Publications
Articles in Press
Flu’s Evolution Strategy Strikes Perfect Balance
Unlocking HIV’s Drug-Proof Fortresses
Team studies how HIV hides in body
New AIDS Vaccine Offers Encouraging Results
Recent Publications
Sara K. Van Cor-Hosmer, Waaqo Daddacha, and Baek Kim. Mechanistic Interplay among the M184I HIV-1 Reverse Transcriptase Mutant, the central polypurine tract, cellular dNTP concentrations and drug sentivity. Virology. 2010
Shilpa Aggarwal, Birgit Bradel- Tretheway, Toru Takimoto, Stepehn Dewhurst and Baek Kim. (In Press). Biochemical Characterization of Enzyme Fidelity of Influenza A Virus RNA Polymerase Complex. PLoS One. 2010.
Bussey KA, Bousse TL, Desmet EA, Kim B, Takimoto T.PB2 residue 271 plays a key role in enhanced polymerase activity of influenza A viruses in mammalian host cells. J Virol. 2010 Feb 24. [Epub ahead of print]
Kennedy, EM., Hergott, C., Dewhurst, S., and Kim, B. The Mechanistic Architecture of Thermostable Pyrococcus furiosusFamily B DNA Polymerase Motif A and Its Interaction with the dNTP Substrate. Biochemistry. 2009.
Bimber BN, Chugh P, Giorgi EE, Kim B, Almudevar A, Dewhurst S, O’Connor DH, Lee HY Nef gene evolution from a single transmitted strain in acute SIV infection. Retrovirology. 2009 Jun 8;6(1):57.
Skasko M, Diamond TL, Kim B Mechanistic Variations among Reverse Transcriptases of Simian Immunodeficiency Virus Variants Isolated from African Green Monkeys. Biochemistry. 2009 May 1. [Epub ahead of print]
Bradel-Tretheway BG, Kelley Z, Chakraborty-Sett S, Takimoto T, Kim B, Dewhurst S The human H5N1 influenza A virus polymerase complex is active in vitro over a broad range of temperatures, in contrast to the WSN complex, and this property can be attributed to the PB2 subunit. J Gen Virol. 2008 Dec;89(Pt 12):2923-32
Santos-Velazquez J, Kim B Deoxynucleoside triphosphate incorporation mechanism of foamy virus (FV) reverse transcriptase: implications for cell tropism of FV. J Virol. 2008 Aug;82(16):8235-8
Skasko M, Kim B Compensatory role of human immunodeficiency virus central polypurine tract sequence in kinetically disrupted reverse transcription.J Virol. 2008 May 21
Santos-Velazquez J, Kim B dNTP Incorporation Mechanism of Foamy Virus (FV) Reverse Transcriptase: Implications for Cell Tropism of FV. J Virol. 2008 Aug;82(16):8235-8.
Gao L, Hanson MN, Balakrishnan M, Boyer PL, Roques BP, Hughes SH, Kim B, Bambara RA Apparent defects in processive DNA synthesis, strand transfer, and primer elongation of M184 mutants of HIV-1 reverse transcriptase derive solely from a dNTP utilization defect.” J Biol Chem. 2008 Apr 4;283(14):9196-205
Jamburuthugoda VK, Santos-Velazquez JM, Skasko M, Operario DJ, Purohit V, Chugh P, Szymanski EA, Wedekind JE, Bambara RA, Kim B ” Reduced dNTP binding affinity of 3TC-resistant M184I HIV-1 reverse transcriptase variants responsible for viral infection failure to macrophage.” J Biol Chem. 2008 Apr 4;283(14):9206-16
Chugh P, Bradel-Tretheway B, Monteiro-Filho CM, Planelles V, Maggirwar SB, Dewhurst S, Kim B Akt inhibitors as an HIV-1 infected macrophage-specific anti-viral therapy.Retrovirology. 2008;5:11
Purohit V, Roques BP, Kim B, Bambara RA. “Mechanisms that prevent template inactivation by HIV-1 reverse transcriptase RNase H cleavages.” J Biol Chem. 2007 Mar 2;
Matamoros T, Kim B, Menéndez-Arias L. “Mechanistic insights into the role of Val75 of HIV-1 reverse transcriptase in misinsertion and mispair extension fidelity of DNA synthesis.” J Mol Biol. 2008 Feb 1;375(5):1234-48. Epub 2007 Nov 17
Mock DJ, Chugh P, Kim B, Pröschel C, Dietrich J, Strathmann F, Blumberg BM, Mayer-Pröschel M “Characterization of specific HHV-6 and cell cycle genes implicated in virus-mediated G1/S cell-cycle arrest of glial precursors.” Retrovirology. 2006 Dec 21;3 Suppl 1:S65.
Andersen JL, Dehart JL, Zimmerman ES, Ardon O, Kim B, Jacquot G, Benichou S, Planelles V.“HIV-1 Vpr-Induced Apoptosis Is Cell Cycle Dependent and Requires Bax but Not ANT.“PLoS Pathog. 2006 Dec 1;2(12):e127
Chugh P, Fan S, Planelles V, Maggirwar SB, Dewhurst S, Kim B “Infection of Human Immunodeficiency Virus and Intracellular Viral Tat Protein Exert a Pro-survival Effect in a Human Microglial Cell Line.” J Mol Biol. 2006 Nov 10;
Darwin J. Operario, Mini Balakrishnan, Robert A. Bambara, and Baek Kim “Reduced dNTP interaction of human immunodeficiency virus type 1 reverse transcriptase promotes strand transfer” J. Biol. Chem., Aug 2006; doi:10.1074/jbc.M604665200
Jamburuthugoda VK, Chugh P, Kim B Modification of human immunodeficiency virus type 1 reverse transcriptase to target cells with elevated cellular dntp concentrations. J Biol Chem. 2006 May 12;281(19):13388-95
Purohit V, Balakrishnan M, Kim B, Bambara RA (2005, in press) Evidence that HIV-1 reverse transcriptase employs the DNA 3′ end-directed primary/secondary RNase H cleavage mechanism during synthesis and strand transfer. J Biol Chem 280(49): 40534-43.
Jamburuthugoda VK, Guo D, Wedekind JE, and Kim B (2005) Kinetic Evidence for Interaction of Human Immunodeficiency Virus Type 1 Reverse Transcriptase with the 3′-OH of the Incoming dTTP Substrate. Biochemistry 44(31):10635-43
Operario DJ, Reynolds HM, and Kim B (2005). Enzymatic Comparison of DNA polymerase activities of Feline Immunodeficiency Virus and Feline Leukemia Virus. Virology. 335(1):106-21.
Skasko M, Weiss KK, Reynolds HM, Jamburuthugoda V, Lee K, and Kim B (2005) Mechanistic Differences in RNA dependent DNA polymerization and Fidelity between MuLV and HIV-1 Reverse Transcriptases. J. Biol. Chem. 280(13):12190-200.
Dehart JL, Andersen JL, Zimmerman ES, Ardon O, An DS, Blackett J, Baek Kim, Planelles V. (2005) The ataxia telangiectasia-mutated and Rad3-related protein is dispensable for retroviral integration. J. Virol. 2005 79(3):1389-96.
Weiss, K. K., Chen, R., Skasko, M., Reynolds, H. M., Lee, K., Bambara, R. A., Mansky, L. M., and Kim, B. (2004) A Role for dNTP Binding of Human Immunodeficiency Virus Type 1 Reverse Transcriptase in Viral Mutagenesis.Biochemistry 43, 4490-4500.
Roshal, M., Kim, B., Zhu, Y., Nghiem, P., and Planelles, V. (2003) Activation of the ATR-mediated DNA damage response by the HIV-1 viral protein R,J Biol Chem 278, 25879-86.
Diamond, T. L., Souroullas, G., Weiss, K. K., Lee, K. Y., Bambara, R. A., Dewhurst, S., and Kim, B. (2003) Mechanistic understanding of an altered fidelity simian immunodeficiency virus reverse transcriptase mutation, V148I, identified in a pig-tailed macaque,J Biol Chem 278, 29913-24.
Weiss, K. K., Bambara, R. A., and Kim, B. (2002) Mechanistic role of residue Gln151 in error prone DNA synthesis by human immunodeficiency virus type 1 (HIV-1) reverse transcriptase (RT). Pre-steady state kinetic study of the Q151N HIV-1 RT mutant with increased fidelity,J Biol Chem 277, 22662-9.
Malboeuf, C. M., Isaacs, S. J., Tran, N. H., and Kim, B. (2001) Thermal effects on reverse transcription: improvement of accuracy and processivity in cDNA synthesis,Biotechniques 30, 1074-8, 1080, 1082, passim.
Diamond, T. L., Kimata, J., and Kim, B. (2001) Identification of a simian immunodeficiency virus reverse transcriptase variant with enhanced replicational fidelity in the late stage of viral infection,J Biol Chem 276, 23624-31.