Publications & Patents

Publications

2026

Accurate Conformational Ensembles of Intrinsically Disordered Proteins using Reweighting based on NMR Chemical Shifts
Juhyeong Jeon, Wonjin Yang, Sangmin Park, Jin Hae Kim*, Young-Ho Lee*, Wookyung Yu*
Proceedings of the National Academy of Sciences USA (2026)

Erythropoietin-derived Non-erythropoietic Peptides Conferring Oxidative Stress Resistance to Keratinocytes and Fibroblasts
Min Ae Han, Janbolat Ashim, Youngheum Ji, Eunho Kang, Minchan Jeong, Sung Jae Kim, Wookyung Yu, Jin Hae Kim, Cheil Moon, Chang-Hun Lee
Cell Biochemistry and Biophysics (2026)

Broadband Circularly Polarized Light Detection via Spin-Selective Charge Transport in Quantum Dot Photodiodes
Minseo Kim, Shi Li, Kyunghoon Lee, Eonhyoung Ahn, Soyeon Lee, Kiwook Kim, Hang Kim, Wookyung Yu, Changsoon Choi, Jung Ah Lim, Jeeseong Hwang, Dae-Hyeong Kim, Jiwoong Yang
Advanced Materials (2026) e19146

2025

The N-terminal order-disorder transition is a critical determinant for a metamorphosis of IscU
Jongbum Na, Joongyu Heo, Minchan Jeong, Beom Soo Kim, Sangho Ji, Young Ho Ko, Alaleh Shafiei, Nilufer Baldir, Hasan DeMirci, Wookyung Yu*, Jin Hae Kim*
International Journal of Biological Macromolecules (2025) 323:146969

Protein Microplastic Coronation Complexes Trigger Proteome Changes in Brain-Derived Neuronal and Glial Cells
Janbolat Ashim, Sangho Ji, Hee-Yeon Kim, Seoung-Woo Lee, Soyoung Jang, Wansoo Kim, Sehyeon Han, Choonok Kim, Song Park, Jin-Kyu Park, Jee Eun Han, Seong-Kyoon Choi*, Wookyung Yu*
ACS Environmental Science and Technology (2025) 59(29):14993

Identification of potential Abl kinase inhibitors using virtual screening and free energy calculations for the treatment of chronic myeloid leukemia
Beom Soo Kim, Wookyung Yu*
Biophysical Chemistry (2025) 324:107470

Unlocking the serine mischarging paradox and inhibiting lactyltransferase activity of AlaRS by a single-point mutation
Wooyoung Park, Se-Young Son, Joonyeop Yi, Seungwoo Cha, Hankyeol Moon, Minyoung Kim, Sangho Ji, Wookyung Yu, Changmin Sung, Sun-Shin Cha, Ji-Sook Hahn
Nucleic Acids Research (2025) 53(11):gkaf463

Research approaches for exploring the hidden conversations of G protein-coupled receptor transactivation
Janbolat Ashim, Min Jae Seo, Sangho Ji, Joongyu Heo, Wookyung Yu*
Molecular Pharmacology (2025) 107(6):100043

2024

GAN-WGCNA: Calculating gene modules to identify key intermediate regulators in cocaine addiction
Taehyeong Kim, Kyoungmin Lee, Mookyung Cheon*, Wookyung Yu*
PLOS One (2024) 19(10):e0311164

Uncovering conserved networks and global conformational changes in G protein-coupled receptor kinases
Min Jae Seo, Wookyung Yu*
Computational and Structural Biotechnology Journal (2024) 23:3445–3453

Structural and biochemical investigation into stable FGF2 mutants with novel mutation sites and hydrophobic replacements for surface-exposed cysteines
Young Jun An, Ye-Eun Jung, Kyeong Won Lee, Prashant Kaushal, In Young Ko, Seung Min Shin, Sangho Ji, Wookyung Yu, Cheolju Lee, Won-Kyu Lee, Kiweon Cha, Jung-Hyun Lee, Sun-Shin Cha, Hyung-Soon Yim
PLOS One (2024) 19(9):e0307499

Roles of the gate loop in β-arrestin-1 conformational dynamics and phosphorylated receptor interaction
Kiae Kim, Janbolat Ashim, Donghee Ham, Wookyung Yu*, Ka Young Chung*
Structure (2024) 32(9):1358–1366

2023

Veratramine Inhibits the Cell Cycle Progression, Migration, and Invasion via ATM/ATR Pathway in Androgen-Independent Prostate Cancer
Hee-Yeon Kim, Seoung-Woo Lee, Seong-Kyoon Choi, Janbolat Ashim, Wansoo Kim, Su-Min Beak, Jin-Kyu Park, Jee Eun Han, Gil-Jae Cho, Zae Young Ryoo, Jain Jeong, Yong-Ho Lee, Hyohoon Jeong, Wookyung Yu, Song Park
The American Journal of Chinese Medicine (2023) 51(5):1309–1333

A preliminary study about the potential risks of the UV-weathered microplastic: The proteome-level changes in the brain in response to polystyrene derived weathered microplastics
Hee-Yeon Kim, Janbolat Ashim, Song Park, Wansoo Kim, Sangho Ji, Seoung-Woo Lee, Yi-Rang Jung, Sang Won Jeong, Se-Guen Lee, Hyun-Chul Kim, Young-Jae Lee, Mi Kyung Kwon, Jun-Seong Hwang, Jung Min Shin, Sung-Jun Lee*, Wookyung Yu*, Jin-Kyu Park*, Seong-Kyoon Choi*
Environmental Research (2023) 223:116411

2022

Molecular basis of the PIP2-dependent regulation of CaV2.2 channel and its modulation by CaV β subunits
Chun-Kyu Park, Wookyung Yu, Byung-chang Suh
eLife (2022) 11:e69500

NOLC1 knockdown suppresses prostate cancer progressions by reducing AKT phosphorylation and β-catenin accumulation
Wansoo Kim, Dong-Yeop Yeo, Seong-Kyoon Choi, Hee-Yeon Kim, Seoung-Woo Lee, Janbolat Ashim, Jee Eun Han, Wookyung Yu, Hyohoon Jeong, Jin-Kyu Park, Song Park
Biochemical and Biophysical Research Communications (2022) 635:99

Unveiling OASIS family as a key player in hypoxia-ischemia cases induced by cocaine using generative adversarial networks
Kyoungmin Lee, Taehyeong Kim, Mookyung Cheon*, Wookyung Yu*
Scientific Reports (2022) 12(1):6734

Dual effects of presynaptic membrane mimetics on α-synuclein amyloid aggregation
Yuxi Lin, Dai Ito, Je Min Yoo, Mi Hee Lim, Wookyung Yu, Yasushi Kawata*, Young-Ho Lee*
Frontiers in Cell and Developmental Biology (2022) 10:707417

Thermolabile Uracil DNA Glycosylase D43A mutant for eliminating false diagnosis in polymerase chain reaction
Seongjun Park, Yong-Keol Shin, Jeong-Yeon Yoon, Ki-Hoon Nam, Palinda Ruvan Munashingha, So-Young Park, So-Yeon Park, Sangyeol Kim, Juhwan Lee, Min Jae Seo, Wookyung Yu, Yeon-soo Seo*, Iksoo Chang*
Biophysical Journal (2022) 121(7):1276

Structural mechanism for regulation of Rab7 by site-specific monoubiquitination
Jaeeun Jung, Jiseok Baek, Kun Tae, Donghyuk Shin, Seungsu Han, Wonjin Yang, Wookyung Yu, Su Myung Jung, Seok Hee Park, Cheol Yong Choi, Sangho Lee*
International Journal of Biological Macromolecules (2022) 194:347

2021

Molecular effects of elongation factor Ts and trigger factor on the unfolding and aggregation of elongation factor Tu induced by the prokaryotic molecular chaperone Hsp33
Minho Keum, Dai Ito, Mi-Seong Kim, Yuxi Lin, Jihoon Kim, Ji-Hun Kim, Wookyung Yu, Young-Ho Lee*, Hyung-Sik Won*
Biology (2021)

Understanding the role of the CB1 toggle switch in interaction networks using molecular dynamics simulation
Sangho Ji, Wonjin Yang, Wookyung Yu*
Scientific Reports (2021)

Aggregation-prone structural ensembles of transthyretin collected with regression analysis for NMR chemical shift
Woojin Yang, Beom Soo Kim, Srinivasan Muniyappan, Young-Ho Lee, Jin Hae Kim*, Wookyung Yu*
Frontiers in Molecular Biosciences (2021) 8:766830

ZNF507 affects TGF-β signaling via TGFBR1 and MAP3K8 activation in the progression of prostate cancer to an aggressive state
Wookbong Kwon, Seong-Kyoon Choi*, Daehwan Kim, Hyeon-Gyeom Kim, Jin-Kyu Park, Jee Eun Han, Gil-Jae Cho, Sungho Yun, Wookyung Yu, Se-Hyeon Han, Yun-Sok Ha, Jun Nyung Lee, Tae Gyun Kwon, Dong-Hyung Cho, Jun-Koo Yi, Myoung Ok Kim, Zae Young Ryoo*, Song Park*
Journal of Experimental & Clinical Cancer Research (2021) 40:291

Overexpression of hepatic serum amyloid A1 in mice increases IL-17-producing innate immune cells and decreases bone density
Minjee Choi, Song Park, Jun Koo Yi, Wookbong Kwon, Soyoung Jang, Si-Yong Kim, Wookyung Yu, Myoung Ok Kim, Zae Young Ryoo*, Seong-Kyoon Choi*
Journal of Biological Chemistry (2021) 296:100595

Coevolution underlies GPCR-G protein selectivity and functionality
Min Jae Seo, Joongyu Heo, Kyunghui Kim, Ka Young Chung, Wookyung Yu*
Scientific Reports (2021) 11:7858

Conformational switch that induces GDP release from Gi
Donghee Ham, Donghoon Ahn, Janbolat Ashim, Yejin Cho, Hee Ryung Kim, Wookyung Yu*, Ka Young Chung*
Journal of Structural Biology (2021) 213:107694

2019–2008

Atomic insights into the effects of pathological mutants through the disruption of hydrophobic core in the prion protein
Juhwan Lee, Iksoo Chang*, Wookyung Yu*
Scientific Reports (2019) 9:19144

Sibe: a computation tool to apply protein sequence statistics to predict folding and design in silico
Ngaam J Cheung, Wookyung Yu*
BMC Bioinformatics (2019) 20:455

De novo protein structure prediction using ultra-fast molecular dynamics simulation
Ngaam J Cheung, Wookyung Yu*
PLOS One (2018) 13:e0205819

Exploring the Ligand Efficacy of Cannabinoid Receptor 1 (CB1) using Molecular Dynamics Simulations
Sangwon Jung, Art E Cho*, Wookyung Yu*
Scientific Reports (2018) 8:13787

The perplexing cooperative folding and stability of a low sequence complexity, poly-proline 2 protein lacking a hydrophobic core
Zachary Gates, Michael C Baxa, Wookyung Yu, Joshua A Riback, Hui Li, Benoit Roux, Stephen Kent*, Tobin R Sosnick*
Proceedings of the National Academy of Sciences USA (2017) 114:2241

Cooperative folding near the downhill limit determined with amino acid resolution by hydrogen exchange
Wookyung Yu, Michael C. Baxa, Isabelle Gagnon, Karl F. Freed, Tobin R. Sosnick*
Proceedings of the National Academy of Sciences USA (2016) 113:4747

Even with nonnative interactions, the updated folding transition states of the homologs Proteins G & L are extensive and similar
Michael C. Baxa, Wookyung Yu, Aashish N. Adhikari, Liang Ge, Zhen Xia, Ruhong Zhou, Karl F. Freed*, Tobin R. Sosnick*
Proceedings of the National Academy of Sciences USA (2015) 112:8302

Benchmarking all-atom simulations using hydrogen exchange
John J. Skinner&, Wookyung Yu&, Elizabeth K. Gichana, Michael C. Baxa, James Hinshaw, Karl F. Freed*, Tobin R. Sosnick*
Proceedings of the National Academy of Sciences USA (2014) 111:15975

PACSY, a relational database management system for protein structure and chemical shift analysis
Woonghee Lee, Wookyung Yu, Sukhmann Kim, Iksoo Chang, Weontae Lee*, John L. Markley*
Journal of Biomolecular NMR (2012) 54:169

Uncovering symmetry-breaking vector and reliability order for assigning secondary structures of proteins from atomic NMR chemical shifts in amino acids
Wookyung Yu, Woonghee Lee, Weontae Lee, Sukhmann Kim, Iksoo Chang*
Journal of Biomolecular NMR (2011) 51:411

Functional implications of an intermeshing cogwheel-like interaction between TolC and MacA in the action of macrolide-specific efflux pump MacAB-TolC
Yongbin Xu, Saemee Song, Arne Moeller, Nahee Kim, Shunfu Piao, Se-Hoon Sim, Mooseok Kang, Wookyung Yu, Hyun-Soo Cho, Iksoo Chang, Kangseok Lee, Nam-Chul Ha*
Journal of Biological Chemistry (2011) 286:13541

Cooperative folding kinetics of BBL protein and peripheral subunit-binding domain homologues
Wookyung Yu, Kwanghoon Chung, Mookyung Cheon, Muyoung Heo, Kyou-Hoon Han, Sihyun Ham, Iksoo Chang*
Proceedings of the National Academy of Sciences USA (2008) 105:2397

Patents

열민감성이 향상된 돌연변이 UDG (대한민국, 미국, 일본)
코로나바이러스 감염증 COVID-19 치료용 펲타이드 및 이의 용도
코로나바이르스 감염증 COVID-19 치료제 단백질 CTP 알파 및 이의 용도
코로나바이르스 감염증 COVID-19 치료제 단백질 CTP 베타 및 이의 용도
코로나바이르스 감염증 COVID-19 치료제 단백질 CTP 감마 및 이의 용도
코로나바이르스 감염증 COVID-19 치료제 단백질 CTP 델타 및 이의 용도
회귀 모델 기반 무정형 단백질의 앙상블 구조 예측 방법 및 분석장치
생성 모델을 이용한 유전자 발현 데이터 분석 방법 및 분석 장치