Yihong Ye, Ph.D.

Section Chief: Protein Stability and Quality Control Section, Laboratory of Molecular Biology

Scientific Focus Areas: Cell Biology, Chemical Biology, Molecular Biology and Biochemistry, Neuroscience, Genetics and Genomics

yihong.ye@nih.gov Add to Contacts

Publications

A selection of recent and significant publications can be viewed below.

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Unconventional secretion of misfolded proteins promotes adaptation to proteasome dysfunction in mammalian cells.

Lee JG, Takahama S, Zhang G, Tomarev SI, Ye Y.

Nat Cell Biol (2016 Jul) 18:765-76. Abstract/Full Text

UFMylation of RPL26 links translocation-associated quality control to endoplasmic reticulum protein homeostasis.

Wang L, Xu Y, Rogers H, Saidi L, Noguchi CT, Li H, Yewdell JW, Guydosh NR, Ye Y.

Cell Res (2020 Jan) 30:5-20. Abstract/Full Text

Filamentous recombinant human Tau activates primary astrocytes via an integrin receptor complex.

Wang P, Ye Y.

Nat Commun (2021 Jan 4) 12:95. Abstract/Full Text

SAYSD1 senses UFMylated ribosome to safeguard co-translational protein translocation at the endoplasmic reticulum.

Wang L, Xu Y, Yun S, Yuan Q, Satpute-Krishnan P, Ye Y.

Cell Rep (2023 Jan 31) 42:112028. Abstract/Full Text

Mono-UFMylation promotes misfolding-associated secretion of α-synuclein.

Wang L, Xu Y, Fukushige T, Saidi L, Wang X, Yu C, Lee JG, Krause M, Huang L, Ye Y.

Sci Adv (2024 Mar 15) 10:eadk2542. Abstract/Full Text

Additional Publications

Host heparan sulfate promotes ACE2 super-cluster assembly and enhances SARS-CoV-2-associated syncytium formation.

Zhang Q, Tang W, Stancanelli E, Jung E, Syed Z, Pagadala V, Saidi L, Chen CZ, Gao P, Xu M, Pavlinov I, Li B, Huang W, Chen L, Liu J, Xie H, Zheng W, Ye Y.

Nat Commun (2023 Sep 18) 14:5777. Abstract/Full Text

Graph Convolutional Network-Based Screening Strategy for Rapid Identification of SARS-CoV-2 Cell-Entry Inhibitors.

Gao P, Xu M, Zhang Q, Chen CZ, Guo H, Ye Y, Zheng W, Shen M.

J Chem Inf Model (2022 Apr 25) 62:1988-1997. Abstract/Full Text

Mitoxantrone modulates a heparan sulfate-spike complex to inhibit SARS-CoV-2 infection.

Zhang Q, Radvak P, Lee J, Xu Y, Cao-Dao V, Xu M, Zheng W, Chen CZ, Xie H, Ye Y.

Sci Rep (2022 Apr 15) 12:6294. Abstract/Full Text

Clearing Traffic Jams During Protein Translocation Across Membranes.

Wang L, Ye Y.

Front Cell Dev Biol (2020) 8:610689. Abstract/Full Text

Heparan sulfate assists SARS-CoV-2 in cell entry and can be targeted by approved drugs in vitro.

Zhang Q, Chen CZ, Swaroop M, Xu M, Wang L, Lee J, Wang AQ, Pradhan M, Hagen N, Chen L, Shen M, Luo Z, Xu X, Xu Y, Huang W, Zheng W, Ye Y.

Cell Discov (2020 Nov 4) 6:80. Abstract/Full Text

A spiral path to unfolding.

Ye Y, Xia D.

Nat Struct Mol Biol (2019 Sep) 26:763-765. Abstract/Full Text

AAGAB Controls AP2 Adaptor Assembly in Clathrin-Mediated Endocytosis.

Gulbranson DR, Crisman L, Lee M, Ouyang Y, Menasche BL, Demmitt BA, Wan C, Nomura T, Ye Y, Yu H, Shen J.

Dev Cell (2019 Aug 19) 50:436-446.e5. Abstract/Full Text

Discovery of Irreversible p97 Inhibitors.

Ding R, Zhang T, Wilson DJ, Xie J, Williams J, Xu Y, Ye Y, Chen L.

J Med Chem (2019 Mar 14) 62:2814-2829. Abstract/Full Text

To Build by Destruction.

Wang L, Ye Y.

Mol Cell (2018 Nov 15) 72:605-607. Abstract/Full Text

The Roles of Endo-Lysosomes in Unconventional Protein Secretion.

Lee J, Ye Y.

Cells (2018 Nov 3) 7. Abstract/Full Text

Regulation of protein homeostasis by unconventional protein secretion in mammalian cells.

Ye Y.

Semin Cell Dev Biol (2018 Nov) 83:29-35. Abstract/Full Text

Secretion of misfolded cytosolic proteins from mammalian cells is independent of chaperone-mediated autophagy.

Lee J, Xu Y, Zhang T, Cui L, Saidi L, Ye Y.

J Biol Chem (2018 Sep 14) 293:14359-14370. Abstract/Full Text

Proteomic characterization of endogenous substrates of mammalian ubiquitin ligase Hrd1.

Ye Y, Baek SH, Ye Y, Zhang T.

Cell Biosci (2018) 8:46. Abstract/Full Text

Nonenzymatic acetylation of ubiquitin Lys side chains is modulated by their neighboring residues.

Lee SY, Choi YS, Kim EH, Cheong HK, Lee YJ, Lee JG, Ye Y, Ryu KS.

FEBS J (2018 Apr) 285:1277-1289. Abstract/Full Text

DNAJC5 facilitates USP19-dependent unconventional secretion of misfolded cytosolic proteins.

Xu Y, Cui L, Dibello A, Wang L, Lee J, Saidi L, Lee JG, Ye Y.

Cell Discov (2018) 4:11. Abstract/Full Text

The proteasome-interacting Ecm29 protein disassembles the 26S proteasome in response to oxidative stress.

Wang X, Chemmama IE, Yu C, Huszagh A, Xu Y, Viner R, Block SA, Cimermancic P, Rychnovsky SD, Ye Y, Sali A, Huang L.

J Biol Chem (2017 Sep 29) 292:16310-16320. Abstract/Full Text

A Mighty "Protein Extractor" of the Cell: Structure and Function of the p97/CDC48 ATPase.

Ye Y, Tang WK, Zhang T, Xia D.

Front Mol Biosci (2017) 4:39. Abstract/Full Text

Ufd2p synthesizes branched ubiquitin chains to promote the degradation of substrates modified with atypical chains.

Liu C, Liu W, Ye Y, Li W.

Nat Commun (2017 Feb 6) 8:14274. Abstract/Full Text

The HECT domain ubiquitin ligase HUWE1 targets unassembled soluble proteins for degradation.

Xu Y, Anderson DE, Ye Y.

Cell Discov (2016) 2:16040. Abstract/Full Text

Lunapark Is a Component of a Ubiquitin Ligase Complex Localized to the Endoplasmic Reticulum Three-way Junctions.

Zhao Y, Zhang T, Huo H, Ye Y, Liu Y.

J Biol Chem (2016 Aug 26) 291:18252-62. Abstract/Full Text

Doa1 is a MAD adaptor for Cdc48.

Zhang T, Ye Y.

J Cell Biol (2016 Apr 11) 213:7-9. Abstract/Full Text

gp78 functions downstream of Hrd1 to promote degradation of misfolded proteins of the endoplasmic reticulum.

Zhang T, Xu Y, Liu Y, Ye Y.

Mol Biol Cell (2015 Dec 1) 26:4438-50. Abstract/Full Text

In Search of a Cure for Proteostasis-Addicted Cancer: A AAA Target Revealed.

Xia D, Ye Y.

Cancer Cell (2015 Nov 9) 28:550-552. Abstract/Full Text

Bag6 complex contains a minimal tail-anchor-targeting module and a mock BAG domain.

Mock JY, Chartron JW, Zaslaver M, Xu Y, Ye Y, Clemons WM Jr.

Proc Natl Acad Sci U S A (2015 Jan 6) 112:106-11. Abstract/Full Text

Cleaning up in the endoplasmic reticulum: ubiquitin in charge.

Christianson JC, Ye Y.

Nat Struct Mol Biol (2014 Apr) 21:325-35. Abstract/Full Text

Role of HERP and a HERP-related protein in HRD1-dependent protein degradation at the endoplasmic reticulum.

Huang CH, Chu YR, Ye Y, Chen X.

J Biol Chem (2014 Feb 14) 289:4444-54. Abstract/Full Text

Dimeric Ube2g2 simultaneously engages donor and acceptor ubiquitins to form Lys48-linked ubiquitin chains.

Liu W, Shang Y, Zeng Y, Liu C, Li Y, Zhai L, Wang P, Lou J, Xu P, Ye Y, Li W.

EMBO J (2014 Jan 7) 33:46-61. Abstract/Full Text

USP13 antagonizes gp78 to maintain functionality of a chaperone in ER-associated degradation.

Liu Y, Soetandyo N, Lee JG, Liu L, Xu Y, Clemons WM Jr, Ye Y.

Elife (2014) 3:e01369. Abstract/Full Text

A ubiquitin-like domain recruits an oligomeric chaperone to a retrotranslocation complex in endoplasmic reticulum-associated degradation.

Xu Y, Liu Y, Lee JG, Ye Y.

J Biol Chem (2013 Jun 21) 288:18068-76. Abstract/Full Text

Bag6/Bat3/Scythe: a novel chaperone activity with diverse regulatory functions in protein biogenesis and degradation.

Lee JG, Ye Y.

Bioessays (2013 Apr) 35:377-85. Abstract/Full Text

Roles of p97-associated deubiquitinases in protein quality control at the endoplasmic reticulum.

Liu Y, Ye Y.

Curr Protein Pept Sci (2012 Aug) 13:436-46. Abstract/Full Text

TorsinA participates in endoplasmic reticulum-associated degradation.

Nery FC, Armata IA, Farley JE, Cho JA, Yaqub U, Chen P, da Hora CC, Wang Q, Tagaya M, Klein C, Tannous B, Caldwell KA, Caldwell GA, Lencer WI, Ye Y, Breakefield XO.

Nat Commun (2011 Jul 12) 2:393. Abstract/Full Text

Proteostasis regulation at the endoplasmic reticulum: a new perturbation site for targeted cancer therapy.

Liu Y, Ye Y.

Cell Res (2011 Jun) 21:867-83. Abstract/Full Text

The ERAD inhibitor Eeyarestatin I is a bifunctional compound with a membrane-binding domain and a p97/VCP inhibitory group.

Wang Q, Shinkre BA, Lee JG, Weniger MA, Liu Y, Chen W, Wiestner A, Trenkle WC, Ye Y.

PLoS One (2010 Nov 12) 5:e15479. Abstract/Full Text

The p97 ATPase dislocates MHC class I heavy chain in US2-expressing cells via a Ufd1-Npl4-independent mechanism.

Soetandyo N, Ye Y.

J Biol Chem (2010 Oct 15) 285:32352-9. Abstract/Full Text

Multilayered mechanism of CD4 downregulation by HIV-1 Vpu involving distinct ER retention and ERAD targeting steps.

Magadán JG, Pérez-Victoria FJ, Sougrat R, Ye Y, Strebel K, Bonifacino JS.

PLoS Pathog (2010 Apr 29) 6:e1000869. Abstract/Full Text

Role of intramembrane charged residues in the quality control of unassembled T-cell receptor alpha-chains at the endoplasmic reticulum.

Soetandyo N, Wang Q, Ye Y, Li L.

J Cell Sci (2010 Apr 1) 123:1031-8. Abstract/Full Text

Building ubiquitin chains: E2 enzymes at work.

Ye Y, Rape M.

Nat Rev Mol Cell Biol (2009 Nov) 10:755-64. Abstract/Full Text

Ubiquilin and p97/VCP bind erasin, forming a complex involved in ERAD.

Lim PJ, Danner R, Liang J, Doong H, Harman C, Srinivasan D, Rothenberg C, Wang H, Ye Y, Fang S, Monteiro MJ.

J Cell Biol (2009 Oct 19) 187:201-17. Abstract/Full Text

Mechanistic insights into active site-associated polyubiquitination by the ubiquitin-conjugating enzyme Ube2g2.

Li W, Tu D, Li L, Wollert T, Ghirlando R, Brunger AT, Ye Y.

Proc Natl Acad Sci U S A (2009 Mar 10) 106:3722-7. Abstract/Full Text

ERAD inhibitors integrate ER stress with an epigenetic mechanism to activate BH3-only protein NOXA in cancer cells.

Wang Q, Mora-Jensen H, Weniger MA, Perez-Galan P, Wolford C, Hai T, Ron D, Chen W, Trenkle W, Wiestner A, Ye Y.

Proc Natl Acad Sci U S A (2009 Feb 17) 106:2200-5. Abstract/Full Text

Inhibition of p97-dependent protein degradation by Eeyarestatin I.

Wang Q, Li L, Ye Y.

J Biol Chem (2008 Mar 21) 283:7445-54. Abstract/Full Text

Structure and function of the yeast U-box-containing ubiquitin ligase Ufd2p.

Tu D, Li W, Ye Y, Brunger AT.

Proc Natl Acad Sci U S A (2007 Oct 2) 104:15599-606. Abstract/Full Text