NSRRC Activity Report 2023

140 NSRRC ACTIVITY REPORT 2023 Note: 1. Asterisks (*) indicate corresponding authors. Their Chinese names are shown in parentheses if applicable. 2. Publications are sorted by endstation and listed in alphabetic order according to the last name of the first author. 3. Publications using more than one beamline are listed in corresponding beamline sections. 4. Publications marked ◎ are selected to report in the section of Research Highlights. TPS 05A Protein Microcrystallography • Jui-Jen Chang, Bang-Jau You, Ni Tien, Yu-Chuan Wang, Chia-Shin Yang, Mei- Hui Hou, Yeh Chen*( 陳曄 ), “ Specific Recognition of Cyclic Oligonucleotides by Cap4 for Phage Infection ”, Int. J. Biol. Macromol. 237 , 123656 (2023). ◎ Nai-Chi Chen, Chun-Hsiung Wang, Masato Yoshimura, Yi-Qi Yeh, Hong- Hsiang Guan, Phimonphan Chuankhayan, Chien-Chih Lin, Pei-Ju Lin, Yen-Chieh Huang, Soichi Wakatsuki, Meng-Chiao Ho*( 何孟樵 ), and Chun- Jung Chen*( 陳俊榮 ), “ Structures of Honeybee-infecting Lake Sinai Virus Reveal Domain Functions and Capsid Assembly with Dynamic Motions ”, Nat. Commun. 14 , 545 (2023). • Sheng-Chia Chen, Bo-Chen Jiang, Yen-Ju Lu, Chia-Hao Chang, Tsung-Han Wu, Sheng-Wei Lin, Hua-Wen Yin, Tzong-Huei Lee*( 李宗徽 ), and Chun- Hua Hsu*( 徐駿森 ), “ Characterization and Crystal Structures of a Cubebol- producing Sesquiterpene Synthase from Antrodia Cinnamomea ”, J. Agr. Food Chem. 71 , 13014 (2023). • Chao-Cheng Cho, Chun-Jung Lin, Hsun-Ho Huang, Wei-Zen Yang, Cheng-Yin Fei, Hsin-Ying Lin, Ming-Shyue Lee*( 李明學 ), and Hanna S. Yuan*( 袁小琀 ), “ Mechanistic Insights into Harmine-mediated Inhibition of Human DNA Methyltransferases and Prostate Cancer Cell Growth ” , ACS Chem. Biol. 18 , 1335 (2023). • Phimonphan Chuankhayan, Ruey-Hua Lee, Hong-Hsiang Guan, Chein-Chih Lin, Nai-Chi Chen, Yen-Chieh Huang, Masato Yoshimura, Atsushi Nakagawa and Chun-Jung Chen*( 陳俊榮 ), “ Structural Insight into the Hydrolase and Synthase Activities of an Alkaline α-galactosidase from Arabidopsis from Complexes with Substrate/Product ”, Acta Crystallogr. D 79 , 154 (2023). • Meng-Ru Ho, Yi-Ming Wu, Yen-Chen Lu, Tzu-Ping Ko, Kuen-Phon Wu* ( 吳昆峰 ), “ Cryo-EM Reveals the Structure and Dynamics of a 723-residue Malate Synthase G ”, J. Struct. Biol. 215 , 107958 (2023). ◎ Chun-Hua Hsu*( 徐駿森 ), “ Crystallographic and Biophysical Analysis of the Fusion Core from SARS-CoV-2 Spike Protein ”, J. Chin. Chem. Soc. 70 , 1208 (2023). • Kuan-Wei Huang, Chia-Yun Wu, Shu-Ing Toh, Tung-Chang Liu, Chun-I Tu, Yin-Hsin Lin, An-Ju Cheng, Ya-Ting Kao, Jhih-Wei Chu*( 朱智瑋 ), and Yu-Yuan Hsiao*( 蕭育源 ), “ Molecular Insight into the Specific Enzymatic Properties of TREX1 Revealing the Diverse Functions in Processing RNA and DNA / RNA Hybrids ”, Nucleic Acids Res. 51 , 11927 (2023). ◎ Kuan-Ying A. Huang*( 黃冠穎 ), Xiaorui Chen, Arpita Mohapatra, Hong Thuy Vy Nguyen, Lisa Schimanski, Tiong Kit Tan, Pramila Rijal, Susan K. Vester, Rory A. Hills, Mark Howarth, Jennifer R. Keeffe, Alexander A. Cohen, LeesaM. Kakutani, Yi-MinWu, Md Shahed-Al-Mahmud, Yu-Chi Chou, Pamela J. Bjorkman, Alain R. Townsend, and Che Ma*( 馬徹 ), “ Structural Basis for a Conserved Neutralization Epitope on the Receptor-binding Domain of SARS- CoV-2 ”, Nat. Commun. 14 , 311 (2023). • Hsi-Wen Kao, Wei-Lin Lu, Meng-Ru Ho, Yu-Fong Lin, Yun-Jung Hsieh, Tzu- Ping Ko, Shang-Te Danny Hsu, and Kuen-Phon Wu*( 吳昆峯 ), “ Robust Design of Effective Allosteric Activators for Rsp5 E3 Ligase Using the Machine Learning Tool ProteinMPNN ”, ACS Synth. Biol. 12 , 2310 (2023). • Hao Li, Jian-Wen Huang, Longhai Dai, Haibin Zheng, Si Dai, Qishan Zhang, Licheng Yao, Yunyun Yang, Yu Yang, Jian Min, Rey-Ting Guo*( 郭瑞庭 ), and Chun-Chi Chen*( 陳純琪 ), “ The Structural and Functional Investigation into an Unusual Nitrile Synthase ”, Nat. Commun. 14 , 7425 (2023). List of Publications Publications (including conference proceedings) listed here are based on the results obtained from facilities associated with NSRRC. • Jiaxin Li, Patrick T. Kang, Ruisheng Jiang, Jodie Y. Lee, Jitesh A. Soares, Joseph A. Krzycki*, and Michael K. Chan*( 陳文博 ), “ Insights into Pyrrolysine Function from Structures of a Trimethylamine Methyltransferase and Its Corrinoid Protein Complex ”, Commun. Biol. 6 , 54 (2023). • Manuel Maestre-Reyna*, Po-Hsun Wang, Eriko Nango, ⋯ Wen-Jin Wu, Hans-Joachim Emmerich, Nicolas Caramello, Sophie Franz-Badur, Chao Yang, Sylvain Engilberge, Maximilian Wranik, Hannah Louise Glover, Tobias Weinert, Hsiang-Yi Wu, Cheng-Chung Lee, Wei-Cheng Huang, Kai-Fa Huang, Yao-Kai Chang, Jiahn-Haur Liao, Jui-Hung Weng, Wael Gad, Chiung-Wen Chang, Allan H. Pang, Kai-Chun Yang, Wei-Ting Lin, Yu-Chen Chang, Dardan Gashi, Emma Beale, ⋯ Yoshitaka Bessho*, Lars-Oliver Essen*, Ming-Daw Tsai*( 蔡明道 ), “ Visualizing the DNA Rpair Process by a Photolyase at Atomic Resolution ”, Science 382 , eadd7795 (2023). • Hong Thuy Vy Nguyen, Xiaorui Chen, Claudia Parada, An-Chi Luo, Orion Shih, U-Ser Jeng, Chia-Ying Huang, Yu-Ling Shih*( 史有伶 ), and Che Ma* ( 馬徹 ), “ Structure of the Heterotrimeric Membrane Protein Complex FtsB-FtsL- FtsQ of the Bacterial Divisome ”, Nat. Commun. 14 , 1903 (2023). • Sarita Puri, Cheng-Yu Liu, I-Chen Hu, Chih-Hsuan Lai, Shang-Te Danny Hsu* ( 徐尚德 ), Ping-Chiang Lyu*( 呂平江 ), “ Elucidation of the Folding Pathway of a Circular Permutant of Topologically Knotted YbeA by Tryptophan Substitutions ”, Biochem. Biophy. Res. Co. 672 , 81 (2023). • Surapoj Sanram, Anuwat Aunkham, Robert Robinson, and Wipa Suginta*, “ Structural Displacement Model of Chitooligosaccharide Transport through Chitoporin ”, J. Biol. Chem. 299 , 105000 (2023). • Roshan Satange, Chih-Chun Chang, Long-Yuan Li, Sheng-Hao Lin, Stephen Neidle*, and Ming-Hon Hou*( 侯明宏 ), “ Synergistic Binding of Actinomycin D and Echinomycin to DNA Mismatch Sites and Their Combined Anti-tumour Effects ”, Nucleic Acids Res. 51 , 3540 (2023). • Shu-Ing Toh, Johan Elaine Keisha, Yung-Lin Wang, Yi-Chi Pan, Yu-Heng Jhu, Po-Yun Hsiao, Wen-Ting Liao, Po-Yuan Chen, Tai-Ming Ko, and Chin- Yuan Chang*( 張晉源 ), “ Discovery and Characterization of Genes Conferring Natural Resistance to the Antituberculosis Antibiotic Capreomycin ”, Commun. Biol. 6 , 1282 (2023). ◎ Wei-Jiun Tsai, Yi-Hsin Lai, Yong-An Shi, Michal Hammel, Anthony P. Duff, Andrew E. Whitten, Karyn L. Wilde, Chun-Ming Wu, Robert Knott, U-Ser Jeng, Chia-Yu Kang, Chih-Yu Hsu, Jian-Li Wu, Pei-Jane Tsai, Chuan Chiang-Ni, Jiunn-Jong Wu, Yee-Shin Lin, Ching-Chuan Liu, Toshiya Senda, and Shuying Wang*( 王淑鶯 ), “ Structural Basis Underlying the Synergism of NADase and SLO During Group A Streptococcus Infection ”, Commun. Biol. 6 , 124 (2023). • Shun-Ching Wang, Yi-Tsao Chen3, Roshan Satange, Jhih-Wei Chu*( 朱智瑋 ), and Ming-Hon Hou*( 侯明宏 ), “ Structural Basis for Water Modulating RNA Duplex Formation in the CUG Repeats of Myotonic Dystrophy Type 1 ”, J. Biol. Chem. 299 , 104864 (2023). ◎ Yung-Lin Wang, Chin-Yuan Chang, Ning-Shian Hsu, I-Wen Lo, Kuan-Hung Lin, Chun-Liang Chen, Chi-Fon Chang, Zhe-Chong Wang, Yasushi Ogasawara, Tohru Dairi, Chitose Maruyama, Yoshimitsu Hamano*, and Tsung-Lin Li* ( 李宗璘 ), “ N-formimidoylation/-iminoacetylation Requires a Specialized Enzyme Employing FAD-dependent and Ligand-protein NOS Bridge Dual Chemistry ”, Nat. Commun. 14 , 2528 (2023). • Chia-Shin Yang, Tzu-Ping Ko, Chao-Jung Chen, Mei-Hui Hou, Yu-Chuan Wang, and Yeh Chen*( 陳曄 ), “ Crystal Structure and Functional Implications of Cyclic Di-pyrimidine-synthesizing cGAS/DncV-like Nucleotidyltransferases ”, Nat. Commun. 14 , 5078 (2023). ◎ Linjie Yuan, Xianqiang Ma, Yunyun Yang, Yingying Qu, Xin Li, Xiaoyu Zhu, Weiwei Ma, Jianxin Duan, Jing Xue, Haoyu Yang, Jian-Wen Huang, Simin Yi, Mengting Zhang, Ningning Cai, Lin Zhang, Qingyang Ding, Kecheng Lai, Chang Liu, Lilan Zhang, Xinyi Liu, Yirong Yao, Shuqi Zhou, Xian Li, Panpan Shen, Qing Chang, Satish R. Malwal, Yuan He, Wenqi Li, Chunlai Chen, Chun- Chi Chen, Eric Oldfield, Rey-Ting Guo*( 郭瑞庭 ), and Yonghui Zhang* ( 張永輝 ), “ Phosphoantigens Glue Butyrophilin 3A1 and 2A1 to Activate Vγ9Vδ2 T Cells ”, Nature 621 , 840 (2023). • Yong Zhou, Suttipong Wannapaiboon, Methinee Prongjit, Soraya Pornsuwan, Jeerus Sucharitakul, Nuntaporn Kamonsutthipaijit, Robert C. Robinson, and Wipa Suginta*, “ Structural and Binding Studies of a New Chitin-active AA10 Lytic Polysaccharide Monooxygenase from the Marine Bacterium Vibrio