Yihong Ye

Summary

Affiliation: National Institutes of Health
Country: USA

Publications

  1. doi request reprint USP13 antagonizes gp78 to maintain functionality of a chaperone in ER-associated degradation
    Yanfen Liu
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, United States
    elife 3:e01369. 2014
  2. pmc Reversible inactivation of deubiquitinases by reactive oxygen species in vitro and in cells
    Jin Gu Lee
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
    Nat Commun 4:1568. 2013
  3. pmc The ERAD inhibitor Eeyarestatin I is a bifunctional compound with a membrane-binding domain and a p97/VCP inhibitory group
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA
    PLoS ONE 5:e15479. 2010
  4. pmc Regulation of retrotranslocation by p97-associated deubiquitinating enzyme ataxin-3
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Cell Biol 174:963-71. 2006
  5. pmc Monoubiquitination of EEA1 regulates endosome fusion and trafficking
    Harish N Ramanathan
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, 5 Center Drive, Bethesda, MD 20892, USA
    Cell Biosci 3:24. 2013
  6. pmc Building ubiquitin chains: E2 enzymes at work
    Yihong Ye
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, NIH, Bethesda, Maryland 20892, USA
    Nat Rev Mol Cell Biol 10:755-64. 2009
  7. ncbi request reprint Diverse functions with a common regulator: ubiquitin takes command of an AAA ATPase
    Yihong Ye
    NIDDK, National Institutes of Health, Laboratory of Molecular Biology, Bethesda, MD 20892 0540, USA
    J Struct Biol 156:29-40. 2006
  8. ncbi request reprint The role of the ubiquitin-proteasome system in ER quality control
    Yihong Ye
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 0540, USA
    Essays Biochem 41:99-112. 2005
  9. pmc A ubiquitin-like domain recruits an oligomeric chaperone to a retrotranslocation complex in endoplasmic reticulum-associated degradation
    Yue Xu
    Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 288:18068-76. 2013
  10. pmc Inhibition of p97-dependent protein degradation by Eeyarestatin I
    Qiuyan Wang
    Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 283:7445-54. 2008

Collaborators

Detail Information

Publications37

  1. doi request reprint USP13 antagonizes gp78 to maintain functionality of a chaperone in ER-associated degradation
    Yanfen Liu
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, United States
    elife 3:e01369. 2014
    ..DOI: http://dx.doi.org/10.7554/eLife.01369.001. ..
  2. pmc Reversible inactivation of deubiquitinases by reactive oxygen species in vitro and in cells
    Jin Gu Lee
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
    Nat Commun 4:1568. 2013
    ..These findings establish a novel mechanism of DUB regulation that may be integrated with other redox-dependent signalling circuits to govern cellular adaptation to oxidative stress, a process intimately linked to aging and cancer...
  3. pmc The ERAD inhibitor Eeyarestatin I is a bifunctional compound with a membrane-binding domain and a p97/VCP inhibitory group
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland, USA
    PLoS ONE 5:e15479. 2010
    ..We recently reported that the ERAD inhibitor Eeyarestatin I (EerI) also disturbs ER homeostasis and has anti-cancer activities resembling that of Bortezomib...
  4. pmc Regulation of retrotranslocation by p97-associated deubiquitinating enzyme ataxin-3
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Cell Biol 174:963-71. 2006
    ..We present evidence that atx3 may promote p97-associated deubiquitination to facilitate the transfer of polypeptides from p97 to the proteasome...
  5. pmc Monoubiquitination of EEA1 regulates endosome fusion and trafficking
    Harish N Ramanathan
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, 5 Center Drive, Bethesda, MD 20892, USA
    Cell Biosci 3:24. 2013
    ..Early endosomal autoantigen 1 (EEA1) is a membrane tethering factor required for the fusion and maturation of early endosomes in endocytosis. How the activity of EEA1 is regulated in cells is unclear...
  6. pmc Building ubiquitin chains: E2 enzymes at work
    Yihong Ye
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, NIH, Bethesda, Maryland 20892, USA
    Nat Rev Mol Cell Biol 10:755-64. 2009
    ....
  7. ncbi request reprint Diverse functions with a common regulator: ubiquitin takes command of an AAA ATPase
    Yihong Ye
    NIDDK, National Institutes of Health, Laboratory of Molecular Biology, Bethesda, MD 20892 0540, USA
    J Struct Biol 156:29-40. 2006
    ....
  8. ncbi request reprint The role of the ubiquitin-proteasome system in ER quality control
    Yihong Ye
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 0540, USA
    Essays Biochem 41:99-112. 2005
    ..This pathway can be hijacked by certain viruses to destroy folded cellular proteins, such as MHC class I heavy chain. Recent studies have highlighted the importance of the ubiquitin-proteasome system (UPS) in this process...
  9. pmc A ubiquitin-like domain recruits an oligomeric chaperone to a retrotranslocation complex in endoplasmic reticulum-associated degradation
    Yue Xu
    Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 288:18068-76. 2013
    ..We propose that simultaneous association with multiple ERAD factors helps to anchor a disordered chaperone oligomer to the site of retrotranslocation to prevent protein aggregation in ERAD. ..
  10. pmc Inhibition of p97-dependent protein degradation by Eeyarestatin I
    Qiuyan Wang
    Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 283:7445-54. 2008
    ..Interestingly, p97-associated deubiquitination is also involved in degradation of a soluble substrate. Our analyses establish a role for a novel deubiquitinating process in proteasome-dependent protein turnover...
  11. pmc Mechanistic insights into active site-associated polyubiquitination by the ubiquitin-conjugating enzyme Ube2g2
    Wei Li
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 106:3722-7. 2009
    ..Our data suggest that a large gp78-Ube2g2 heterooligomer brings multiple Ube2g2 molecules into close proximity, allowing ubiquitin moieties to be transferred between neighboring Ube2g2s to form active site-linked polyubiquitin chains...
  12. pmc A ubiquitin ligase-associated chaperone holdase maintains polypeptides in soluble states for proteasome degradation
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Mol Cell 42:758-70. 2011
    ..Our results reveal a ubiquitin ligase-associated holdase that maintains polypeptide solubility to enhance protein quality control in mammalian cells...
  13. pmc Multilayered mechanism of CD4 downregulation by HIV-1 Vpu involving distinct ER retention and ERAD targeting steps
    Javier G Magadán
    Cell Biology and Metabolism Program, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Pathog 6:e1000869. 2010
    ..The multiple levels at which Vpu engages these cellular quality control mechanisms underscore the importance of ensuring profound suppression of CD4 to the life cycle of HIV-1...
  14. pmc The zinc finger protein A20 targets TRAF2 to the lysosomes for degradation
    Lianyun Li
    Building 5, Room 433, Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health 5, Center Drive, Bethesda, MD 20892, USA
    Biochim Biophys Acta 1793:346-53. 2009
    ..Our findings suggest a novel mode of A20 action that involves lysosomal targeting of signal molecules bound to A20...
  15. pmc ERAD inhibitors integrate ER stress with an epigenetic mechanism to activate BH3-only protein NOXA in cancer cells
    Qiuyan Wang
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 106:2200-5. 2009
    ..Our results identify a class of anticancer agents that integrate ER stress response with an epigenetic mechanism to induce cell death...
  16. pmc Treatment-induced oxidative stress and cellular antioxidant capacity determine response to bortezomib in mantle cell lymphoma
    Marc A Weniger
    Hematology Branch, NHLBI, NIH, Building 10, CRC 3 5140, 10 Center Drive, Bethesda, 20892 MD, USA
    Clin Cancer Res 17:5101-12. 2011
    ..Up to 50% of patients with relapsed mantle cell lymphoma (MCL) respond to bortezomib. We used gene expression profiling to investigate the connection between proteasome inhibition, cellular response, and clinical efficacy...
  17. pmc Roles of p97-associated deubiquitinases in protein quality control at the endoplasmic reticulum
    Yanfen Liu
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Curr Protein Pept Sci 13:436-46. 2012
    ..Our goal is to integrate the emerging evidence into models that may explain how protein quality control could benefit from deubiquitination, a process previously deemed destructive for proteasomal degradation...
  18. pmc The p97 ATPase associates with EEA1 to regulate the size of early endosomes
    Harish N Ramanathan
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Cell Res 22:346-59. 2012
    ..Mechanistically, we show that p97 inhibition causes increased EEA1 self-association at the endosome membrane. We propose that p97 may regulate the size of early endosomes by governing the oligomeric state of EEA1...
  19. pmc Proteostasis regulation at the endoplasmic reticulum: a new perturbation site for targeted cancer therapy
    Yanfen Liu
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892 0540, USA
    Cell Res 21:867-83. 2011
    ..Here, we review our current understanding of how the cell preserves ER proteostasis and discuss how we may harness the mechanistic information on this process to develop new cancer therapeutics...
  20. pmc Role of intramembrane charged residues in the quality control of unassembled T-cell receptor alpha-chains at the endoplasmic reticulum
    Nia Soetandyo
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    J Cell Sci 123:1031-8. 2010
    ..Our results also suggest that the ERAD machinery is inefficient when coping with oligomerized substrates, indicating a requirement for chaperone-mediated protein disassembly in the ER lumen prior to retrotranslocation...
  21. pmc Localization of A20 to a lysosome-associated compartment and its role in NFkappaB signaling
    Lianyun Li
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Biochim Biophys Acta 1783:1140-9. 2008
    ..Interestingly, A20 mutants defective in membrane association also contain reduced NFkappaB inhibitory activity. These findings suggest the involvement of a lysosome-associated mechanism in A20-dependent termination of NFkappaB signaling...
  22. pmc The p97 ATPase dislocates MHC class I heavy chain in US2-expressing cells via a Ufd1-Npl4-independent mechanism
    Nia Soetandyo
    Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 285:32352-9. 2010
    ..Our results suggest that different retrotranslocation mechanisms can employ distinct p97 ATPase complexes to dislocate substrates...
  23. doi request reprint Bag6/Bat3/Scythe: a novel chaperone activity with diverse regulatory functions in protein biogenesis and degradation
    Jin Gu Lee
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD, USA
    Bioessays 35:377-85. 2013
    ....
  24. pmc SGTA recognizes a noncanonical ubiquitin-like domain in the Bag6-Ubl4A-Trc35 complex to promote endoplasmic reticulum-associated degradation
    Yue Xu
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Cell Rep 2:1633-44. 2012
    ..This interaction helps recruit SGTA to Bag6, enhances substrate loading to Bag6, and thus prevents the formation of nondegradable protein aggregates in ERAD...
  25. pmc Recruitment of the p97 ATPase and ubiquitin ligases to the site of retrotranslocation at the endoplasmic reticulum membrane
    Yihong Ye
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Proc Natl Acad Sci U S A 102:14132-8. 2005
    ....
  26. doi request reprint Characterization of the deubiquitinating activity of USP19 and its role in endoplasmic reticulum-associated degradation
    Jin Gu Lee
    From the Laboratory of Molecular Biology, NIDDK, National Institutes of Health, Bethesda, Maryland 20892 and
    J Biol Chem 289:3510-7. 2014
    ..Moreover, our study indicates that the localization of tail-anchored membrane proteins can be subject to regulation in cells. ..
  27. ncbi request reprint A ubiquitin ligase transfers preformed polyubiquitin chains from a conjugating enzyme to a substrate
    Wei Li
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA
    Nature 446:333-7. 2007
    ..Intriguingly, polyubiquitination of a substrate can be achieved by transferring preassembled ubiquitin chains from Ube2g2 to a lysine residue in a substrate...
  28. pmc Cellular strategies for making monoubiquitin signals
    Harish N Ramanathan
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive, and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Crit Rev Biochem Mol Biol 47:17-28. 2012
    ..Some of these principles may be applicable to protein modifications involving ubiquitin like proteins (UBLs), which often occur in monomeric form...
  29. pmc Revoking the cellular license to replicate: yet another AAA assignment
    Harish N Ramanathan
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Mol Cell 44:3-4. 2011
    ..2011) and Franz et al. (2011) establish the AAA ATPase CDC-48/p97 as an essential regulator of eukaryotic DNA replication that coordinates the release of chromatin-bound CDT1 with its degradation by the proteasome...
  30. ncbi request reprint Modeling clinically heterogeneous presenilin mutations with transgenic Drosophila
    Glen A Seidner
    Laboratory of Protein Dynamics and Signaling, NCI Frederick, National Institutes of Health, Frederick, Maryland 21702, USA
    Curr Biol 16:1026-33. 2006
    ..Our study establishes a precedent for using transgenic Drosophila to study clinical heterogeneity in human disease...
  31. ncbi request reprint Polyubiquitin serves as a recognition signal, rather than a ratcheting molecule, during retrotranslocation of proteins across the endoplasmic reticulum membrane
    Dennis Flierman
    Department of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, USA
    J Biol Chem 278:34774-82. 2003
    ..These data suggest that polyubiquitin does not serve as a ratcheting molecule. Rather, it may serve as a recognition signal for the p97-Ufd1-Npl4 complex, a component implicated in the movement of substrate into the cytosol...
  32. ncbi request reprint Retro-translocation of proteins from the endoplasmic reticulum into the cytosol
    Billy Tsai
    Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA
    Nat Rev Mol Cell Biol 3:246-55. 2002
    ..This retro-translocation pathway has been co-opted by certain viruses, and by plant and bacterial toxins. The mechanism of retro-translocation is still mysterious, but several aspects of this process are now being unravelled...
  33. pmc Function of the p97-Ufd1-Npl4 complex in retrotranslocation from the ER to the cytosol: dual recognition of nonubiquitinated polypeptide segments and polyubiquitin chains
    Yihong Ye
    Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
    J Cell Biol 162:71-84. 2003
    ....
  34. ncbi request reprint A membrane protein complex mediates retro-translocation from the ER lumen into the cytosol
    Yihong Ye
    Howard Hughes Medical Institute and Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nature 429:841-7. 2004
    ..Derlin-1 interacts with US11, a virally encoded ER protein that specifically targets MHC class I heavy chains for export from the ER, as well as with VIMP, a novel membrane protein that recruits the p97 ATPase and its cofactor...
  35. ncbi request reprint Role of p97 AAA-ATPase in the retrotranslocation of the cholera toxin A1 chain, a non-ubiquitinated substrate
    Michael Kothe
    GI Cell Biology, Children s Hospital Boston, the Harvard Digestive Diseases Center, Harvard Medical School, Massachusetts 02115, USA
    J Biol Chem 280:28127-32. 2005
    ..These results suggest that p97 does not provide the primary driving force for extracting the A1 chain from the endoplasmic reticulum, a finding that is consistent with a requirement for polyubiquitination in p97 function...
  36. pmc Structure and function of the yeast U-box-containing ubiquitin ligase Ufd2p
    Daqi Tu
    Department of Molecular and Cellular Physiology, Stanford University and Howard Hughes Medical Institute, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 104:15599-606. 2007
    ..Thus, Ufd2p can function as a bona fide E3 ubiquitin ligase to promote ubiquitin chain elongation on a substrate...
  37. ncbi request reprint The viral E3 ubiquitin ligase mK3 uses the Derlin/p97 endoplasmic reticulum-associated degradation pathway to mediate down-regulation of major histocompatibility complex class I proteins
    Xiaoli Wang
    Department of Pathology and Immunology, Washington University School of Medicine, St Louis, Missouri 63110, USA
    J Biol Chem 281:8636-44. 2006
    ..The mechanistic implications of these findings are discussed...