Links to public research profiles
https://orcid.org/0000-0001-7740-1812List of publications (last updated Oct. 2019)
All publications during my tenure at the Structural Genomics Consortium should have been open-access. Contact me if you need a copy of any of the papers listed below.
The list is generated in the American Chemical Society style using the reference management software Zotero.
The list is generated in the American Chemical Society style using the reference management software Zotero.
(1) Paudel, P.; Zhang, Q.; Leung, C.; Greenberg, H. C.; Guo, Y.; Chern, Y.-H.; Dong, A.; Li, Y.; Vedadi, M.; Zhuang, Z.; et al. Crystal Structure and Activity-Based Labeling Reveal the Mechanisms for Linkage-Specific Substrate Recognition by Deubiquitinase USP9X. Proc. Natl. Acad. Sci. U.S.A. 2019, 116 (15), 7288–7297. https://doi.org/10/gfxz98.
(2) Liu, L.; Damerell, D. R.; Koukouflis, L.; Tong, Y.; Marsden, B. D.; Schapira, M. UbiHub: A Data Hub for the Explorers of Ubiquitination Pathways. Bioinformatics 2019, 35 (16), 2882–2884. https://doi.org/10/ggbp58.
(3) Lepore, R.; Kryshtafovych, A.; Alahuhta, M.; Veraszto, H. A.; Bomble, Y. J.; Bufton, J. C.; Bullock, A. N.; Caba, C.; Cao, H.; Davies, O. R.; et al. Target Highlights in CASP13: Experimental Target Structures through the Eyes of Their Authors. Proteins 2019. https://doi.org/10/ggbp54.
(4) Gong, W.; Yao, X.; Liang, Q.; Tong, Y.; Perrett, S.; Feng, Y. Resonance Assignments for the Tandem PWWP-ARID Domains of Human RBBP1. Biomol NMR Assign 2019, 13 (1), 177–181. https://doi.org/10/ggbp59.
(5) Bozelli, J. C. J.; Yune, J.; Hou, Y. H.; Chatha, P.; Fernandes, A.; Cao, Z.; Tong, Y.; Epand, R. M. Regulation of DGKepsilon Activity and Substrate Acyl Chain Specificity by Negatively Charged Phospholipids. Biophys J 2019. https://doi.org/10.1016/j.bpj.2019.09.008.
(6) Tian, W.; Li, M.; Guo, H.; Peng, W.; Xue, X.; Hu, Y.; Liu, Y.; Zhao, Y.; Fang, X.; Wang, K.; et al. Architecture of the Native Major Royal Jelly Protein 1 Oligomer. Nature Communications 2018, 9 (1), 3373. https://doi.org/10/gd5z28.
(7) Madigan, J. P.; Hou, F.; Ye, L.; Hu, J.; Dong, A.; Tempel, W.; Yohe, M. E.; Randazzo, P. A.; Jenkins, L. M. M.; Gottesman, M. M.; et al. The Tuberous Sclerosis Complex Subunit TBC1D7 Is Stabilized by Akt Phosphorylation–Mediated 14-3-3 Binding. J. Biol. Chem. 2018, 293 (42), 16142–16159. https://doi.org/10/gfjbgp.
(8) Kalkat, M.; Resetca, D.; Lourenco, C.; Chan, P.-K.; Wei, Y.; Shiah, Y.-J.; Vitkin, N.; Tong, Y.; Sunnerhagen, M.; Done, S. J.; et al. MYC Protein Interactome Profiling Reveals Functionally Distinct Regions That Cooperate to Drive Tumorigenesis. Mol Cell 2018, 72 (5), 836-848.e7. https://doi.org/10/gfw6st.
(9) Harding, R. J.; Tong, Y. Proteostasis in Huntington’s Disease: Disease Mechanisms and Therapeutic Opportunities. Acta Pharmacologica Sinica 2018, 39 (5), 754–769. https://doi.org/10.1038/aps.2018.11.
(10) Gao, X.; Xie, H.; Zhu, S.; Yu, B.; Xian, Y.; Ouyang, Q.; Ji, Y.; Yang, X.; Wen, C.; Wang, P.; et al. The Combination of Human Urinary Kallidinogenase and Mild Hypothermia Protects Adult Rats Against Hypoxic-Ischemic Encephalopathy-Induced Injury by Promoting Angiogenesis and Regeneration. Front Aging Neurosci 2018, 10, 196. https://doi.org/10/ggbzbc.
(11) Zhang, Z.; Jones, A. E.; Wu, W.; Kim, J.; Kang, Y.; Bi, X.; Gu, Y.; Popov, I. K.; Renfrow, M. B.; Vassylyeva, M. N.; et al. Role of Remodeling and Spacing Factor 1 in Histone H2A Ubiquitination-Mediated Gene Silencing. PNAS 2017, 201711158. https://doi.org/10.1073/pnas.1711158114.
(12) Zhang, W.; Sartori, M. A.; Makhnevych, T.; Federowicz, K. E.; Dong, X.; Liu, L.; Nim, S.; Dong, A.; Yang, J.; Li, Y.; et al. Generation and Validation of Intracellular Ubiquitin Variant Inhibitors for USP7 and USP10. Journal of Molecular Biology 2017, 429, doi: 10.1016/j.jmb.2017.05.025. https://doi.org/10.1016/j.jmb.2017.05.025.
(13) Zhang, Q.; Wang, Z.; Hou, F.; Harding, R.; Huang, X.; Dong, A.; Walker, J. R.; Tong, Y. The Substrate Binding Domains of Human SIAH E3 Ubiquitin Ligases Are Now Crystal Clear. Biochim Biophys Acta 2017, 1861 (1 Pt A), 3095–3105. https://doi.org/10.1016/j.bbagen.2016.10.019.
(14) Teyra, J.; Huang, H.; Jain, S.; Guan, X.; Dong, A.; Liu, Y.; Tempel, W.; Min, J.; Tong, Y.; Kim, P. M.; et al. Comprehensive Analysis of the Human SH3 Domain Family Reveals a Wide Variety of Non-Canonical Specificities. Structure 2017, 25 (10), 1598-1610.e3. https://doi.org/10.1016/j.str.2017.07.017.
(15) Muller-Greven, J.; Kim, S.; Hota, P. K.; Tong, Y.; Borthakur, S.; Buck, M. Characterizing Plexin GTPase Interactions Using Gel Filtration, Surface Plasmon Resonance Spectrometry, and Isothermal Titration Calorimetry. Methods Mol Biol 2017, 1493, 89–105. https://doi.org/10/ggbp6g.
(16) Hanna, M. G.; Block, S.; Frankel, E. B.; Hou, F.; Johnson, A.; Yuan, L.; Knight, G.; Moresco, J. J.; Yates, J. R.; Ashton, R.; et al. TFG Facilitates Outer Coat Disassembly on COPII Transport Carriers to Promote Tethering and Fusion with ER–Golgi Intermediate Compartments. PNAS 2017, 114 (37), E7707–E7716. https://doi.org/10.1073/pnas.1709120114.
(17) Gao, Y.; Zhang, Q.; Lang, Y.; Liu, Y.; Dong, X.; Chen, Z.; Tian, W.; Tang, J.; Wu, W.; Tong, Y.; et al. Human Apo-SRP72 and SRP68/72 Complex Structures Reveal the Molecular Basis of Protein Translocation. J Mol Cell Biol 2017, 9 (3), 220–230. https://doi.org/10.1093/jmcb/mjx010.
(18) Zhang, W.; Wu, K.-P.; Sartori, M. A.; Kamadurai, H. B.; Ordureau, A.; Jiang, C.; Mercredi, P. Y.; Murchie, R.; Hu, J.; Persaud, A.; et al. System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes. Molecular Cell 2016, 62 (1), 121–136. https://doi.org/10.1016/j.molcel.2016.02.005.
(19) Zhang, Q.; Harding, R.; Hou, F.; Dong, A.; Walker, J. R.; Bteich, J.; Tong, Y. Structural Basis of the Recruitment of Ubiquitin-Specific Protease USP15 by Spliceosome Recycling Factor SART3. J. Biol. Chem. 2016, 291 (33), 17283–17292. https://doi.org/10/f83zm8.
(20) Tong, Y. Commentary: Developing High Quality Chemical Probes Targeting Ubiquitin-Specific Proteases. Chin J Pharmacol Toxicol 2016, 30 (6), 611–619.
(21) Zhang, Q.; Fan, L.; Hou, F.; Dong, A.; Wang, Y.-X.; Tong, Y. New Insights into the RNA-Binding and E3 Ubiquitin Ligase Activities of Roquins. Scientific Reports 2015, 5, 15660. https://doi.org/10.1038/srep15660.
(22) Tong, Y.; Dong, A.; Xu, X.; Wernimont, A. Salvage or Recovery of Failed Targets by in Situ Proteolysis. In Methods in molecular biology; 2014; Vol. 1140, pp 179–188.
(23) Feng, C.; Liu, Y.; Wang, G.; Deng, Z.; Zhang, Q.; Wu, W.; Tong, Y.; Cheng, C.; Chen, Z. Crystal Structures of the Human RNA Demethylase Alkbh5 Reveal Basis for Substrate Recognition. J. Biol. Chem. 2014, 289 (17), 11571–11583. https://doi.org/10.1074/jbc.M113.546168.
(24) Fang, L.; Zhang, L.; Wei, W.; Jin, X.; Wang, P.; Tong, Y.; Li, J.; Du, J. X.; Wong, J. A Methylation-Phosphorylation Switch Determines Sox2 Stability and Function in ESC Maintenance or Differentiation. Molecular cell 2014, 55 (4), 537–551. https://doi.org/10.1016/j.molcel.2014.06.018.
(25) Tempel, W.; Dimov, S.; Tong, Y.; Park, H.-W.; Hong, B. S. Crystal Structure of Human Multiple Copies in T-Cell Lymphoma-1 Oncoprotein. Proteins 2013, 81 (3), 519–525. https://doi.org/10/f4j6zc.
(26) Zhu, H.; Lee, H. Y.; Tong, Y.; Hong, B.-S.; Kim, K.-P.; Shen, Y.; Lim, K. J.; Mackenzie, F.; Tempel, W.; Park, H.-W. Crystal Structures of the Tetratricopeptide Repeat Domains of Kinesin Light Chains: Insight into Cargo Recognition Mechanisms. PloS one 2012, 7 (3), e33943–e33943. https://doi.org/10.1371/journal.pone.0033943.
(27) Dixon, M. J.; Gray, A.; Schenning, M.; Agacan, M.; Tempel, W.; Tong, Y.; Nedyalkova, L.; Park, H.-W.; Leslie, N. R.; van Aalten, D. M. F.; et al. IQGAP Proteins Reveal an Atypical Phosphoinositide (API) Binding Domain with a Pseudo C2 Domain Fold. J Biol Chem 2012, 287 (27), 22483–22496. https://doi.org/10/f348jh.
(28) Wang, H.; Hota, P. K.; Tong, Y.; Li, B.; Shen, L.; Nedyalkova, L.; Borthakur, S.; Kim, S.; Tempel, W.; Buck, M.; et al. Structural Basis of Rnd1 Binding to Plexin Rho GTPase Binding Domains (RBDs). The Journal of biological chemistry 2011, 286 (29), 26093–26106. https://doi.org/10.1074/jbc.M110.197053.
(29) Li, J.; Li, Z.; Ruan, J.; Xu, C.; Tong, Y.; Pan, P. W.; Tempel, W.; Crombet, L.; Min, J.; Zang, J. Structural Basis for Specific Binding of Human MPP8 Chromodomain to Histone H3 Methylated at Lysine 9. PloS one 2011, 6 (10), e25104–e25104. https://doi.org/10.1371/journal.pone.0025104.
(30) Wiens, C. J.; Tong, Y.; Esmail, M. a; Oh, E.; Gerdes, J. M.; Wang, J.; Tempel, W.; Rattner, J. B.; Katsanis, N.; Park, H.-W.; et al. Bardet-Biedl Syndrome-Associated Small GTPase ARL6 (BBS3) Functions at or near the Ciliary Gate and Modulates Wnt Signaling. The Journal of biological chemistry 2010, 285 (21), 16218–16230. https://doi.org/10.1074/jbc.M109.070953.
(31) Tong, Y.; Tempel, W.; Wang, H.; Yamada, K.; Shen, L.; Senisterra, G. a; MacKenzie, F.; Chishti, A. H.; Park, H.-W. Phosphorylation-Independent Dual-Site Binding of the FHA Domain of KIF13 Mediates Phosphoinositide Transport via Centaurin Alpha1. Proceedings of the National Academy of Sciences of the United States of America 2010, 107 (47), 20346–20351. https://doi.org/10.1073/pnas.1009008107.
(32) Tong, Y.; Tempel, W.; Nedyalkova, L.; Mackenzie, F.; Park, H.-W. Crystal Structure of the N-Acetylmannosamine Kinase Domain of GNE. PloS one 2009, 4 (10), e7165–e7165. https://doi.org/10.1371/journal.pone.0007165.
(33) Tong, Y.; Park, I.; Hong, B.-S.; Nedyalkova, L.; Tempel, W.; Park, H.-W. Crystal Structure of Human EIF5A1: Insight into Functional Similarity of Human EIF5A1 and EIF5A2. Proteins 2009, 75 (4), 1040–1045. https://doi.org/10/dw8gnj.
(34) Tong, Y.; Hota, P. K.; Penachioni, J. Y.; Hamaneh, M. B.; Kim, S.; Alviani, R. S.; Shen, L.; He, H.; Tempel, W.; Tamagnone, L.; et al. Structure and Function of the Intracellular Region of the Plexin-B1 Transmembrane Receptor. J. Biol. Chem. 2009, 284 (51), 35962–35972. https://doi.org/10.1074/jbc.M109.056275.
(35) Tong, Y.; Hota, P. K.; Hamaneh, M. B.; Buck, M. Insights into Oncogenic Mutations of Plexin-B1 Based on the Solution Structure of the Rho GTPase Binding Domain. Structure 2008, 16 (2), 246–258. https://doi.org/10.1016/j.str.2007.12.012.
(36) Tempel, W.; Tong, Y.; Dimov, S.; Bochkarev, A.; Park, H. First Crystallographic Models of Human TBC Domains in the Context of a Family-Wide Structural Analysis. Proteins 2008, 71 (1), 497–502. https://doi.org/10.1002/prot.21885.
(37) Fang, X.; Cui, Q.; Tong, Y.; Feng, Y.; Shan, L.; Huang, L.; Wang, J. A Stabilizing α/β-Hydrophobic Core Greatly Contributes to Hyperthermostability of Archaeal [P62A]Ssh10b. Biochemistry 2008, 47 (43), 11212–11221. https://doi.org/10.1021/bi8007593.
(38) Tong, Y.; Chugha, P.; Hota, P. K.; Alviani, R. S.; Li, M.; Tempel, W.; Shen, L.; Park, H.-W.; Buck, M. Binding of Rac1, Rnd1, and RhoD to a Novel Rho GTPase Interaction Motif Destabilizes Dimerization of the Plexin-B1 Effector Domain. The Journal of biological chemistry 2007, 282 (51), 37215–37224. https://doi.org/10.1074/jbc.M703800200.
(39) Shan, L.; Tong, Y.; Xie, T.; Wang, M.; Wang, J. Restricted Backbone Conformational and Motional Flexibilities of Loops Containing Peptidyl-Proline Bonds Dominate the Enzyme Activity of Staphylococcal Nuclease. Biochemistry 2007, 46 (41), 11504–11513. https://doi.org/10/d3nj8f.
(40) Dong, A.; Xu, X.; Edwards, A. M.; Chang, C.; Chruszcz, M.; Cuff, M.; Cymborowski, M.; Di Leo, R.; Egorova, O.; Evdokimova, E.; et al. In Situ Proteolysis for Protein Crystallization and Structure Determination. Nature methods 2007, 4 (12), 1019–1021. https://doi.org/10.1038/nmeth1118.
(41) Wang, X.; Wang, M.; Tong, Y.; Shan, L.; Wang, J. Probing the Folding Capacity and Residual Structures in 1-79 Residues Fragment of Staphylococcal Nuclease by Biophysical and NMR Methods. Biochimie 2006, 88 (10), 1343–1355. https://doi.org/10/czm7nh.
(42) Wang, X.; Tong, Y.; Wang, J. Cis/Trans Heterogeneity of Gln30-Pro31 Peptide Bond Determines Whether a. Biochem Biophys Res Commun 2005, 329 (2), 495–501. https://doi.org/10/b7djmd.
(43) Tong, Y.; Hughes, D.; Placanica, L.; Buck, M. When Monomers Are Preferred: A Strategy for the Identification and Disruption of Weakly Oligomerized Proteins. Structure (London, England : 1993) 2005, 13 (1), 7–15. https://doi.org/10.1016/j.str.2004.10.018.
(44) Tong, Y.; Buck, M. 1H, 15N and 13C Resonance Assignments and Secondary Structure Determination Reveal That the Minimal Rac1 GTPase Binding Domain of Plexin-B1 Has a Ubiquitin Fold. J Biomol NMR 2005, 31 (4), 369–370. https://doi.org/10/dzs9vn.
(45) Qian, C.; Yao, Y.; Tong, Y.; Wang, J.; Tang, W. Structural Analysis of Zinc-Substituted Cytochrome c. J Biol Inorg Chem 2003, 8 (4), 394–400. https://doi.org/10/db2gbr.
(46) Huang, Z.; Tong, Y.; Wang, J.; Huang, Y. NMR Studies of the Relationship between the Changes of Membrane Lipids and the Cisplatin-Resistance of A549/DDP Cells. Cancer Cell Int 2003, 3 (1), 5.
(47) Cui, Q.; Tong, Y.; Xue, H.; Huang, L.; Feng, Y.; Wang, J. Two Conformations of Archaeal Ssh10b. The Origin of Its Temperature- Dependent Interaction with DNA. J Biol Chem 2003, 278 (51), 51015–51022. https://doi.org/10/cbk6bh.
(48) Chen, Z.-Z.; Tan, B.; Li, Y.-M.; Zhao, Y.-F.; Tong, Y.-F.; Wang, J.-F. Activity Difference between Alpha-COOH and Beta-COOH In. J Org Chem 2003, 68 (10), 4052–4058. https://doi.org/10/fs82hn.
(49) Tong, Y.; Cui, Q.; Feng, Y.; Huang, L.; Wang, J. 1H, 15N, and 13C Resonance Assignments and Secondary Structure of the Ssh10b from Hyperthermophilic Archaeon Sulfolobus Shibatae. J Biomol NMR 2002, 22 (4), 385–386. https://doi.org/10/ds86jn.
(2) Liu, L.; Damerell, D. R.; Koukouflis, L.; Tong, Y.; Marsden, B. D.; Schapira, M. UbiHub: A Data Hub for the Explorers of Ubiquitination Pathways. Bioinformatics 2019, 35 (16), 2882–2884. https://doi.org/10/ggbp58.
(3) Lepore, R.; Kryshtafovych, A.; Alahuhta, M.; Veraszto, H. A.; Bomble, Y. J.; Bufton, J. C.; Bullock, A. N.; Caba, C.; Cao, H.; Davies, O. R.; et al. Target Highlights in CASP13: Experimental Target Structures through the Eyes of Their Authors. Proteins 2019. https://doi.org/10/ggbp54.
(4) Gong, W.; Yao, X.; Liang, Q.; Tong, Y.; Perrett, S.; Feng, Y. Resonance Assignments for the Tandem PWWP-ARID Domains of Human RBBP1. Biomol NMR Assign 2019, 13 (1), 177–181. https://doi.org/10/ggbp59.
(5) Bozelli, J. C. J.; Yune, J.; Hou, Y. H.; Chatha, P.; Fernandes, A.; Cao, Z.; Tong, Y.; Epand, R. M. Regulation of DGKepsilon Activity and Substrate Acyl Chain Specificity by Negatively Charged Phospholipids. Biophys J 2019. https://doi.org/10.1016/j.bpj.2019.09.008.
(6) Tian, W.; Li, M.; Guo, H.; Peng, W.; Xue, X.; Hu, Y.; Liu, Y.; Zhao, Y.; Fang, X.; Wang, K.; et al. Architecture of the Native Major Royal Jelly Protein 1 Oligomer. Nature Communications 2018, 9 (1), 3373. https://doi.org/10/gd5z28.
(7) Madigan, J. P.; Hou, F.; Ye, L.; Hu, J.; Dong, A.; Tempel, W.; Yohe, M. E.; Randazzo, P. A.; Jenkins, L. M. M.; Gottesman, M. M.; et al. The Tuberous Sclerosis Complex Subunit TBC1D7 Is Stabilized by Akt Phosphorylation–Mediated 14-3-3 Binding. J. Biol. Chem. 2018, 293 (42), 16142–16159. https://doi.org/10/gfjbgp.
(8) Kalkat, M.; Resetca, D.; Lourenco, C.; Chan, P.-K.; Wei, Y.; Shiah, Y.-J.; Vitkin, N.; Tong, Y.; Sunnerhagen, M.; Done, S. J.; et al. MYC Protein Interactome Profiling Reveals Functionally Distinct Regions That Cooperate to Drive Tumorigenesis. Mol Cell 2018, 72 (5), 836-848.e7. https://doi.org/10/gfw6st.
(9) Harding, R. J.; Tong, Y. Proteostasis in Huntington’s Disease: Disease Mechanisms and Therapeutic Opportunities. Acta Pharmacologica Sinica 2018, 39 (5), 754–769. https://doi.org/10.1038/aps.2018.11.
(10) Gao, X.; Xie, H.; Zhu, S.; Yu, B.; Xian, Y.; Ouyang, Q.; Ji, Y.; Yang, X.; Wen, C.; Wang, P.; et al. The Combination of Human Urinary Kallidinogenase and Mild Hypothermia Protects Adult Rats Against Hypoxic-Ischemic Encephalopathy-Induced Injury by Promoting Angiogenesis and Regeneration. Front Aging Neurosci 2018, 10, 196. https://doi.org/10/ggbzbc.
(11) Zhang, Z.; Jones, A. E.; Wu, W.; Kim, J.; Kang, Y.; Bi, X.; Gu, Y.; Popov, I. K.; Renfrow, M. B.; Vassylyeva, M. N.; et al. Role of Remodeling and Spacing Factor 1 in Histone H2A Ubiquitination-Mediated Gene Silencing. PNAS 2017, 201711158. https://doi.org/10.1073/pnas.1711158114.
(12) Zhang, W.; Sartori, M. A.; Makhnevych, T.; Federowicz, K. E.; Dong, X.; Liu, L.; Nim, S.; Dong, A.; Yang, J.; Li, Y.; et al. Generation and Validation of Intracellular Ubiquitin Variant Inhibitors for USP7 and USP10. Journal of Molecular Biology 2017, 429, doi: 10.1016/j.jmb.2017.05.025. https://doi.org/10.1016/j.jmb.2017.05.025.
(13) Zhang, Q.; Wang, Z.; Hou, F.; Harding, R.; Huang, X.; Dong, A.; Walker, J. R.; Tong, Y. The Substrate Binding Domains of Human SIAH E3 Ubiquitin Ligases Are Now Crystal Clear. Biochim Biophys Acta 2017, 1861 (1 Pt A), 3095–3105. https://doi.org/10.1016/j.bbagen.2016.10.019.
(14) Teyra, J.; Huang, H.; Jain, S.; Guan, X.; Dong, A.; Liu, Y.; Tempel, W.; Min, J.; Tong, Y.; Kim, P. M.; et al. Comprehensive Analysis of the Human SH3 Domain Family Reveals a Wide Variety of Non-Canonical Specificities. Structure 2017, 25 (10), 1598-1610.e3. https://doi.org/10.1016/j.str.2017.07.017.
(15) Muller-Greven, J.; Kim, S.; Hota, P. K.; Tong, Y.; Borthakur, S.; Buck, M. Characterizing Plexin GTPase Interactions Using Gel Filtration, Surface Plasmon Resonance Spectrometry, and Isothermal Titration Calorimetry. Methods Mol Biol 2017, 1493, 89–105. https://doi.org/10/ggbp6g.
(16) Hanna, M. G.; Block, S.; Frankel, E. B.; Hou, F.; Johnson, A.; Yuan, L.; Knight, G.; Moresco, J. J.; Yates, J. R.; Ashton, R.; et al. TFG Facilitates Outer Coat Disassembly on COPII Transport Carriers to Promote Tethering and Fusion with ER–Golgi Intermediate Compartments. PNAS 2017, 114 (37), E7707–E7716. https://doi.org/10.1073/pnas.1709120114.
(17) Gao, Y.; Zhang, Q.; Lang, Y.; Liu, Y.; Dong, X.; Chen, Z.; Tian, W.; Tang, J.; Wu, W.; Tong, Y.; et al. Human Apo-SRP72 and SRP68/72 Complex Structures Reveal the Molecular Basis of Protein Translocation. J Mol Cell Biol 2017, 9 (3), 220–230. https://doi.org/10.1093/jmcb/mjx010.
(18) Zhang, W.; Wu, K.-P.; Sartori, M. A.; Kamadurai, H. B.; Ordureau, A.; Jiang, C.; Mercredi, P. Y.; Murchie, R.; Hu, J.; Persaud, A.; et al. System-Wide Modulation of HECT E3 Ligases with Selective Ubiquitin Variant Probes. Molecular Cell 2016, 62 (1), 121–136. https://doi.org/10.1016/j.molcel.2016.02.005.
(19) Zhang, Q.; Harding, R.; Hou, F.; Dong, A.; Walker, J. R.; Bteich, J.; Tong, Y. Structural Basis of the Recruitment of Ubiquitin-Specific Protease USP15 by Spliceosome Recycling Factor SART3. J. Biol. Chem. 2016, 291 (33), 17283–17292. https://doi.org/10/f83zm8.
(20) Tong, Y. Commentary: Developing High Quality Chemical Probes Targeting Ubiquitin-Specific Proteases. Chin J Pharmacol Toxicol 2016, 30 (6), 611–619.
(21) Zhang, Q.; Fan, L.; Hou, F.; Dong, A.; Wang, Y.-X.; Tong, Y. New Insights into the RNA-Binding and E3 Ubiquitin Ligase Activities of Roquins. Scientific Reports 2015, 5, 15660. https://doi.org/10.1038/srep15660.
(22) Tong, Y.; Dong, A.; Xu, X.; Wernimont, A. Salvage or Recovery of Failed Targets by in Situ Proteolysis. In Methods in molecular biology; 2014; Vol. 1140, pp 179–188.
(23) Feng, C.; Liu, Y.; Wang, G.; Deng, Z.; Zhang, Q.; Wu, W.; Tong, Y.; Cheng, C.; Chen, Z. Crystal Structures of the Human RNA Demethylase Alkbh5 Reveal Basis for Substrate Recognition. J. Biol. Chem. 2014, 289 (17), 11571–11583. https://doi.org/10.1074/jbc.M113.546168.
(24) Fang, L.; Zhang, L.; Wei, W.; Jin, X.; Wang, P.; Tong, Y.; Li, J.; Du, J. X.; Wong, J. A Methylation-Phosphorylation Switch Determines Sox2 Stability and Function in ESC Maintenance or Differentiation. Molecular cell 2014, 55 (4), 537–551. https://doi.org/10.1016/j.molcel.2014.06.018.
(25) Tempel, W.; Dimov, S.; Tong, Y.; Park, H.-W.; Hong, B. S. Crystal Structure of Human Multiple Copies in T-Cell Lymphoma-1 Oncoprotein. Proteins 2013, 81 (3), 519–525. https://doi.org/10/f4j6zc.
(26) Zhu, H.; Lee, H. Y.; Tong, Y.; Hong, B.-S.; Kim, K.-P.; Shen, Y.; Lim, K. J.; Mackenzie, F.; Tempel, W.; Park, H.-W. Crystal Structures of the Tetratricopeptide Repeat Domains of Kinesin Light Chains: Insight into Cargo Recognition Mechanisms. PloS one 2012, 7 (3), e33943–e33943. https://doi.org/10.1371/journal.pone.0033943.
(27) Dixon, M. J.; Gray, A.; Schenning, M.; Agacan, M.; Tempel, W.; Tong, Y.; Nedyalkova, L.; Park, H.-W.; Leslie, N. R.; van Aalten, D. M. F.; et al. IQGAP Proteins Reveal an Atypical Phosphoinositide (API) Binding Domain with a Pseudo C2 Domain Fold. J Biol Chem 2012, 287 (27), 22483–22496. https://doi.org/10/f348jh.
(28) Wang, H.; Hota, P. K.; Tong, Y.; Li, B.; Shen, L.; Nedyalkova, L.; Borthakur, S.; Kim, S.; Tempel, W.; Buck, M.; et al. Structural Basis of Rnd1 Binding to Plexin Rho GTPase Binding Domains (RBDs). The Journal of biological chemistry 2011, 286 (29), 26093–26106. https://doi.org/10.1074/jbc.M110.197053.
(29) Li, J.; Li, Z.; Ruan, J.; Xu, C.; Tong, Y.; Pan, P. W.; Tempel, W.; Crombet, L.; Min, J.; Zang, J. Structural Basis for Specific Binding of Human MPP8 Chromodomain to Histone H3 Methylated at Lysine 9. PloS one 2011, 6 (10), e25104–e25104. https://doi.org/10.1371/journal.pone.0025104.
(30) Wiens, C. J.; Tong, Y.; Esmail, M. a; Oh, E.; Gerdes, J. M.; Wang, J.; Tempel, W.; Rattner, J. B.; Katsanis, N.; Park, H.-W.; et al. Bardet-Biedl Syndrome-Associated Small GTPase ARL6 (BBS3) Functions at or near the Ciliary Gate and Modulates Wnt Signaling. The Journal of biological chemistry 2010, 285 (21), 16218–16230. https://doi.org/10.1074/jbc.M109.070953.
(31) Tong, Y.; Tempel, W.; Wang, H.; Yamada, K.; Shen, L.; Senisterra, G. a; MacKenzie, F.; Chishti, A. H.; Park, H.-W. Phosphorylation-Independent Dual-Site Binding of the FHA Domain of KIF13 Mediates Phosphoinositide Transport via Centaurin Alpha1. Proceedings of the National Academy of Sciences of the United States of America 2010, 107 (47), 20346–20351. https://doi.org/10.1073/pnas.1009008107.
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