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Yi-Sheng Cheng Professor

  • Ph.D. Graduate institute of life sciences, National Defense Medical Center, Taiwan

  • Specialty: Structural Biology, Structural Bioinformatics

  • E-mail: chengys@ntu.edu.tw

  • Laboratory: Life Science Building R1121

  • Telephone: 886-2-3366-2951

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Current Research Interests

  1. Bioenergy: Structural and functional analyses of cellulose synthases from Bambusa oldhamii (BoCesAs)

  2. Epigenetics regulatory proteins: Biochemical and biophysical study of plant histone deacetylases (HDAs)

  3. Drug design and development: Structure based inhibitors development of MutT Homolog 1 (MTH1)

Brief of Researches

Our research direction mainly uses the techniques of x-ray crystallography to resolve 3 dimensional structures of macromolecules, including protein, DNA and RNA. We try to interpret the relationship on structure, function, molecular evolution and biological information. The aims are to reveal molecular mechanism in life. Our recent research topics of my lab are:
 

Bioenergy: Structural and functional analyses of cellulose synthases from Bambusa oldhamii (BoCesAs)

Plant cells are divided by cell walls which are composed of cellulose, hemicellulose, pectin and secondary metabolites. Up to 50% of cell wall substance is cellulose which is the most abundant biomass in the world. Cellulose synthase complex (CSC) located at the plasma membrane and cellulose synthases (CesAs) are the catalytic center. CesAs can synthesize glucan chain while cellulose synthase complex accumulates cellulose microfibril into plant cell wall. Bamboo is the most fast growing plants in the world. Its growth can reach 25 cm per day in suitable season. The fast growing would be accompanied by fast synthesis of cellulose. In this proposal, the cellulose synthases from Bambusa oldhamii (BoCesAs) will be analyzed by protein-protein interaction and protein structure approaches. 6 out of 10 cellulose synthases were expressed by yeast expression system, cultured in fermenter, purified by affinity column and monitored the oligomeric state of BoCesA protein by size-exclusion chromatography. The molecular composition of cellulose synthase complexes will be individually in assembling and reconstructing from different cellulose synthases by protein-protein interaction and structure approaches. 

Epigenetics regulatory proteins: Biochemical and biophysical study of plant histone deacetylases (HDAs)

Histone deacetylases (HDAs) involves in regulating plant growth, development and stress responses by relative gene expression. HDAs remove acetyl groups of histone to increase high-affinity interaction between histones and DNA. It results in chromatin condensation and then suppress gene expression. In Arabidopsis, 18 HDAs can be separated into 3 families: RPD3/HDA1-like family, HD2 family and Sirtuin family. The RPD3/HDA1-like family consists of the most members in eukaryotic cells and it can be further classified into 3 classes. In this project, we use an overexpression system of E. coli to express recombinant protein of class II histone deacetylase, including HDA5, HDA15 and HDA18. In preliminary study, enzyme activity and oligomerizaion of HDAs will be affected by its N-terminus or C-terminus. The detailed molecular mechanism is under investigation. Recently, Epigenetics has become a popular research area. Lots of proteins would be interacted with HDAs to regulate transcription. We aim to resolve crystal structures of HDAs. In addition, the complex structures of HDAs with its interacting proteins, such as transcription factors and post-translational modification proteins, are also our future research direction to reveal their co-regulation role in gene expression. It is an important breakthrough in molecular regulation for Epigenetics research. 

Drug design and development: Structure based inhibitors development of MutT Homolog 1 (MTH1)

MutT Homolog 1 (MTH1) has been proved that can hydrolyze oxidized deoxy-ribonleoside triphosphate (dNTP) in DNA repair. It can prevent wrong nucleotide to incorporate into DNA in DNA replication. In cancer cell, highly amount reactive oxygen species can cause lots of oxidized dNTP. MTH1 could eliminate oxidized dNTP and prevent cancer cell to enter apoptosis. MTH1 is not required in normal, but its expression is higher in cancer cells. Therefore, inhibition of MTH1 activity was considered to be anti-cancer cell target. In this research, we screened 2,313 drugs of fragment based compound library. 4 potential MTH1 inhibitors using ultra high throughput drug system were found. We determined crystal structures, inhibitor ability, and cell viability. Based on these structures of 4 fragment based inhibitors and MTH1, new compounds will be modified and to test inhibitor ability for MTH1. Furthermore, new compounds could be used in animal system experiment. 

 

Previous study are summarzied below,

Structural basis of FIN219-FIP1 complex

Light regulated JA signalingFIN219 (Far-red insensitive 219, AtGH3.11) is jasmonate synthetase to conjugate jasmonate to amino acids for jasmonate signaling pathway in plants. Previous study has been indicated that FIN219 involved in phytochrome A-mediated far-red (FR) light signaling and interact with FIP1 (FIN219-interacting protein 1) as known as GST tau20 in Arabidopsis. In 2012, crystal structure of FIN219 has shown carboxyl-terminal region is highly flexible to regulate the enzyme activity. However, it still unknown to explain the interaction of FIN219 and FIP1 in enzyme activity and complex structure. We report the crystal structures of FIN219-FIP1 complex and identify three substrates binding site. FIN219 hinge-loop linked N- and C-terminal region reveals distinct architecture from open-form of PBS3 (AtGH3.12) and close-form of JAR1, and FIN219 S447, K456 and R499 generate salt bridge interactions with FIP1 A184, R188 and D201. The C-terminal helix 528-537 inserts into FIN219 N-terminal active site and pushes ATP toward JA, and K557 provides electrostatic interaction with γ-phosphate of ATP. QCM assay also shows that jasmonic acid (JA) has a dominant binding order for catalysis, and FIN219-FIP1 complex reveals 2.3-fold Kcat and 2-fold Vmax constant higher than FIN219 only. Our results establish FIP1 actually enhance FIN219 enzymatic activity by interacting to C-terminal domain and further conformational changes. Proc. Natl. Acad. Sci. U.S.A. 114:E1815-E1824 Epub Feb 21, 2017

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Crystal structure of group 2 phytocystatin

CeCPI-Papain complex Phytoystatins are specific inhibitors of cysteine proteases. The possible roles are proposed for phytocystatins: (i) they could act as regulators of proteolysis during seed maturation and germination; (ii) they served in plant defense by inhibiting exogenous proteases from insect pests, nematodes and fungi; (iii) they are thought to be a regulated factor under environmental stress. Based on the molecular sizes, the phytocystatin can be divided to three groups: (1) 12~16kDa; (2) ~23kDa; (3) ~80kDa. A group 2 phytocystatin from taro will be purified and crystallized for X-ray crystallography. The full length (FL), Nt and Ct segments of gene of tarocystatin were expressed in E. coli. In previous experiment, FL and Nt exhibited anti-papain activity, but Ct peptide could enhance papain activity in kinetic assay. Therefore, we would like to solve the crystal structure of tarocystatin in group-2 using molecular replacement since the NMR structure of oryzacystatin in group-1 has been solved. We also plan to prepare the complex structure of cystatin-papain for observing the relationship between papain and cystatin, or papain and Ct. We propose that the results will have some explanations in inhibition activity and evolutionary role of group-2 phytocystatin. Planta. (2011) 234(2):243-54. Epub on Mar 17, 2011

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Structural and functional analyses of TLP18.3 idenfied its phosphatase activity

TLP18.3AtTLP18.3 is an 18.3 kDa thylakoid lumen protein with 285 amino acids. Previous studies indicated that the AtTLP18.3 protein is an auxiliary protein of photosystem II (PSII) repair cycle. In order to clarify the possible molecular function of the AtTLP18.3 protein, the crystal structures of the truncated AtTLP18.3 without targeting signal and TMH were resolved. Since there is no any methionine residue in the truncated AtTLP18.3 protein, L128M and L159M were introduced for MAD method by site-directed mutagenesis. The crystals of native and double mutated AtTLP18.3 shows isomorphous in space group P212121 with unit-cell parameters a = 46.9, b = 49.8, c =76.7?A, α=β=γ=90°. Finally, the structure of mutant was resolved at a resolution 2.6?A using single-wavelength anomalous dispersion (SAD) method, and the native structure was resolved at 1.6?A resolution. For further structural comparison, the native structure of truncates AtTLP18.3 was submitted to the DALI and CATH database to search similar folding of protein with known function. The results showed that the structure of AtTLP18.3 resembled to various inorganic pyrophosphatase. The enzymatic activity of AtTLP18.3 was further identified by pNPP phosphatase assay. Therefore, we proposed that the function of AtTLP18.3 will act as phosphatase to remove the phosphate group from damage protein for repair cycle. Plant Physiol. (2011) 157(3):1015-25 Epub on Sep 9, 2011

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Crystal structure of T-domain of ColE7

ColE7 is an operon, which classified as one of the Escherichia coli secretary toxins, is released under stress conditions (UV radiation, starvation, antibiotic treat) to kill other related bacteria. The operon contained three genes: (1) ColE7: N-terminal translocation domain (T-domain), Middle Receptor binding domain (R-domain) and C-terminal nuclease domain (Toxicity domain). (2)ImE7: an immunity protein is co-expressed with ColE7 to inhibit the nuclease activity of ColE7 in host cells. (3)Lys: a protein to penetrate the membrane of host cell for helping ColE7 to secrete into environment. The domains of ColE7 play different roles for binding and killing the target cell. We focus on the crystal structure of T domain to demonstrate the function from structure comparison, functional assay and distribution on electro-potential surface.

Selected Publications

(A) Academic Published Paper

  1. Hsin KT, Lee YH, Lin KC, Chen W, Cheng YS*. Specific binding between Arabidopsis thaliana phytochrome-interacting factor 3 (AtPIF3) bHLH and G-box originated prior to embryophyte emergence. BMC Plant Biol. 2024, Nov;  24:1060. doi: 10.1186/s12870-024-05777-z.

  2. Shih YH, Hung FY, Lin PY, Chen JS, Cheng YS, Yang S, Wu K*. Lysine acetylation regulates the subcellular localization and function of WRKY63.Plant Physiol. 2024 Sep 17:kiae492. doi: 10.1093/plphys/kiae492.

  3. Su GM, Chu LW, Chien CC, Liao PS, Chiu YC, Chang CH, Chu TH, Li CH, Wu CS, Wang JF, Cheng YS, Chang CH, Cheng CP*. Tomato NADPH oxidase SlWfi1 interacts with the effector protein RipBJ of Ralstonia solanacearum to mediate host defence. Plant Cell Environ. 2024 Dec;47(12):5007-5020. doi: 10.1111/pce.15086.

  4. Hung, F.Y., Feng, Y.R., Hsin, K.T., Shih, Y.H., Chang, C.H., Zhong, W., Lai, Y.C., Xu, Y., Yang, S., Sugimoto, K., Cheng, Y.S., Wu, K.* (2023) Arabidopsis histone H3 lysine 9 methyltransferases KYP/SUVH5/6 are involved in leaf development by interacting with AS1-AS2 to repress KNAT1 and KNAT2. Commun. Biol., 6:219.

  5. Hsin, K.T., Kuo, H.C., Kokubugata, G., Möller, M., Wang, C.N.*, Cheng, Y.S.* (2022) Allopatric Lineage Divergence of the East Asian Endemic Herb Conandron ramondioides Inferred from Low-Copy Nuclear and Plastid Markers. Int. J. Mol. Sci. 23:14932.

  6. Hsin, K.T., Hsieh, M.C., Lee, Y.H., Lin, K.C., Cheng, Y.S.* (2022) Insight into the Phylogeny and Binding Ability of WRKY Transcription Factors. Int. J. Mol. Sci. 23:2895. doi: 10.3390/ijms23052895

  7. Hsin, K.T., Wang, C.N., Cheng, Y.S.* (2021). Screening Three Single-copy Nuclear Markers to Infer Population Divergence in Conandron ramondioides (Gesneriaceae). J. Nat. Taiwan Museum, 74:15-25. doi: 10.6532/JNTM.202112_74(4).02

  8. Hsin, K.T., Yang, T.J., Lee, Y.H. and Cheng, Y.S.* (2021) Phylogenetic and Structural Analysis of NIN-Like Proteins With a Type I/II PB1 Domain That Regulates Oligomerization for Nitrate Response. Front. Plant Sci. 12:672035. doi: 10.3389/fpls.2021.672035.

  9. Li, L., Li, W., Gong, J., Xu, Y., Wu, Z., Jiang, Z., Cheng, Y.S., Li, Q., Ni, H.* (2021) An effective computational-screening strategy for simultaneously improving both catalytic activity and thermostability of α-L-rhamnosidase. Biotechnol Bioeng. 2021 Mar 20. doi: 10.1002/bit.27758.

  10. Peng C., Li, Y.H., Yu, C.W., Cheng, Z.H., Liu, J.R., Hsu, J.L., Hsin, L.W., Huang, C.T., Juan, H.F., Chern, J.W., Cheng, Y.S.* (2021) Inhibitor development of MTH1 via high-throughput screening with fragment based library and MTH1 substrate binding cavity. Bioorg Chem. 2021 Mar 10;110:104813. doi: 10.1016/j.bioorg.2021.104813.

  11. He, M.Y., Lin, Y.J., Kao, Y.L., Kuo, P., Grauffel, C., Lim, C., Cheng, Y.S., Chou, H.D.* (2021) Sensitive and Specific Cadmium Biosensor Developed by Reconfiguring Metal Transport and Leveraging Natural Gene Repositories. ACS Sens. 6:995-1002. doi: 10.1021/acssensors.0c02204.

  12. Chen, C.Y., Tu, Y.T., Hsu, J.C., Hung, H.C., Liu, T.C., Lee, Y.H., Chou, C.C., Cheng, Y.S.* and Wu, K.* (2020). Structure of Arabidopsis HISTONE DEACETYLASE15. Plant Physiol. 184:1585-1600.

  13. Chen, C.Y., Lin, P.H., Chen, K.H. and Cheng, Y.S.* (2020) Structural insights into Arabidopsis ethylene response factor 96 with an extended N-terminal binding to GCC box. Plant Mol. Biol., 104:483-498.

  14. Li, L.J., Tan, W.S., Li, W.J., Zhu, Y.B., Cheng, Y.S. and Ni, H.* (2019). Citrus Taste Modification Potentials by Genetic Engineering. Int. J. Mol. Sci., 20(24), 6194.

  15. Huang, H.Y. and Cheng, Y.S.* (2019). Heterologous overexpression, purification and functional analysis of plant cellulose synthase from green bamboo. Plant Methods, 15:80.

  16. Li, L., Gong, J., Wang, S., Li, G., Gao, T., Jiang, Z., Cheng, Y.S., Ni, H.*, and Li, Q. (2019). Heterologous Expression and Characterization of a New Clade of Aspergillus α-L-Rhamnosidase Suitable for Citrus Juice Processing. J. Agr. Food. Chem., 67(10), 2926-2935.

  17. Yu, C.W., Hung, P.Y., Yang, H.T., Ho, Y.H., Lai, H.Y., Cheng, Y.S.*, and Chern, J.W.* (2019). Quinazolin-2,4-dione-Based Hydroxamic Acids as Selective Histone Deacetylase-6 Inhibitors for Treatment of Non-Small-Cell Lung Cancer. J. Med. Chem., 62(2):857-874.

  18. Hsieh, H.C. and Cheng, Y.S.* (2018). Structural and thermondynamics analysis of Ipomoelin with metal ions show the metal-binding ability in Jacalin-related lectin. J. Nat. Taiwan Museum, 71:35-52.

  19. Ho, Y.H., Wang, K.J., Hung, P.Y., Cheng, Y.S., Liu, J.R., Fung, S.T., Liang, P.H., Chern, J.W.* and Yu, C.W.* (2018). A highly HDAC6-selective inhibitor acts as a fluorescent probe. Org. Biomol. Chem., 16, 7820-7832.

  20. Yu, C.W., Tai, R., Wang, S.C., Yang, P., Luo, M., Yang, S., Cheng, K., Wang, W.C. Cheng Y.S., Wu, K.* (2017) HISTONE DEACETYLASE6 Acts in Concert with Histone Methyltransferases SUVH4, SUVH5, and SUVH6 to Regulate Transposon Silencing. Plant Cell. 29: 1970-1983 Epub on Aug 4, 2017

  21. Chen, C.Y., Ho, S.S., Kuo, T.Y., Hsieh, H.L., Cheng Y.S.* (2017) Structural basis of jasmonate-amido synthetase FIN219 in complex with glutathione S-transferase FIP1 during the JA signal regulation. Proc. Natl. Acad. Sci. U.S.A. 114:E1815-E1824. Epub Feb 21, 2017

  22. Chen, H.Y., Cheng Y.S., Shih, H.H.* (2015) Expression patterns and structural modelling of Hsp70 and Hsp90 in a fish-borne zoonotic nematode Anisakis pegreffii. Vet Parasitol. 212:281-91. Epub on Jul 9, 2015.

  23. Chen, H.Y., Cheng Y.S., Grabner, D.S., Chang S.H. and Shih, H.H.* (2014) Effect of different temperatures on the expression of the newly characterized heat shock protein 90 (Hsp90) in L3 of Anisakis spp. isolated from Scomber australasicus. Vet Parasitol. 205:540-550. Epub on Sep 13, 2014.

  24. Wu H.Y. and Cheng Y.S.* (2014) Combining secondary-structure and protein solvent-accessibility predictions in methionine substitution for anomalous dispersion. Acta Crystallogr F Struct Biol Commun. 70:378-83. Epub on Fed 19, 2014.

  25. Yang, W.C.; Lin, Y.M., Cheng, Y.S. and Cheng, C.P.* (2013) Ralstonia solanacearum RSc0411 (lptC) is a determinant for full virulence and has a strain-specific essential function in the T3SS activity. Microbiology. 159:1136-48. Epub on Mar 21, 2013.

  26. Chang, W.C., Liu, K.L., Hsu, F.C., Jeng, S.T. and Cheng, Y.S.* (2012) Ipomoelin, a Jacalin-related lectin with a compact tetrameric association and versatile carbohydrate binding properties regulated by its N terminus. PLoS ONE 7: e40618. Epub on Jul 11, 2012

  27. Wu, H.Y., Liu, M.S., Lin, T.P. and Cheng, Y.S.* (2011) Structural and functional assays of AtTLP18.3 Identify its novel acid phosphatase activity in thylakoid lumen. Plant Physiol. 157(3):1015-25 Epub on Sep 9, 2011

  28. Chu, M.H., Liu, K.L., Wu, H.Y., Yeh, K.W. and Cheng, Y.S.* (2011) Crystal structure of tarocystatin-papain complex: implications for the inhibition property of group-2 phytocystatins. Planta. 234(2):243-54.Epub on Mar 17, 2011

  29. Chu, W.Y., Huang Y.F., Huang C.C., Cheng, Y.S., Huang C.K. and Oyang Y.J. (2009) ProteDNA: a sequence-based predictor of sequence-specific DNA-binding residues in transcription factors. Nucl. Acids Res. 37 (Web Server issue):W396-401.Epub on May 29, 2009

  30. Wang, K.M., Rajendran, S.K., Cheng, Y.S., Venkatagiri, S, Yang, A.H., Yeh, K.W. (2008) Characterization of inhibitory mechanism and antifungal activity between group-1 and group-2 phytocystatin from taro (Colocasia esculenta) FEBS J. 275(20):4980-9.Epub on Sep 10, 2008

  31. Lai, C.K., Jeng, K.S., Machida, K., Cheng, Y.S., and Lai, M.M. (2008) Hepatitis C virus NS3/4A protein interacts with ATM, impairs DNA repair and enhances sensitivity to ionizing radiation. Virology. 2008 Jan 20;370(2):295-309. Epub on Oct 10, 2007

  32. Shen, S.T., Cheng, Y.S., Shen, T.Y., and Yu, J.Y.L. (2006) Molecular cloning of follicle-stimulating hormone beta-subunit cDNA from duck pituitary. Gen. Comp. Endocrinol. 148:388-94.

  33. Cheng, Y.S., Doudeva, L.G., Yang, W.Z., Hsia, K.C., Shi, Z., Chak K.F. and Yuan, H.S. (2006) High-resolution crystal structure of ColE7 translocation domain: Implications for transport across membranes. J. Mol. Biol. 356:22-31

  34. Doudeva, L.G., Huang, H.C., Hsia, K.C., Shi, Z.G., Li, C.L., Shen, Y.L., Cheng, Y.S. and Yuan H.S. (2006) How a His-metal finger endonuclease ColE7 binds and cleaves DNA with a transition metal ion cofactor. Protein Science 15:269-280

  35. Tsai, L.C., Shyur L.F., Cheng, Y.S. and Lee, S.H.(2005) Crystal Structure of Truncated Fibrobacter succinogenes 1,3-1,4-β-D-Glucanase in Complex with β-1,3-1,4-Cellotriose. J. Mol. Biol., 354:642-651

  36. Liu, H., Peng, H.H., Cheng, Y.S., Yuan, H.S. and Yang-Yen H.F. (2005) Stabilization and Enhancement of the anti-apoptotic activity of Mcl1 by TCTP. Mol. Cell. Biol. 25:3117-3126

  37. Hsia, K.C., Chak, K.F., Liang, P.H., Cheng, Y.S., Ku, W.Y. and Yuan, H.S. (2004) DNA binding and degradation by the H-N-H protein ColE7. Structure, 12:205-214.

  38. Cheng, Y.S., Hsia, K.C., Doudeva, L.G. and Yuan, H.S. (2002) The crystal structure of the nuclease domain of colicin E7 suggests a mechanism for binding to double-stranded DNA by the H-N-H endonucleases. J. Mol. Biol. 324:227-236.

  39. Cheng, Y.S., Yang, W.Z., Johnson, R.S. and Yuan, H.S. (2000) Structural Analysis of the Transcriptional Activation Region on Fis: Crystal Structures of Six Fis Mutants with Different Activation Properties. J. Mol. Biol. 302:1139-1151.

  40. Cheng, Y.S., Tang, T.K. and Hwang, M.J. (1999) Amino acid conservation and clinical severity of human glucose-6-phosphate dehydrogenase mutations. J. Biomed. Sci. 6:106-114

  41. Cheng, Y.S.; Lin, C.H. and Chen, L.J. (1997) Transcription and processing of the gene for spinach chloroplast threonine tRNA in a homologous in vitro system. Biochem. Biophys. Res Commun. 233:380-385

​​

(B) Conference Paper

  1. Yi-Sheng Cheng. (2024, May) Molecular interplay of HDA15, WRKY63, and FLC W-box in regulating flowering time. The joint symposium of the Taiwan biophysical society and international network of protein engineering centers. National Synchrotron Radiation Research Center (NSRRC). May 22-25, 2024 (Invited Speaker)

  2. Wei-Bin Wu and Yi-Sheng Cheng. (2024, May) Selective Inhibitor Development of Human Histone Deacetylase 7. The joint symposium of the Taiwan biophysical society and international network of protein engineering centers. National Synchrotron Radiation Research Center (NSRRC). May 22-25, 2024

  3. 鄭貽生 (2023, Dec) 植物抗蟲抗菌的防禦蛋白 輔仁大學生命科學系

  4. Yen-Hua Chang, Yi-Sheng Cheng (2022, Nov) Heterogeneous Expression, Purification and Inhibitor Development of Histone Deacetylase 10. 2022 TSBMB Autumn Camp, The frontiers of biochemistry in Biomedical Science. 麻布山林，新竹縣北埔鄉

  5. Jian-sheng Chen, Yi-Sheng Cheng (2022, Oct) Interplay between WRYKY63 and HDA15 in regulation of gene expression of stress responses. 2022 post-pandemic era for frontier plant science and sustainable agriculture conference, 惠蓀林場，南投

  6. Kuan-Ting Hsin, Hao-Chih Kuo, Goro Kokubugata, Michael Möller, Chun-Neng Wang, Yi-Sheng Cheng (2022, Oct) Allopatric lineage divergence of an East Asia endemic herb Conandron ramondioides inferred from low copy nuclear and plastid markers. 2022 post-pandemic era for frontier plant science and sustainable agriculture conference, 惠蓀林場，南投

  7. Ting-Yi Yu, Yi-Sheng Cheng, Hsin-Hung Yeh (2022, Jun) Functional analysis between AtSAP5 and AtTrx3 in the reduced salicylic acid immunity pathway. ABA, APPA and TBS Joint Congress, National Cheng Kung University, International Conference Center.

  8. Yi-Sheng Cheng (2019). Heterologous overexpression, purification and functional analysis of cellulose synthases from green bamboo. 第七屆海峽兩岸植物科學與農業生物技術研討會暨2019年廣東省植物生理學會學術年會, 廣東茂名.

  9. Chia-Yang Chen, Yi-Tsung Tu, Yi-Sheng Cheng, and Keqiang Wu (2019). The structure and activity of Arabidopsis histone heacetylase 15 are regulated by oligomerization and phosphorylation. 2019 TSPB Annual meeting & Symposium, International Conference Hall, Academica Sinica, Taipei, Taiwan.

  10. Yi-Sheng Cheng (2019). Structural and functional analyses reveal Histone Deacetylase 15 regulated by oligomerization and phosphorylation in Arabidopsis. Japan-Taiwan Plant Biology 2019, 日本名古屋大學.

  11. Yi-Sheng Cheng (2018). Structural and functional analyses reveal Histone Deacetylase 15 regulated by oligomerization and phosphorylation in Arabidopsis. 2018 International Symposium on Plant and Environment Interaction, Conference room R332, Life Science Building, NTU.

  12. Yi-Sheng Cheng (2018). Structural basis of jasmonate-amido synthetase FIN219 in complex with glutathione S-transferase FIP1 during the JA signal regulation. NTU-CUHK 植物科學研討會, 台大管理學院一號館.

  13. Hsuan-Yu Huang and Yi-Sheng Cheng* (2018). Heterologous overexpression, purification and functional analysis of cellulose synthases from green bamboo. 第23屆生物物理研討會, 國立中興大學圖書館7樓國際會議廳.

  14. Ting-Chun Liu and Yi-Sheng Cheng* (2018). Development of Ipomoelin as an affinity tag in recombinant protein expression and purification. 第23屆生物物理研討會, 國立中興大學圖書館7樓國際會議廳.

  15. Yu-Hsuan Lee and Yi-Sheng Cheng* (2018). Structure based drug development for MutT homolog 1. 第23屆生物物理研討會, 國立中興大學圖書館7樓國際會議廳.

  16. Yi-Sheng Cheng (2018). Structural basis of Jasmonate-amido Synthetase FIN219 in complex with glutathione S-transferase FIP1 during the JA signal regulation. 廈門集美大學食品與生物工程學院, 廈門集美大學.

  17. Yi-Sheng Cheng (2018). Structural basis of Jasmonate-amido Synthetase FIN219 in complex with glutathione S-transferase FIP1 during the JA signal regulation. 結晶學小型研討會, 台灣大學化學系B281會議室.

  18. Yi-Sheng Cheng (2017) Dissecting molecular function of Arabidopsis Histone Deacetylase 15. Invited Speaker, 2017Taiwan-Japan Plant Biology2017. Humanities and Social Sciences Building, Academia Sinica. Nov. 3-6.

  19. Cheng Peng and Yi-Sheng Cheng (2017) Structure based inhibitor development for MutT Homolog 1. 第22屆生物物理研討會, 義守大學行政大樓十樓 國際演講廳. May, 17-19 *本文榮獲第22屆生物物理研討會壁報論文競賽第二名

  20. Pei-Wen Liao, Heng-Chen Hung and Yi-Sheng Cheng (2017) Enzymatic Activity and Oligomerization of Histone Deacetylase 15 Regulated by Phosphorylation. 第22屆生物物理研討會, 義守大學行政大樓十樓 國際演講廳. May, 17-19; 植科所105學年科學論文壁報競賽

  21. Min-Che Hsieh and Yi-Sheng Cheng (2016) The Mechanisms of Arabidopsis WRKY54 DNA binding Domain to W boxes. 第21屆生物物理研討會, 國立清華大學生命科學系. May, 19-21; 植科所104學年科學論文壁報競賽, June, 3

  22. Kun-Hong Chen and Yi-Sheng Cheng (2016) Structural and functional analyses of ERF19 in response to biotic stresses. 第21屆生物物理研討會, 國立清華大學生命科學系. May, 19-21; ; 植科所104學年科學論文壁報競賽, June, 3

  23. Jhe-Cheng Hsu and Yi-Sheng Cheng (2016) Characterization of Arabidopsis histone deacetylase 15. 第21屆生物物理研討會, 國立清華大學生命科學系. May, 19-21; ; 植科所104學年科學論文壁報競賽優選獎, June, 3

  24. Hsuan-Yu Huang and Yi-Sheng Cheng (2016) Heterologous overexpression and purification of plant celluloase synthase from Bambusa oldhamii. 第21屆生物物理研討會, 國立清華大學生命科學系. May, 19-21; ; 植科所104學年科學論文壁報競賽, June, 3

  25. Yi-Sheng Cheng (2015) Structural and biochemical analyses of Arabidopsis HDA5 reveal the regulation of histone deacetylase activity. Invited Speaker, 第六屆海峽兩岸植物科學暨農業生物技術研討會 廣東, 廣州 Dec, 3-7

  26. Yi-Sheng Cheng (2015) Biochemical Assays and EM Structure of the Class II of AtHDA5. Invited Speaker, 第十二屆海峽兩岸電子顯微鏡研討會 四川, 稻城 Sep, 6-11

  27. Yi-Sheng Cheng (2015) Structure insights into FIN219-FIP1 complex. Invited Speaker, Workshop of Zentrum für Molekularbiologie der Pflanzen (ZMBP), Tübigen University, Germany. July, 13-15

  28. Yi-Jui Chen, Ready Tai, Keqiang Wu, and Yi-Sheng Cheng (2015) Structural and Biochemical Assays of ClassII AtHDA5. 26th International Conference on Arabidopsis Research (ICAR), Paris, French. July, 5-9

  29. Han-Chen Hsieh and Yi-Sheng Cheng (2015) Structural and thermodynamic analysis of Ipomoelin in complex with metals reveal its metal binding properties. 植科所103學年科學論文壁報競賽優等獎. Jun 5.

  30. Wei Chen and Yi-Sheng Cheng (2015) Study on bHLH domain from Arabidopsis PIF3 binding to G-Box DNA. 第20屆生物物理研討會, 中央研究院生物化學研究所. May, 11-13; 植科所103學年科學論文壁報競賽優等獎 Jun 5.

  31. Pei-Husan Lin and Yi-Sheng Cheng (2015) DNA Binding Assays of ERF96 with GCC boxes. 第20屆生物物理研討會, 中央研究院生物化學研究所. May, 11-13; 植科所103學年科學論文壁報競賽佳作Jun 5.

  32. Chun-Yen Chen, Hsu-Liang Hsieh and Yi-Sheng Cheng (2015) Mechanistic insights into structure of FIN219-FIP1 complex. 第20屆生物物理研討會, 中央研究院生物化學研究所. May, 11-13

  33. Tzu-Jing Yang and Yi-Sheng Cheng (2015) Molecular basis for oligomerization of nitrate response regulator AtNLP7. 第20屆生物物理研討會, 中央研究院生物化學研究所. May, 11-13; 植科所103學年科學論文壁報競賽優等獎 Jun 5.

  34. Yi-Sheng Cheng (2014) Molecular structure and function of Ipomoelin in oligomerization for its antibacterial and insecticidal ability. 中央研究院南部研究中心邀請演講 楊祥發講堂. Oct, 22

  35. Yi-Sheng Cheng (2014) Exploring the Polymer Form of Arabidopsis Histone Deacetylase 6 by Electron Microscopy to Reveal Its Composition. 臺灣顯微鏡學會第三十四屆學術研討會暨第十一屆海峽兩岸電子顯微鏡學術研討會, 臺灣大學應用力學館國際會議廳. Jun, 23-24

  36. Yi-Sheng Cheng (2014) 抗蟲抗菌的植物凝集素植物的逆轉生存之道. 臺北市建國中學生物研習, May, 20.

  37. Hsing-Yi Lai and Yi-Sheng Cheng (2014) Study on the binding modes between hHDAC6 and its inhibitors. The 19th Biophysics Conference, 國立成功大學 光復校區 學生活動中心多功能廳與國際會議廳 May, 7-10

  38. Yi-Jui Chen, Ready Tai, Keqiang Wu, and Yi-Sheng Cheng (2014) Plant HDA5 shows a large polysome with histone deacetylase activity. The 19th Biophysics Conference, 國立成功大學 光復校區 學生活動中心多功能廳與國際會議廳 May, 7-10

  39. Han-Chen Hsieh, Rong-Huay Juang and Yi-Sheng Cheng (2014) Oligomeric states of AtPCS1 by biophysical analyses show its nonspecific association. The 19th Biophysics Conference, 國立成功大學 光復校區 學生活動中心多功能廳與國際會議廳 May, 7-10

  40. Wen-Jiun Wang and Yi-Sheng Cheng (2014) Structural and Functional Studies For Arabidopsis Histone Deacetylase 6. The 19th Biophysics Conference, 國立成功大學 光復校區 學生活動中心多功能廳與國際會議廳 May, 7-10

  41. Chia-Yu Chien and Yi-Sheng Cheng (2014) Structural and Biophysical Analyses of Arabidopsis PIF3 basic helix-loop-helix Domain binding to e-box DNA. For Arabidopsis Histone Deacetylase 6. The 19th Biophysics Conference, 國立成功大學 光復校區 學生活動中心多功能廳與國際會議廳 May, 7-10

  42. Yi-Sheng Cheng (2013) Molecular structure and function of Ipomoelin in oligomerization for its antibacterial and insecticidal ability. 中央研究院細胞與個體生物學研究所"國立台灣大學生命科學系學術檢討會, 台大生科館3樓演講廳， Oct, 8-9.

  43. Hsin-Yi Wu, Tsan-Piao Lin, and Yi-Sheng Cheng (2013) Structural and Functional Assay of AtTLP18.3 revealed its novel phosphatase activity involved in Repair Cycle of Photosystem. 植科所101學年科學論文壁報競賽佳作, 台大體育館， Jun, 7.

  44. Yung-Chi Huang, Shih-Tong Jeng, Yi-Sheng Cheng (2013) Molecular Function of Ipomoelin in Oligomerization for Their Antibacterial and Insecticidal Ability. 植科所101學年科學論文壁報競賽優等獎, 台大體育館, Jun, 7.

  45. Yi-Sheng Cheng (2012) Expression and purification strategies of recombinant proteins for further related applications. 國防醫學院預防醫學研究所，三峽, Nov, 30.

  46. Yi-Sheng Cheng (2012) Protein structures of Epigenetic regulating proteins. 清华大学与台湾大学合作交流学术报告会, 清华大学生命科学新馆143会议室, June, 26.

  47. Kai-Wen Fan, Kai-Wun Yeh, Yi-Sheng Cheng (2012) Monomeric and Dimeric Form of Tarocystatin Showed Different Binding Property to Papain. The 17th Biophysics Conference, Institute of BioMedical Sciences, Academia Sinica; 植科所100學年科學論文壁報競賽佳作

  48. Chun-Yen Chen, Yi-Sheng Cheng (2012) Determination of protein interaction and enzymatic kinetics between FIN219/JAR1 and Glutathione S-Transferases using Quartz Crystal Microbalance. The 17th Biophysics Conference, Institute of BioMedical Sciences, Academia Sinica

  49. Wei-Chieh Chang, Kai-Lun Liu, Shih-Tong Jeng, Fang-Ciao Hsu and Yi-Sheng Cheng (2011) Ipomoelin, a member of Jacalin-related Lectin with a different tetrameric association and versatile carbohydrate binding properties regulating by its N terminus. 第二届海峡两岸植物科学暨农业生物技术研讨会, 中山大學, 廣州

  50. Wei-Chieh Chang, Shih-Tong Jeng and Yi-Sheng Cheng (2011) Quaternary structure and energetic analysis of ipomoelin in complex with various carbohydrates for exploring its binding diversity. The 16th Biophysics conference, College of Sciences and Engineering, National Dong Hwa University, Taiwan

  51. Ming-Hung Chu, Kai-Lun Liu, Kai-Wun Yeh and Yi-Sheng Cheng (2009) Complex structure of tarocystatin-papain and characterization of tarocystatin proposed the roles of C-terminal extension in phytocystatins. Joint Conference of the Asian Crystallographic Association & Chinese Crystallography Society (AsCA'09) Beijing, China

  52. Hsin-Yi Wu, Mao-Sen Liu, Tsan-Piao Lin, and Yi-Sheng Cheng (2009) High-Resolution Crystal Structure and Functional Analysis of a Truncated Thylakoid Lumen Protein AtTLP18.3 Reveal its Novel Phosphatase Activity. Joint Conference of the Asian Crystallographic Association & Chinese Crystallography Society (AsCA'09) Beijing, China

  53. Kai-Lun Liu, Shih-Tong Jeng, and Yi-Sheng Cheng (2009) Crystal structures of Ipomoelin in complex with various carbohydrates, MMP, MGP and Sialic acid NSRRC Fifteenth User' Meeting, Hsinchu, Taiwan

  54. Hsin-Yi Wu, Mao-Sen Liu, Tsan-Piao Lin, and Yi-Sheng Cheng (2009) High-Resolution Crystal Structure and Functional Assay of a Truncated Thylakoid Lumen Protein AtTLP18.3 Reveal its Novel Phosphatase Activity. Joint International Conference of Biophysics and 14th Annual Conference of the Biophysical Society of ROC, NCKU, Tainan

  55. Ming-Hung Chu, Kai-Wun Yeh and Yi-Sheng Cheng (2009) Domain analysis of tarocystatin revealed the inhibitory property of group II phytocystatin. Joint International Conference of Biophysics and 14th Annual Conference of the Biophysical Society of ROC, NCKU, Tainan

  56. Sih-Syun Ho, Zhi-Gong Wang, Hsu-Liang Hsieh, and Yi-Sheng Cheng (2009) Purification and crystallization of FIN219-FIP1 complex and biochemical assay of FIN219. Joint International Conference of Biophysics and 14th Annual Conference of the Biophysical Society of ROC, NCKU, Tainan

  57. Yi-Sheng Cheng, Hsin-Yi Wu, Ming-Hung Chu, Kai-Wun Yeh (2008)Structural model for group-2 phytocystatin revealed the protein folds resembling to human latexin . 19th International Conference on Genome Informatics 2008, GIW2008, Australia

  58. Yi-Sheng Cheng (2008) Structural analysis of IL2-inducible T-cell kinase (ITK) in pedigree 135 mice. Symposium of the national research program for genomic medicine.

  59. Ke-Ming Wang, Shripathi Venkatagiri, Ai-Hwa Yang, Yi-Sheng Cheng* and Kai-Wun Yeh (2007) Structural model and inhibitory characteristics for group-2 phytocystatin from taro. Symposium on Frontiers of Plant Science. *Invited Speaker

  60. Kuo-Chiang Hsia, Kin-Fu Chak, Po-Huang Liang, Yi-Sheng Cheng, Wen-Yen Ku, and Hanna S. Yuan (2004) DNA Binding and Degradation by the HNH Protein ColE7. The 9th Symposium on Recent Advances in Biophysics.

  61. Nancy Yu, Yi-Sheng Cheng (2004) Codon Usage Enhancer (CUE): A JAVA-based Freeware for Manipulating Codon Usage. The 9th Symposium on Recent Advances in Biophysics.

  62. Kuo-Chiang Hsia, Kin-Fu Chak, Po-Huang Liang, Yi-Sheng Cheng, Wen-Yen Ku, and Hanna S.Yuan (2003) DNA Binding and Degradation by the HNH Protein ColE7. 第四屆東亞生物物理研討會

  63. 蔡麗珠，李淑華，鄭貽生，徐麗芬 (2003) 葡聚醣水解酶和三糖複合體晶體結構. 中國化學會92年年會

  64. Yi-Sheng Cheng, Wen-Yen Ku, Meng-Jiun Sui, Kuo-Chiang Hsia, Li-Chu Tsai, Jia-Lueng Li, Wei-Zeng Yang, Lyudmila G. Doudeva and Hanna S. Yuan (2002) Bacterial offense and defense mechanisms using nucleases. The 8th Symposium on Recent Advances in Biophysics.

  65. Yi-Sheng Cheng, Kuo-Chiang Hsia, Lyudmila G. Doudeva , and Hanna S. Yuan (2002) The crystal structure of the nuclease domain of colicin E7 suggests a mechanism for binding to double-stranded DNA by the HNH endonucleases. The 8th Symposium on Recent Advances in Biophysics.

  66. Meng-Jiun Sui, Li-Chu Tsai, Yi-Sheng Cheng, Ludmila Doudeva and Hanna S. Yuan (2001) The zinc ion in the HNH motif of colicin E7 plays a catalytic role. The 8th Symposium on Recent Advances in Biophysics.

  67. Yi-Sheng Cheng, Hanna S. Yuan (2000) Structural Analysis of the Transcriptional Activation Region on Fis: Crystal Structures of Six Fis Mutants with Different Activation Properties. The 6th Symposium on Recent Advances in Biophysics.

  68. Yi-Sheng Cheng, Ming-Jing Hwang (1998) Sequence Conservation in Three-dimensional Structure of Human G6PD and Its Mutants. 第六屆細胞及分子生物新知研討會

  69. Yi-Sheng Cheng, Ming-Jing Hwang (1998) A scheme for visualizing amino acid conservation and its structural context. XVIII international conference on magnetic resonance in biological systems.

  70. Yi-Sheng Cheng, Ming-Jing Hwang (1997) Computer modeling the substrate binding of glucose-6-phosphate dehydrogenase. The 3th Symposium on Recent Advances in Biophysics.

 (C) Book Assay

  1. 鄭貽生 (2021) 代謝體學在植物次級代謝物之分析與運用. 林業研究專訊，28:5-9 

  2. Chen H.Y., Cheng Y.S., Shih H.H.* (2018) Heat Shock Proteins: Role, Functions and Structure in Parasitic Helminths. Chapter 12 in Heat Shock Proteins in Veterinary Science, Heat Shock Proteins Book Series, ed. by A. A. Asea and P. Kaur, Springer International Publishers.

  3. 鄭貽生、蔡麗珠、楊維仁、袁小琀 (2003) 第七章 X光晶體繞射學與結構生物學 後基因體時代之生物技術 pp81-90

Courses Taught

  • B01 101B0 General Biology B

  • B01 106B1 General Biology experiment B

  • B01 10300 Plant Biology

  • B01 49100 Undergraduate Seminar

  • P05 U2020 Biotechnology core experiment

  • B43 U1250 Genomics

  • LS 1028 Introduction to Genetic Engineering

  • B42 U1240 Proteomics

  • LS 7037 Structure Biology Seminar

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