Publications

CALCIUM PERMEATION IN SOMATOSENSATION


Ying Yin, Feng Zhang, Shasha Feng, Kevin John Butay, Mario J. Borgnia, Wonpil Im, Seok-Yong Lee. “Activation mechanism of the mouse cold-sensing TRPM8 channel by cooling agonist and PIP2.” Science. 2022 October. DOI: 10.1126/science.add1268

 

 

Do Hoon Kwon, Feng Zhang, Justin G. Fedor, Yang Suo & Seok-Yong Lee. “Vanilloid-Dependent TRPV1 Opening Trajectory From CryoEM Ensemble Analysis.” Nat Commun. 2022 May. DOI:10.1038/s41467022-30602-2

 

 

Do Hoon Kwon, Feng Zhang, Yang Suo, Jonathan Bouvette, Mario J. Borgia, Seok-Yong Lee. “Heat-Dependent Opening Of TRPV1 in the Presence of Capsaicin.” Nat Struc & Mol Biol. 2021 July. DOI:10.1038/s41594-021-00616-3. Discussed in the 2021 Nobel Prize Medicine website (reference #29)

 

 

Yang Suo, Seok-Yong Lee. “Chapter Four – Sample Preparation of the Human TRPA1 Ion Channel for Cryo-Em Studies.” Meth in Enzymol. DOI:10.1016/bs.mie.2020.12.018

 


Ying Yin, Seok-Yong Lee. “Current View of Ligand and Lipid Recognition by the Menthol Receptor TRPM8.” Trends Biochem Sci. 2020 June.  DOI:10.1016/j.tibs.2020.05.008

 

 

Yang Suo, Zilong Wang, Lejla Zubcevic, Allen L. Hsu, Qianru He, Mario J. Borgnia, Ru-Rong Ji, Seok-Yong Lee. “Structural Insights into Electrophile Irritant Sensing by the Human TRPA1 Channel.” Neuron, 2019 December. DOI:10.1016/j.neuron.2019.11.023

 

 

Ying Yin, Mengyu Wu, Allen L. Hsu, William F. Borschel, Mario J. Borgnia, Gabriel C. Lander, Seok-Yong Lee. “Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.” Nat Commun, 2019 August. DOI:10.1038/s41467-019-11733-5

 

 

Lejla Zubcevic, Seok-Yong Lee. “The role of π-helices in TRP channel gating.” Curr Opin in Struct Biol. 2019 August. DOI:10.1016/j.sbi.2019.06.011

 

 

Lejla Zubcevic, Allan H. Hsu, Mario Borgnia,  Seok-Yong Lee. “Symmetry transitions during gating of the TRPV2 ion channel in lipid membranes.” eLife, 2019 May. DOI:10.7554/eLife.45779

 

 

Lejla Zubcevic, William Borschel, Allan H. Hsu, Mario Borgnia, Seok-Yong Lee. “Regulatory switch at the cytoplasmic interface controls TRPV channel gating.” eLife, 2019 May. DOI:10.7554/eLife.47746

 


Ying Yin, Son C. Lee, Allen H. Hsu, Mario J. Borgnia, Huanghe Yang, Seok-Yong Lee. “Structural basis of cooling agent and lipid sensing by the cold activated TRPM8 channel.” Science, 2019. First Release 07 Feb DOI:10.1126/science.aav9334

 


Lejla Zubcevic, Mark A. Herzik Jr, Mengyu Wu, William Borschel, Marscha Hirschi, AlbertSong, Gabriel C. Lander, Seok-Yong Lee. “Conformational ensemble of the human TRPV3 ion channel.” Nat Commun. 2018 Nov. DOI:10.1038/s41467-018-07117-w

 

 

Jiho Yoo, Mengyu Wu, Ying Yin, Mark A. Herzik Jr, Gabriel C. Lander, Seok-Yong Lee. “Cryo-EM structure of a Mitochondrial Calcium Uniporter.” Science 2018. First Release. 28 June DOI:10.1126/science.aar4056

 

 

Lejla Zubcevic, Son Le, Huanghe Yang, and Seok-Yong Lee. “Conformational plasticity in the selectivity filter of the TRPV2 ion channel.” Nat Struc & Mol Biol.  2018. Epub 2018 Apr 30. DOI:10.1038/s41594-018-0059-z

 


Ying Yin, Mengyu Wu, Lejla Zubcevic, William F. Borschel, Gabriel C. Lander, Seok-Yong Lee. “Structure of the cold- and menthol-sensing ion channel TRPM8.”
Science. First Release 07 Dec DOI:10.1126/science.aan4325

 


Marscha Hirschi, Mark A. Herzik Jr., Jinhong Wie, Yang Suo, William F. Borschel, Dejian Ren, Gabriel C. Lander, and Seok-Yong Lee. “Cryo-EM structure of the lysosomal Ca2+ permeable channel TRPML3.”
Nature. 2017. published online 11 Oct. DOI:10.1038/nature24055.

 


Lejla Zubcevic, Mark A Herzik Jr, Ben C Chung, Zhirui Liu, Gabriel C Lander, Seok-Yong Lee. “Cryo-electron microscopy structure of the TRPV2 ion channel.”
Nat Struct & Mol Biol. 2016 Jan. DOI:10.1038/nsmb.3159.

 

DRUG & METABOLITE TRANSPORT

 


Nicholas J. Wright, Justin G. Fedor, Han Zhang, Pyeonghwa Jeong, Yang Suo, Jiho Yoo, Jiyong Hong, Wonpil Im & Seok-Yong Lee. “
Methotrexate recognition by the human reduced folate carrier SLC19A1.” Nature. 2022 Sept. DOI:10.1038/s41586-022-05168-0. Featured in Nature Reviews Cancer.

 

 

Nicholas J Wright, Seok-Yong Lee. “Recent Advances on the Inhibition of Human Solute Carriers: Therapeutic Implications and Mechanistic Insights.” Curr Opin Struct Biol. 2022 April. DOI:10.1016/j.sbi.2022.102378

 

 

Nicholas J. Wright, Seok-Yong Lee. “Toward a Molecular Basis of Cellular Nucleoside Transport in Humans.” Chem Rev. 2020 Nov. DOI:10.1021/acs.chemrev.0c00644

 


Nicholas J. Wright, Seok-Yong Lee. “Structures of human ENT1 in complex with adenosine reuptake inhibitors.”
Nat Struct & Mol Biol. 2019 June. DOI:10.1038/s41594-019-0245-7

 


Marscha Hirschi, Zachary Johnson and Seok-Yong Lee. “
Visualizing multistep elevator-like transitions of a nucleoside transporter.” Nature 545. 66-70. 2017 April.

 

Zachary Johnson and Seok-Yong Lee. “Liposome reconstitution and transport assay for recombinant transporters.” Method Enzymol 2015. DOI:10.1016/bs.mie.2014.11.048

 


Zachary Johnson, Jun-Ho Lee, Kiyoun Lee, Minhee Lee, Do-Yeon Kwon, Jiyong Hong and Seok-Yong Lee. “Structural basis of nucleoside and nucleoside drug selectivity by concentrative nucleoside transporters.” eLife 2014. DOI:10.7554/eLife.03604.

 

Zachary Johnson, Cheom-Gil Cheong and Seok-Yong Lee. “Crystal structure of a concentrative nucleoside transporter from Vibrio cholerae at 2.4Å.Nature 483. 489-493. 2012 March.


POLYSACCHARIDE TRANSPORT IN MICROBIAL CELL WALL SYNTHESIS

 


Takeshi Nakaya, Miyuki Yabe, Ellene H. Mashalidis, Toyotaka Sato, Kazuki Yamamoto, Yuta Hikiji, Akira Katsuyama, Motoko Shinohara, Yusuke Minato, Satoshi Takahashi, Motohiro Horiuchi, Shin-ichi Yokota, Seok-Yong Lee & Satoshi Ichikawa. “Synthesis of Macrocyclic Nucleoside Antibacterials and Their Interactions With MraY.”                                Nature Communications. 2022 December. DOI:10.1038/s41467-022-35227-z


Zhenning Ren, Abhishek Chhetri, Ziqiang Guan, Yang Suo, Kenichi Yokoyama & Seok-Yong Lee. “Structural basis for inhibition and regulation of a chitin synthase from Candida albicans.” Nature Structural & Molecular Biology. 2022 July. DOI:10.1038/s41594-022-00791-x

 

Alvin C Y Kuk, Aili Hao, Seok-Yong Lee. “Structure and Mechanism of the Lipid Flippase MurJ.” Annu Rev Biochem. 2022 Feb. DOI:10.1146/annurev-biochem-040320-105145.

 

Seung-Hwa Kwak, Won Young Lim, Aili Hao, Ellene H.Mashalidisb, Do-YeonKwon, Pyeonghwa Jeong, Mi Jung Kim, Seok-YongLee, JiyongHong. “Synthesis and Evaluation of Cyclopentane-Based Muraymycin Analogs Targeting MraY.” Eur J Med Chem 2021 Apr. DOI:10.1016/j.ejmech.2021.113272


Ellene H Mashalidis, Seok-Yong Lee. “Structures of Bacterial MraY and Human GPT Provide Insights Into Rational Antibiotic Design.” J Mol Biol. 2020 Mar. DOI:10.1016/j.jmb.2020.03.017

 


Ellene H. Mashalidis, Benjamin Kaeser, Yuma Terasawa, Akira Katsuyama, Do-Yeon Kwon, Kiyoun Lee, Jiyong Hong, Satoshi Ichikawa, Seok-Yong Lee. “Chemical logic of MraY inhibition by antibacterial nucleoside natural products.” Nat Commun 2019 Jul. DOI:10.1038/s41467-019-10957-9

 

MurJ

 

Alvin C. Y. Kuk, Aili Hao, Ziqiang Guan, Seok-Yong Lee. “Visualizing conformation transitions of Lipid II flippase MurJ.” Nat Commun 2019 Apr. DOI:10.1038/s41467-019-09658-0

 


Jiho Yoo, Ellene H. Mashalidis, Alvin C. Y. Kuk, Kazuki Yamamoto, Benjamin Kaeser, Satoshi Ichikawa, Seok-Yong Lee. “GlcNAc-1-P-transferase-tunicamycin complex structure reveals basis for inhibition of N-glycosylation.”
Nat Struct & Mol Biol.  2018. Published online 19 Feb DOI:10.1038/s41594-018-0031-y.


Alvin C. Y. Kuk, Ellene H. Mashalidis, Seok-Yong Lee. “Crystal structure of the MOP flippase MurJ in an inward-facing conformation.” Nat Struct & Mol Biol 2016. Published online 24 Dec. DOI:10.1038/nsmb.3346.

 


Ben C. Chung, Ellene H. Mashalidis, Tetsuya Tanino, Mijung Kim, Akira Matsuda, Jiyong Hong, Satoshi Ichikawa, Seok-Yong Lee.”Structural insights into inhibition of lipid I production in bacterial cell wall synthesis.” Nature 2016. DOI:10.1038/nature17636.

 

Ben C. Chung, Jinshi Zhao, Robert A. Gillepsie, Do-Yeon Kwon, Ziqiang Guan, Jiyong Hong, Pei Zhou, and Seok-Yong Lee. “Crystal structure of MraY, an Essential Membrane Enzyme for Bacterial Cell Wall Synthesis.” Science 2013 Aug 30; 341(6149):1012-6. DOI:10.1126/science.123650.