Qian Wang, Yaming Deng, Dayan Viera, Xiaopeng Liu, Ning Liu, Yulu Hu, XiangdongHu, Hao Wei, Quan Zhou, Ting Lan, Wei He, Xi Chen, Chu-Young Kim. Structural basis of sequential enantioselective epoxidation by a flavin-dependent monooxygenase in lasalocid A biosynthesis. Angewandte Chemie International Edition e202504982 (2025). DOI: 10.1002/anie.202504982

Saket R. Bagde and Chu-Young Kim. Architecture of full-length type I modular polyketide synthases revealed by X-ray crystallography, cryo-electron microscopy, and AlphaFold2. Natural Product Reports 41, 1219 (2024). DOI: 10.1039/d3np00060e

Qian Wang, Ning Liu, Yaming Deng, Yuze Guan, Hongli Xiao, Tara A. Nitka, Hui Yang, Anju Yadav, Lela Vukovic, Irimpan I. Mathews, Xi Chen, Chu-Young Kim. Triepoxide formation by a flavin-dependent monooxygenase in monensin biosynthesis. Nature Communications 14, 6273 (2023). DOI: 10.1038/s41467-023-41889-0

Priyanka Gade, Amanda Erlandson, Anwar Ullah, Xi Chen, Irimpan I. Mathews, Paola E. Mera, Chu-Young Kim. Structural and functional analyses of the echinomycin resistance conferring protein Ecm16 from Streptomyces lasalocidi. Scientific Reports 13, 7980 (2023). DOI: 10.1038/s41598-023-34437-9

Amanda Erlandson, Priyanka Gade, Inoka P. Menikpurage, Chu-Young Kim, Paola E. Mera. The UvrA-like protein Ecm16 requires ATPase activity to render resistance against echinomycin. Molecular Microbiology 117, 1434 (2022). DOI: 10.1111/mmi.14918

Saket R. Bagde, Irimpan I. Mathews, J. Christopher Fromme, Chu-Young Kim. Modular polyketide synthase contains two reaction chambers that operate asynchronously. Science 374, 723 (2021). DOI: 10.1126/science.abi8532

Ying Gao, Yulu Hu, Qimeng Liu, Xiaokang Li, Xinming Li, Chu-Young Kim, Tony D. James, Jian Li, Xi Chen, Yuan Guo. Two-dimensional design strategy to construct smart fluorescent probes for the precise tracking of senescence. Angewandte Chemie International Edition 60, 10756 (2021). DOI: 10.1002/anie.202101278

Chu-Young Kim. Three-dimensional structure of megasynthases – mammalian fatty acid synthase, type I modular polyketide synthase, and nonribosomal peptide synthetase. In: Hung-Wen (Ben) Liu and Tadhg P. Begley (eds.) Comprehensive Natural Products III: Chemistry and Biology, vol.[6], pp. 318-335. UK: Elsevier (2020). eBook ISBN: 9780081026915

Xiaokang Li, Wenjing Qiu, Jinwen Li, Xi Chen, Yulu Hu, Ying Gao, Donglei Shi, Xinming Li, Huiling Lin, Huiling Lin, Zelan Hu, Guoqiang Dong, Chunquan Sheng, Bei Jiang, Conglong Xia, Chu-Young Kim, Yuan Guo, Jian Li. First-generation species-selective chemical probes for fluorescence imaging of human senescence-associated β-galactosidase. Chemical Science 11, 7292 (2020). DOI: 10.1039/d0sc01234

Zilong Wang, Saket R. Bagde, Gerardo Zavala, Tsutomu Matsui, Xi Chen, Chu-Young Kim. De novo design and implementation of a tandem acyl carrier protein domain in a type I modular polyketide synthase. ACS Chemical Biology 13, 3072 (2018). DOI: 10.1021/acschembio.8b00896

Suttinee Poolsup, Chu-Young Kim. Therapeutic applications of synthetic nucleic acid aptamers. Current Opinion in Biotechnology 48, 180 (2017). DOI: 10.1016/j.copbio.2017.05.004

Thanh-Binh Nguyen, Priya Jayaraman, Elin Bergseng, M. S. Madhusudhan, Chu-Young Kim, Ludvig Sollid. Unraveling the structural basis for the unusually rich association of human leukocyte antigen DQ2.5 with class-II-associated invariant chain peptides. Journal of Biological Chemistry 292, 9218 (2017). DOI: 10.1074/jbc.M117.785139

Fong T. Wong, Kinya Hotta, Xi Chen, Minyi Fang, Kenji Watanabe, Chu-Young Kim. Epoxide hydrolase–lasalocid A structure provides mechanistic insight into polyether natural product biosynthesis. Journal of the American Chemical Society 137, 86 (2015). DOI: 10.1021/ja511374k

Kinya Hotta, Ronan M. Keegan, Soumya Ranganathan, Minyi Fang, Jaclyn Bibby, Martyn D. Winn, Michio Sato, Mingzhu Lian, Kenji Watanabe, Daniel J. Rigden, Chu-Young Kim. Conversion of a disulfide bond to a thioacetal group during echinomycin biosynthesis. Angewandte Chemie International Edition 53, 824 (2014). DOI: 10.1002/anie.201307404

Sathya Dev Unudurthi, Kinya Hotta, Chu-Young Kim. Engineering the Polyproline II Propensity of a class II major histocompatibility complex ligand peptide. ACS Chemical Biology 8, 2382 (2013). DOI: 10.1021/cb400594q

Kinya Hotta, Xi Chen, Robert S. Paton, Atsushi Minami, Hao Li, Kunchithapadam Swaminathan, Irimpan I. Mathews, Kenji Watanabe, Hideaki Oikawa, Kendall N. Houk, Chu-Young Kim. Enzymatic catalysis of anti-Baldwin ring-closure in polyether biosynthesis. Nature 483, 355 (2012). DOI: 10.1038/nature10865

Stig Tollefsen, Kinya Hotta, Xi Chen, Bjørg Simonsen, Kunchithapadam Swaminathan, Irimpan I. Mathews, Ludvig M. Sollid, Chu-Young Kim. Structural and functional studies of the trans-encoded HLA-DQ2.3 (DQA103:01/DQB102:01) protein molecule. Journal of Biological Chemistry 2012, 287, 13611. DOI: 10.1074/jbc.M111.320374

Michael Bodd, Chu-Young Kim, Knut E. Lundin, Ludvig M. Sollid. T-cell response to gluten in patients with HLA-DQ2.2 reveals requirement of peptide-MHC stability in celiac disease. Gastroenterology 142, 552 (2012). DOI: 10.1053/j.gastro.2011.11.021

Kinya Hotta, Chu-Young Kim, David T. Fox, Andrew T. Koppisch. Siderophore-mediated iron acquisition in Bacillus anthracis and related strains. Microbiology 156, 1918 (2010). DOI: 10.1099/mic.0.039404-0

Lars-Egil Fallang, Elin Bergseng, Kinya Hotta, Axel Berg-Larsen, Chu-Young Kim, Ludvig M. Sollid. Differences in the risk of celiac disease associated with HLA-DQ2.5 or HLA-DQ2.2 are related to sustained gluten antigen presentation. Nature Immunology 10, 1096 (2009). DOI: 10.1038/ni.1780

David T. Fox, Kinya Hotta, Chu-Young Kim, Andrew T. Koppisch. The missing link in Petrobactin biosynthesis: AsbF encodes a (-)-3-dehydroshikimate dehydratase. Biochemistry 47, 12251 (2008). DOI: 10.1021/bi801876q

Andrew T. Koppisch, Kinya Hotta, David T. Fox, Christy E. Ruggiero, Chu-Young Kim, Timothy Sanchez, Srinivas Iyer, Cindy C. Browder, Pat J. Unkefer, Clifford J. Unkefer. Biosynthesis of the 3,4-dihydroxybenzoate moieties of petrobactin by Bacillus anthracis. Journal of Organic Chemistry 73, 5759 (2008). DOI: 10.1021/jo800427f

Jiang Xia, Elin Bergseng, Burkhard Fleckenstein, Matthew Siegel, Chu-Young Kim, Chaitan Khosla, Ludvig M. Sollid. Cyclic and dimeric gluten peptide analogues inhibiting DQ2-mediated antigen presentation in celiac disease. Bioorganic & Medicinal Chemistry 15, 6565 (2007).

Yinyan Tang, Alice Y. Chen, Chu-Young Kim, David E. Cane, Chaitan Khosla. Structural and mechanistic analysis of protein interactions in module 3 of the 6-deoxyerythronolide B synthase. Chemistry & Biology 14, 931 (2007). DOI: 10.1016/j.chembiol.2007.07.012

Yinyan Tang, Ho Young Lee, Yi Tang, Chu-Young Kim, Irimpan Mathews, Chaitan Khosla. Structural and functional studies on SCO1815: a beta-Ketoacyl-acyl carrier protein reductase from Streptomyces coelicolor A3(2). Biochemistry 45, 14085 (2006). DOI: 10.1021/bi061187v

Yinyan Tang, Chu-Young Kim, Irimpan I. Mathews, David E. Cane, Chaitan Khosla. The 2.7-A crystal structure of a 194-kDa homodimeric fragment of the 6-deoxyerythronolide B synthase. Proceedings of the National Academy of Sciences of the U.S.A. 103, 11124 (2006). DOI: 10.1073/pnas.0601924103

Alice Y. Chen, Nathan A. Schnarr, Chu-Young Kim, David E. Cane, Chaitan Khosla. Extender unit and acyl carrier protein specificity of ketosynthase domains of the 6-deoxyerythronolide B synthase. Journal of the American Chemical Society 128, 3067 (2006). DOI: 10.1021/ja058093d

Elin Bergseng, Jiang Xia, Chu-Young Kim, Chaitan Khosla, Ludvig M. Sollid. Main chain hydrogen bond interactions in the binding of proline-rich gluten peptides to the celiac disease associated HLA-DQ2 molecule. Journal of Biological Chemistry 23, 21791 (2005). DOI: 10.1074/jbc.M501558200

Chu-Young Kim, Viktor Y. Alekseyev, Alice Y. Chen, Yinyan Tang, David E. Cane, Chaitan Khosla. Reconstituting modular activity from separated domains of 6-deoxyerythronolide B synthase. Biochemistry 43, 13892 (2004). DOI: 10.1021/bi048418n

Chu-Young Kim, Hanne Quarsten, Elin Bergseng, Chaitan Khosla, Ludvig M. Sollid. Structural basis for HLA-DQ2 mediated presentation of gluten epitopes in celiac disease. Proceedings of the National Academy of Sciences of the U.S.A. 101, 4175 (2004). DOI: 10.1073/pnas.0306885101

Vijay M. Krishnamurthy, Brooks R, Bohall, Chu-Young Kim, Demetri T. Moustakas, David W. Christianson, George M. Whitesides. Thermodynamic parameters for the association of fluorinated benzenesulfonamides with bovine carbonic anhydrase II. Chemistry – An Asian Journal 2, 94 (2007). DOI: 10.1002/asia.200600360

Chu-Young Kim, Douglas A. Whittington, Jeanne S. Chang, John Liao, Jesse A. May, David W. Christianson. Structural aspects of isozyme selectivity in the binding of inhibitors to carbonic anhydrases II and IV. Journal of Medicinal Chemistry 45, 888 (2002). DOI: 10.1021/jm010163d

Bartosz A. Grzybowski, Alexey V. Ishchenko, Chu-Young Kim, George Topalov, Robert Chapman, David W. Christianson, George M. Whitesides, Eugene I. Shakhnovich. Combinatorial computational method gives new picomolar ligands for a known enzyme. Proceedings of the National Academy of Sciences of the U.S.A. 99, 1270 (2002). DOI: 10.1073/pnas.032673399

Ryan D. Madder, Chu-Young Kim, Pooja P. Chandra, Jeffrey B. Doyon, Teaster A. Baird Jr., Carol A. Fierke, David W. Christianson, Judith G. Voet, Ahamindra Jain. Twisted amides inferred from QSAR analysis of hydrophobicity and electronic effects on the affinity of fluoroaromatic inhibitors of carbonic anhydrase. Journal of Organic Chemistry 67, 582 (2002). DOI: 10.1021/jo0159385

Chu-Young Kim, Pooja P. Chandra. Ahamindra Jain, David W. Christianson. Fluoroaromatic-fluoroaromatic interactions between inhibitors bound in the crystal lattice of human carbonic anhydrase II. Journal of the American Chemical Society 123, 9620 (2001). DOI: 10.1021/ja011034p

Chu-Young Kim, Jeanne S. Chang, Jeffrey B. Doyon, Teaster T. Baird Jr., Carol A. Fierke, Ahamindra Jain, David W. Christianson. Contribution of fluorine to protein-ligand affinity in the binding of fluoroaromatic inhibitors to carbonic anhydrase II. Journal of the American Chemical Society 122, 12125 (2000). DOI: 10.1021/ja002627n

Jeffrey B. Doyon, Elizabeth A. M. Hansen, Chu-Young Kim, Jeanne S. Chang, David W. Christianson, Ryan D. Madder, Judith G. Voet, Teaster A. Baird Jr., Carol A. Fierke, Ahamindra Jain. Linear free energy relationships implicate three modes of binding for fluoroaromatic inhibitors to a mutant of carbonic anhydrase II. Organic Letters 2, 1189 (2000). DOI: 10.1021/ol005608r