochimie (2020).
  9. Eilers, G, Gupta K, Allen A, Zhou J, Hwang Y, Cory MB, Bushman FD, Van Duyne G. Influence of the amino-terminal sequence on the structure and function of HIV integrase. Retrovirology 17(1): 28, (2020)
  10. Gupta K. Hiding the Elephant in the Room with Experimental Neutrons. Biophys J 119(2): 234-235 (2020)
  11. O'Brien ES, Fuglestad B, Lessen HJ, Stetz MA, Lin DW, Marques BS, Gupta, K, Fleming KG, Wand AJ. Membrane Proteins Have Distinct Fast Internal Motion and Residual Conformational Entropy. Angew Chem Int Ed Engl 59(27): 11108-11114 (2020)
  12. Ronnebaum TA, Gupta K, Christianson DW. Higher-order oligomerization of a chimeric αβγ bifunctional diterpene synthase with prenyltransferase and class II cyclase activities is concentration-dependent. J Struct Biol 210(1): 107463 (2020)
  13. Fung HYJ, McKibben KM, Ramirez J, Gupta K, Rhoades E. Structural Characterization of Tau in Fuzzy Tau:Tubulin Complexes. Structure 28(3): 378-384.e4, 2020.
  14. Arturo EC*, Gupta K*, Hansen MR, Borne E, Jaffe EK. Biophysical characterization of full-length human phenylalanine hydroxylase provides a deeper understanding of its quaternary structure equilibrium. J Biol Chem 294(26): 10131-10145, 2019. (*=co-first authors)
  15. Fugelstad B, Gupta K, Wand AJ, Sharp, KA. Water Loading Driven Size, Shape, and Composition of CTAB/hexanol/pentane Reverse Micelles. The Journal of Colloid and Interface Science, Mar 22;540:207-217. doi: 10.1016/j.jcis.2019.01.016. Epub 2019 Jan 6 (2019)
  16. Ashkar R, Bilheux HZ, Bordallo HN, Briber RM, Callaway DJE,  Cheng X, Chu XQ, Curtis JE, Dadmun M, Fenimore PW, Fushman D, Gabel F, Gupta K, Heberle FA, Heinrich F, Hong L, Katsaras J, Kelman Z, Kharlampieva E, Kneller GR, Kovalevsky A, Krueger S, Langan P, Liberman RL, Liu Y, Losche M, Lyman E, Mao Y, Marino JP, Mattos C, Meilleur F, Moody PCE, Nickels JD, O’Neill H, Perez-Salas U, Peters J, Petridis L, Sokolov AP, Wager NJ, Weinrich M, Wymore T, Zhang Y, Smith JC. Progress and Prospects for Neutron Scattering in Biological Sciences. Acta. Cryst. D. Dec 1;74(Pt 12):1129-1168. doi: 10.1107/S2059798318017503. Epub 2018 Dec 20 (2018).
  17. Li H, Sharp R, Rutherford K, Gupta, K, Van Duyne GD. Sequence requirements of the Listeria innocua prophage attP site. Journal of Molecular Biology Oct 19;430(21):4401-4418. doi: 10.1016/j.jmb.2018.09.007 (2018).  
  18. Ray-Gallet D, Ricketts MD, Sato Y, Gupta K, Boyarchuk E, Senda T, Marmorstein R, Almouzni G.: Functional activity of the H3.3 histone chaperone complex HIRA requires trimerization of the HIRA subunit. Nature Communications 9(1): 3103, August 2018.
  19. Gray K, Kaifer K, Baillat D, Wen Y, Bonacci T, Ebert A, Raimer A, Spring A, Have S, Glascock J, Gupta K, Van Duyne GD, Emanuele M, Lamond A, Wagner E, Lorson C, Matera AG. Self-oligomerization regulates stability of Survival Motor Neuron (SMN) protein isoforms by sequestering an SCFSlmb degron. Molecular Biology of the Cell, 29(2):96-110. (2017)
  20. Gupta K, Sharp R, Yuan JB, Li H, Van Duyne GD. Coiled coil Interactions that Mediate Serine Integrase Directionality. Nucleic Acids Research, 45(12):7339-7353 (2017)
  21. Mandali S, Dawson AR, Gupta K, Van Duyne GD, Johnson RC. Control of Recombination Directionality by the Phage A118 Protein Gp44 and the Coiled-Coil Motif of its Serine Integrase. J. Bacteriol. Mar 13. pii: JB.00019-17. doi: 10.1128/JB.00019-17 (2017)
  22. Gupta K*, Turkki V*, Sherril-Mix S, Hwang Y, Eilers G, Taylor G, McDanal C, Wang P, Temelkoff D, Nolte RT, Velthusien E, Jeffery J, Van Duyne GD, Bushman FD. Structural Basis for Inhibitor-induced Aggregation of HIV Integrase. PLOS Biology http://dx.doi.org/10.1371/journal.pbio.1002584 (2016) (*=co-first authors)
  23. Eisemann T, McCauley M, Langelier MF, Gupta K, Roy S, Van Duyne GD, Pascal JM.  Tankyrase-1 Ankyrin Repeats Form an Adaptable Binding Platform for Targets of ADP-ribose Modification. Structure Sep 1. pii: S0969-2126(16)30225-8 (2016)  
  24. Arturo EC, Gupta K, Heroux A, Stith L, Cross PJ, Parker EJ, Loll PJ, Jaffe EK. The First Structure of Full-Length Mammalian Phenylalanine Hydroxylase Reveals the Architecture of an Auto-Inhibited Tetramer. Proceedings of the National Academy of Sciences Mar 1;113(9):2394-9 (2016)
  25. Fuglestad B, Gupta K, Wand AJ, Sharp KA. Experimentally Benchmarked Molecular Dynamics Simulations of Cetyl Trimethylammonium Bromide/Hexanol Reverse Micelles. Langmuir Feb 23;32(7):1674-84 (2016)
  26. Gupta K, Martin R, Sharp R, Sarachan K, Ninan N, Van Duyne GD. Oligomeric properties of SMN•Gemin2 complexes. The Journal of Biological Chemistry Aug 14;290(33):20185-99 (2015)
  27. Falk SJ, Guo, LY, Sekulic N, Smoak EM, Mani T, Logsdon G, Gupta K, Jansen LET, Van Duyne GD, Vinogradov SA, Lampson MA, Black BE. CENP-C reshapes and stabilizes CENP-A nucleosomes at the centromere. Science 348(6235): 699-703 (2015)
  28. Sweeny EA, Jackrel ME, Go MS, Sochor MA, Razzo BM, DeSantis ME, Gupta K, Shorter J. The Hsp104 N-terminal domain enables disaggregase plasticity and potentiation. Molecular Cell 57:1-14, (2015)
  29. Tao Z, Fusco A, Huang D, Gupta K, Ware CF, Van Duyne GD, Ghosh G. p100/IκBδ sequesters and inhibits NF-κB through κBsome formation. Proceedings of the National Academy of Sciences 111(45): 15946-51 (2014)
  30. Gupta K, Brady T, Dyer B, Hwang Y, Male F, Nolte R, Jeffries J, Van Duyne GD, Bushman FD. Inhibition of Late Replication Steps by an Allosteric Human Immunodeficiency Virus Integrase Inhibitor is Associated with Multimerization of Specific Structural Domains. The Journal of Biological Chemistry 289(30):20477-20488 (2014). * journal cover
  31. Gupta K, Contreras LM, Smith D, Qu G, Huang T, Spruce L, Seeholzer S, Belfort M, Van Duyne GD. Quaternary Arrangement of an Active, Native Group II Intron Ribonucleoprotein Complex revealed by Small-angle X-ray Scattering. Nucleic Acids Research 42(8):5347-60 (2014).
  32. DeSantis ME, Sweeny EA, Snead D, Leung EH, Go MS, Gupta K, Wendler P, Shorter J. Conserved Distal Loop Residues in the Hsp104 and ClpB Middle Domain Contact Nucleotide-Binding Domain 2 and enable Hsp70-Dependent Protein Disaggregation. The Journal of Biological Chemistry 289(2): 848-67 (2014).
  33. Martin R, Gupta K, Ninan N, Perry K, Van Duyne GD. The Survival of Motor Neurons Protein Forms Soluble Glycine Zipper Oligomers. Structure 20(11):1929-39 (2012).
  34. Larue R, Gupta K, Wuench C, Shkriabai N, Kessl J, Danhart E, Feng L, Van Duyne GD, Debyser Z, Foster M, Kvaratskhelia M. HIV-1 Integrase C-Terminal Domain Interacts With The Cargo Domain of TNPO3 in vitro. The Journal of Biological Chemistry 287(41):34044-58 (2012).
  35. Gupta K, Curtis J, Krueger S, Hwang Y, Hare S, Cherepanov P, Bushman F, Van Duyne GD. Solution Conformations of Prototype Foamy Virus Integrase and Its Stable Synaptic Complex With U5 viral DNA. Structure 20(11):1918-28 (2012).*featured in Li M and Craigie R, Structure 2012 Nov 7; 20(11):1804-5
  36. Sarachan KL, Valentine KG, Gupta K, Moorman VR, Gledhill JM, Bernens, M. Tommos C, Wand AJ, and Van Duyne GD. Solution Structure of the Core SMN-Gemin2 Complex. Biochemical Journal 445(3):361-70 (2012).
  37. Devarakonda S, Gupta K, Chalmers MJ, Hunt JF, Griffin PR, Van Duyne GD, Spiegelman, BM. Biophysical and Structural Characterization of the Disorder-to-Order Transition in the Metabolic “Hub” PGC-1α upon Complex Assembly with ERRγ. Proceedings of the National Academy of Sciences 108(46):18678-83 (2011).
  38. Huang T, Shaikh T, Gupta K, Contreras-Martin LM, Grassucci R, Van Duyne GD, Frank J, Belfort M. The Group II Intron Ribonucleoprotein Precursor is a Large, Loosely Packed Structure. Nucleic Acids Research 39(7):2845-2854 (2011). *Featured article (top 5%)
  39. Gupta K, Diamond T, Hwang Y, Bushman F, Van Duyne GD. Structural Properties of HIV Integrase-LEDGF Oligomers. The Journal of Biological Chemistry 285(26):20303-20315 (2010).
  40. Gibb B, Gupta K, Ghosh K, Sharp R, Chen J, and Van Duyne, GD. Requirements for Catalysis in the Cre Recombinase Active Site. Nucleic Acids Research 38(17):5817-32 (2010).
  41. Yuan P, Gupta K, Van Duyne GD. Tetrameric Crystal Structure of a Serine Integrase Catalytic Domain. Structure (16):1275-1286 (2008).
  42. Gupta K, Selinsky BS, Loll PJ. Prostaglandin H2 Synthase-1: Structural Consequences of Substituting Mn(III) for Fe(III) in the Protoporphyrin Cofactor. Acta Crystallography D: Biological Crystallography 62(2):151-6 (2006).
  43. Ghosh K, Lau C, Gupta K, Van Duyne GD. Preferential Synapsis of loxP Sites Drives Ordered Strand Exchange in Cre-loxP Site-Specific Recombination. Nature Chemical Biology 1(5):275:282 (2005).
  44. Gupta K, Selinsky BS, Loll PJ. 2.0 Å Crystal Structure of Prostaglandin H2 Synthase-1: Structural Insights into an Unusual Peroxidase. The Journal of Molecular Biology 335(2):503-518 (2004).
  45. Gupta K, Kaub C, Carey KN, Cassillas EG, Selinsky BS, Loll PJ. Manipulation of Kinetic Profiles in 2- aryl Propionic Acid Cyclooxygenase Inhibitors. Bioorganic Medicinal Chemistry Letters 14(3):667-71 (2004).
  46. Selinsky BS*, Gupta K*, Sharkey CT, Loll PJ. Structural Analysis of NSAID binding by Prostaglandin H2 Synthase: Time-Dependent and Time-Independent Inhibitors Elicit Identical Enzyme Conformations. Biochemistry 40(17):5172-5180 (2001). (*=co-first authors)
  47. Mattoon D, Gupta K, Doyon J, Loll PJ, DiMaio D. Identification of the Transmembrane Dimer Interface of the Bovine Papillomavirus E5 protein. Oncogene 20(29):3824-3834 (2001)
  48. Silvestro L, Gupta K, Weiser JN, Axelsen PH. The Concentration-Dependent Membrane Activity of Cecropin A. Biochemistry 36(38):11452-11460 (1997).

Reviews

  1. Gupta K and Selinsky BS. Bacterial and algal orthologs of prostaglandin H2 synthase: Novel insights into the evolution of an integral membrane protein. (Review) Biophysica et Biochimica Acta -Biomembranes 1848(1PA):83-94 (2015).
  2. DeHaven BC, Gupta K, Issacs SN. The Vaccinia Virus A56 Protein: A Multifunctional Transmembrane Glycoprotein That Anchors Secreted Viral Proteins. The Journal of General Virology 92(9):1971-80 (2011).

Book Chapters

  1. Gupta K. Genetics, Epigenetics, and the Molecular Marks of Stress: A Primer. In Child abuse: Children with Disabilities. Ed. Palusci VJ, Nazer D, Greydanus DE, and Merrick J. New York: Nova Science (2017).

Theses

  1. Gupta K. Structural Insights into The Mechanism and Inhibition of Prostaglandin H2 Synthase-1. University of Pennsylvania School of Medicine Department of Pharmacology. Advisor: Patrick Loll, Ph.D. (2003)