Baek Kim
Kyung Hee University
Molecular biologyReverse transcriptaseVirologySAMHD1Biology
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Publications 158
#1Sathya Balachander (Georgia Institute of Technology)H-Index: 2
#2Alli L Gombolay (Georgia Institute of Technology)H-Index: 1
Last. Nicole E. Bowen (Emory University)
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Despite the abundance of ribonucleoside monophosphates (rNMPs) in DNA, sites of rNMP incorporation remain poorly characterized. Here, by using ribose-seq and Ribose-Map techniques, we built and analyzed high-throughput sequencing libraries of rNMPs derived from mitochondrial and nuclear DNA of budding and fission yeast. We reveal both common and unique features of rNMP sites among yeast species and strains, and between wild type and different ribonuclease H-mutant genotypes. We demonstrate that ...
#1Si’Ana A. Coggins (Emory University)H-Index: 1
#2Bijan Mahboubi (Emory University)H-Index: 2
Last. Baek Kim (Emory University)H-Index: 35
view all 4 authors...
Deoxynucleoside triphosphate (dNTP) molecules are essential for the replication and maintenance of genomic information in both cells and a variety of viral pathogens. While the process of dNTP biosynthesis by cellular enzymes, such as ribonucleotide reductase (RNR) and thymidine kinase (TK), has been extensively investigated, a negative regulatory mechanism of dNTP pools was recently found to involve sterile alpha motif (SAM) domain and histidine-aspartate (HD) domain-containing protein 1, SAMHD...
#1Jihane Basbous (University of Montpellier)H-Index: 5
#2Antoine Aze (University of Montpellier)H-Index: 2
Last. Angelos Constantinou (University of Montpellier)H-Index: 10
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Imbalance in the level of the pyrimidine degradation products dihydrouracil and dihydrothymine is associated with cellular transformation and cancer progression. Dihydropyrimidines are degraded by dihydropyrimidinase (DHP), a zinc metalloenzyme that is upregulated in solid tumors but not in the corresponding normal tissues. How dihydropyrimidine metabolites affect cellular phenotypes remains elusive. Here we show that the accumulation of dihydropyrimidines induces the formation of DNA-protein cr...
#1Zhihua QinH-Index: 2
#2Serena BonifatiH-Index: 7
Last. Li WuH-Index: 34
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Sterile alpha motif and HD domain-containing protein 1 (SAMHD1) is a deoxynucleoside triphosphohydrolase (dNTPase) with a nuclear localization signal (NLS). SAMHD1 suppresses innate immune responses to viral infection and inflammatory stimuli by inhibiting the NF-kappaB and type I interferon (IFN-I) pathways. However, whether the dNTPase activity and nuclear localization of SAMHD1 are required for its suppression of innate immunity remains unknown. Here, we report that the dNTPase activity, but ...
1 CitationsSource
#1Sean G. Rudd (Science for Life Laboratory)H-Index: 9
#2Nikolaos Tsesmetzis (KI: Karolinska Institutet)H-Index: 1
Last. Nikolas Herold (KI: Karolinska Institutet)
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The deoxycytidine analogue cytarabine (ara-C) remains the backbone treatment of acute myeloid leukaemia (AML) as well as other haematological and lymphoid malignancies, but must be combined with other chemotherapeutics to achieve cure. Yet, the underlying mechanism dictating synergistic efficacy of combination chemotherapy remains largely unknown. The dNTPase SAMHD1, which regulates dNTP homoeostasis antagonistically to ribonucleotide reductase (RNR), limits ara-C efficacy by hydrolysing the act...
1 CitationsSource
#1Adrian Oo (Emory University)
#2D.-H. Kim (Kyung Hee University)H-Index: 61
Last. Baek Kim (Emory University)H-Index: 35
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Unlike activated CD4+ T cells, nondividing macrophages have an extremely small dNTP pool, which restricts HIV-1 reverse transcription. However, rNTPs are equally abundant in both of these cell types and reach much higher concentrations than dNTPs. The greater difference in concentration between dNTPs and rNTPs in macrophages results in frequent misincorporation of noncanonical rNTPs during HIV-1 reverse transcription. Here, we tested whether the highly abundant SAM domain- and HD domain-containi...
#1Giada Zurlo (UNC: University of North Carolina at Chapel Hill)H-Index: 3
#2Xijuan Liu (UNC: University of North Carolina at Chapel Hill)H-Index: 1
Last. Qing ZhangH-Index: 24
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Protein hydroxylation affects protein stability, activity, and interactome, therefore contributing to various diseases including cancers. However, the transiency of the hydroxylation reaction hinders the identification of hydroxylase substrates. By developing an enzyme-substrate trapping strategy coupled with TAP-TAG or orthogonal GST- purification followed by mass spectrometry, we identify adenylosuccinate lyase (ADSL) as an EglN2 hydroxylase substrate in triple negative breast cancer (TNBC). A...
1 CitationsSource
#1Si’Ana A. Coggins (Emory University)H-Index: 1
#2Jessica Holler (Emory University)H-Index: 3
Last. Baek Kim (Kyung Hee University)H-Index: 35
view all 6 authors...
Abstract Unlike HIV-1, HIV-2 and some SIV strains replicate at high dNTP concentrations even in macrophages due to their accessory proteins, Vpx or Vpr, that target SAMHD1 dNTPase for proteasomal degradation. We previously reported that HIV-1 reverse transcriptase (RT) efficiently synthesizes DNA even at low dNTP concentrations because HIV-1 RT displays faster pre-steady state kpol values than SAMHD1 counteracting lentiviral RTs. Here, since the kpol step consists of two sequential sub-steps pos...
#1Caitlin Shepard (Emory University)H-Index: 10
#2Joella Xu (Emory University)
Last. Baek Kim (Emory University)H-Index: 35
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Terminally differentiated/nondividing macrophages, a key target cell type of HIV-1, harbor extremely low dNTP concentrations established by a host dNTP triphosphohydrolase, SAM domain and HD domain containing protein 1 (SAMHD1). We tested whether the induction of dNTP pool imbalance can affect HIV-1 replication in macrophages. For this test, we induced a large dNTP pool imbalance by treating human primary monocyte derived macrophages with either one or three of the four deoxynucleosides (dNs), w...
#1Laura RodriguezH-Index: 6
#2Pilar Blanco-LoboH-Index: 1
Last. Luis Martínez-SobridoH-Index: 39
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Influenza viruses cause annual, seasonal infection across the globe. Vaccination represents the most effective strategy to prevent such infections and/or to reduce viral disease. Two major types of influenza vaccines are approved for human use: inactivated influenza vaccines (IIVs) and live attenuated influenza vaccines (LAIVs). Two Master Donor Virus (MDV) backbones have been used to create LAIVs against influenza A virus (IAV): the United States (US) A/Ann Arbor/6/60 (AA) and the Russian A/Len...
1 CitationsSource