Mark Hochstrasser

Zattas D, Berk JM, Kreft SG, Hochstrasser M: A Conserved C-terminal Element in the Yeast Doa10 and Human MARCH6 Ubiquitin Ligases Required for Selective Substrate Degradation. J Biol Chem. 2016 Jun 3; 2016 Apr 11. PMID: 27068744

Hu R, Hochstrasser M: Recent progress in ubiquitin and ubiquitin-like protein (Ubl) signaling. Cell Res. 2016 Apr. PMID: 27033807

Ronau JA, Beckmann JF, Hochstrasser M: Substrate specificity of the ubiquitin and Ubl proteases. Cell Res. 2016 Apr; 2016 Mar 25. PMID: 27012468

Gillies J, Hickey CM, Su D, Wu Z, Peng J, Hochstrasser M: SUMO Pathway Modulation of Regulatory Protein Binding at the Ribosomal DNA Locus in Saccharomyces cerevisiae. Genetics. 2016 Apr; 2016 Feb 2. PMID: 26837752

Padmanabhan A, Vuong SA, Hochstrasser M: Assembly of an Evolutionarily Conserved Alternative Proteasome Isoform in Human Cells. Cell Rep. 2016 Mar 29; 2016 Mar 22. PMID: 26997268

Huber EM, Heinemeyer W, Li X, Arendt CS, Hochstrasser M, Groll M: A unified mechanism for proteolysis and autocatalytic activation in the 20S proteasome. Nat Commun. 2016 Mar 11; 2016 Mar 11. PMID: 26964885

Li X, Li Y, Arendt CS, Hochstrasser M: Distinct Elements in the Proteasomal β5 Subunit Propeptide Required for Autocatalytic Processing and Proteasome Assembly. J Biol Chem. 2016 Jan 22; 2015 Dec 1. PMID: 26627836

Tomko RJ Jr, Taylor DW, Chen ZA, Wang HW, Rappsilber J, Hochstrasser M: A Single α Helix Drives Extensive Remodeling of the Proteasome Lid and Completion of Regulatory Particle Assembly. Cell. 2015 Oct 8. PMID: 26451487

Hickey CM, Hochstrasser M: STUbL-mediated degradation of the transcription factor MATα2 requires degradation elements that coincide with corepressor binding sites. Mol Biol Cell. 2015 Oct 1; 2015 Aug 5. PMID: 26246605

Li Y, Tomko RJ Jr, Hochstrasser M: Proteasomes: Isolation and Activity Assays. Curr Protoc Cell Biol. 2015 Jun 1; 2015 Jun 1. PMID: 26061243

Zattas D, Hochstrasser M: Ubiquitin-dependent protein degradation at the yeast endoplasmic reticulum and nuclear envelope. Crit Rev Biochem Mol Biol. 2015 Jan-Feb; 2014 Sep 18. PMID: 25231236

Kang H, Bradley MJ, Cao W, Zhou K, Grintsevich EE, Michelot A, Sindelar CV, Hochstrasser M, De La Cruz EM: Site-specific cation release drives actin filament severing by vertebrate cofilin. Proc Natl Acad Sci U S A. 2014 Dec 16; 2014 Dec 2. PMID: 25468977

Tomko RJ Jr, Hochstrasser M: The intrinsically disordered Sem1 protein functions as a molecular tether during proteasome lid biogenesis. Mol Cell. 2014 Feb 6; 2014 Jan 9. PMID: 24412063

Kunjappu MJ, Hochstrasser M: Assembly of the 20S proteasome. Biochim Biophys Acta. 2014 Jan; 2013 Mar 16. PMID: 23507199

Sá-Moura B, Funakoshi M, Tomko RJ Jr, Dohmen RJ, Wu Z, Peng J, Hochstrasser M: A conserved protein with AN1 zinc finger and ubiquitin-like domains modulates Cdc48 (p97) function in the ubiquitin-proteasome pathway. J Biol Chem. 2013 Nov 22; 2013 Oct 11. PMID: 24121501

Zattas D, Adle DJ, Rubenstein EM, Hochstrasser M: N-terminal acetylation of the yeast Derlin Der1 is essential for Hrd1 ubiquitin-ligase activity toward luminal ER substrates. Mol Biol Cell. 2013 Apr; 2013 Jan 30. PMID: 23363603

Tomko RJ Jr, Hochstrasser M: Molecular architecture and assembly of the eukaryotic proteasome. Annu Rev Biochem. 2013; 2013 Mar 13. PMID: 23495936

Hickey CM, Wilson NR, Hochstrasser M: Function and regulation of SUMO proteases. Nat Rev Mol Cell Biol. 2012 Dec. PMID: 23175280

Rubenstein EM, Kreft SG, Greenblatt W, Swanson R, Hochstrasser M: Aberrant substrate engagement of the ER translocon triggers degradation by the Hrd1 ubiquitin ligase. J Cell Biol. 2012 Jun 11. PMID: 22689655

Gillies J, Hochstrasser M: A new class of SUMO proteases. EMBO Rep. 2012 Apr 2; 2012 Apr 2. PMID: 22422001

Hochstrasser M, Funakoshi M: Disulfide engineering to map subunit interactions in the proteasome and other macromolecular complexes. Methods Mol Biol. 2012. PMID: 22350897

Felberbaum R, Wilson NR, Cheng D, Peng J, Hochstrasser M: Desumoylation of the endoplasmic reticulum membrane VAP family protein Scs2 by Ulp1 and SUMO regulation of the inositol synthesis pathway. Mol Cell Biol. 2012 Jan; 2011 Oct 24. PMID: 22025676

Tomko RJ Jr, Hochstrasser M: Incorporation of the Rpn12 subunit couples completion of proteasome regulatory particle lid assembly to lid-base joining. Mol Cell. 2011 Dec 23. PMID: 22195964

Kreft SG, Hochstrasser M: An unusual transmembrane helix in the endoplasmic reticulum ubiquitin ligase Doa10 modulates degradation of its cognate E2 enzyme. J Biol Chem. 2011 Jun 10; 2011 Apr 5. PMID: 21467040

Tomko RJ Jr, Hochstrasser M: Order of the proteasomal ATPases and eukaryotic proteasome assembly. Cell Biochem Biophys. 2011 Jun. PMID: 21461838

Kusmierczyk AR, Kunjappu MJ, Kim RY, Hochstrasser M: A conserved 20S proteasome assembly factor requires a C-terminal HbYX motif for proteasomal precursor binding. Nat Struct Mol Biol. 2011 May; 2011 Apr 17. PMID: 21499243

Rubenstein EM, Hochstrasser M: Redundancy and variation in the ubiquitin-mediated proteolytic targeting of a transcription factor. Cell Cycle. 2010 Nov 1; 2010 Nov 22. PMID: 20980825

Su D, Hochstrasser M: A WLM protein with SUMO-directed protease activity. Mol Cell Biol. 2010 Aug; 2010 Jun 21. PMID: 20566698

Tomko RJ Jr, Funakoshi M, Schneider K, Wang J, Hochstrasser M: Heterohexameric ring arrangement of the eukaryotic proteasomal ATPases: implications for proteasome structure and assembly. Mol Cell. 2010 May 14. PMID: 20471945

Xie Y, Rubenstein EM, Matt T, Hochstrasser M: SUMO-independent in vivo activity of a SUMO-targeted ubiquitin ligase toward a short-lived transcription factor. Genes Dev. 2010 May; 2010 Apr 13. PMID: 20388728

Funakoshi M, Tomko RJ Jr, Kobayashi H, Hochstrasser M: Multiple assembly chaperones govern biogenesis of the proteasome regulatory particle base. Cell. 2009 May 29; 2009 May 14. PMID: 19446322

Kroetz MB, Su D, Hochstrasser M: Essential role of nuclear localization for yeast Ulp2 SUMO protease function. Mol Biol Cell. 2009 Apr; 2009 Feb 18. PMID: 19225149

Hochstrasser M: Origin and function of ubiquitin-like proteins. Nature. 2009 Mar 26. PMID: 19325621

Funakoshi M, Hochstrasser M: Small epitope-linker modules for PCR-based C-terminal tagging in Saccharomyces cerevisiae. Yeast. 2009 Mar. PMID: 19243080

Kroetz MB, Hochstrasser M: Identification of SUMO-interacting proteins by yeast two-hybrid analysis. Methods Mol Biol. 2009. PMID: 19107413

Wang L, Dong H, Soroka CJ, Wei N, Boyer JL, Hochstrasser M: Degradation of the bile salt export pump at endoplasmic reticulum in progressive familial intrahepatic cholestasis type II. Hepatology. 2008 Nov. PMID: 18798335

Kusmierczyk AR, Hochstrasser M: Some assembly required: dedicated chaperones in eukaryotic proteasome biogenesis. Biol Chem. 2008 Sep. PMID: 18713001

Kusmierczyk AR, Kunjappu MJ, Funakoshi M, Hochstrasser M: A multimeric assembly factor controls the formation of alternative 20S proteasomes. Nat Struct Mol Biol. 2008 Mar; 2008 Feb 17. PMID: 18278055

Felberbaum R, Hochstrasser M: Ulp2 and the DNA damage response: desumoylation enables safe passage through mitosis. Cell Cycle. 2008 Jan 1; 2007 Oct 28. PMID: 18196960

Xie Y, Kerscher O, Kroetz MB, McConchie HF, Sung P, Hochstrasser M: The yeast Hex3.Slx8 heterodimer is a ubiquitin ligase stimulated by substrate sumoylation. J Biol Chem. 2007 Nov 23; 2007 Sep 11. PMID: 17848550

Schwartz DC, Felberbaum R, Hochstrasser M: The Ulp2 SUMO protease is required for cell division following termination of the DNA damage checkpoint. Mol Cell Biol. 2007 Oct; 2007 Jul 30. PMID: 17664284

Lewis A, Felberbaum R, Hochstrasser M: A nuclear envelope protein linking nuclear pore basket assembly, SUMO protease regulation, and mRNA surveillance. J Cell Biol. 2007 Aug 27. PMID: 17724121

Hochstrasser M: Ubiquitin ligation without a ligase. Dev Cell. 2007 Jul. PMID: 17609103

Li X, Kusmierczyk AR, Wong P, Emili A, Hochstrasser M: beta-Subunit appendages promote 20S proteasome assembly by overcoming an Ump1-dependent checkpoint. EMBO J. 2007 May 2; 2007 Apr 12. PMID: 17431397

Ravid T, Hochstrasser M: Autoregulation of an E2 enzyme by ubiquitin-chain assembly on its catalytic residue. Nat Cell Biol. 2007 Apr; 2007 Feb 21. PMID: 17310239

Deng M, Hochstrasser M: Spatially regulated ubiquitin ligation by an ER/nuclear membrane ligase. Nature. 2006 Oct 19. PMID: 17051211

Arteaga MF, Wang L, Ravid T, Hochstrasser M, Canessa CM: An amphipathic helix targets serum and glucocorticoid-induced kinase 1 to the endoplasmic reticulum-associated ubiquitin-conjugation machinery. Proc Natl Acad Sci U S A. 2006 Jul 25; 2006 Jul 17. PMID: 16847254

Hochstrasser M, Cohen R: Cecile M. Pickart 1954-2006. Nat Cell Biol. 2006 Jun. PMID: 16738698

Kreft SG, Wang L, Hochstrasser M: Membrane topology of the yeast endoplasmic reticulum-localized ubiquitin ligase Doa10 and comparison with its human ortholog TEB4 (MARCH-VI). J Biol Chem. 2006 Feb 24; 2005 Dec 22. PMID: 16373356

Ravid T, Kreft SG, Hochstrasser M: Membrane and soluble substrates of the Doa10 ubiquitin ligase are degraded by distinct pathways. EMBO J. 2006 Feb 8; 2006 Jan 26. PMID: 16437165

Hochstrasser M: Lingering mysteries of ubiquitin-chain assembly. Cell. 2006 Jan 13. PMID: 16413479

Kerscher O, Felberbaum R, Hochstrasser M: Modification of proteins by ubiquitin and ubiquitin-like proteins. Annu Rev Cell Dev Biol. 2006. PMID: 16753028

Hannich JT, Lewis A, Kroetz MB, Li SJ, Heide H, Emili A, Hochstrasser M: Defining the SUMO-modified proteome by multiple approaches in Saccharomyces cerevisiae. J Biol Chem. 2005 Feb 11; 2004 Dec 6. PMID: 15590687

Amerik AY, Hochstrasser M: Mechanism and function of deubiquitinating enzymes. Biochim Biophys Acta. 2004 Nov 29. PMID: 15571815

Ravid T, Hochstrasser M: NF-kappaB signaling: flipping the switch with polyubiquitin chains. Curr Biol. 2004 Oct 26. PMID: 15498483

Velichutina I, Connerly PL, Arendt CS, Li X, Hochstrasser M: Plasticity in eucaryotic 20S proteasome ring assembly revealed by a subunit deletion in yeast. EMBO J. 2004 Feb 11; 2004 Jan 22. PMID: 14739934

Laney JD, Hochstrasser M: Ubiquitin-dependent degradation of the yeast Mat(alpha)2 repressor enables a switch in developmental state. Genes Dev. 2003 Sep 15; 2003 Sep 2. PMID: 12952895

Schwartz DC, Hochstrasser M: A superfamily of protein tags: ubiquitin, SUMO and related modifiers. Trends Biochem Sci. 2003 Jun. PMID: 12826404

Li SJ, Hochstrasser M: The Ulp1 SUMO isopeptidase: distinct domains required for viability, nuclear envelope localization, and substrate specificity. J Cell Biol. 2003 Mar 31; 2003 Mar 24. PMID: 12654900

Laney JD, Hochstrasser M: Analysis of protein ubiquitination. Curr Protoc Protein Sci. 2002 Nov. PMID: 18429222

Hochstrasser M: Molecular biology. New proteases in a ubiquitin stew. Science. 2002 Oct 18. PMID: 12386321

Hochstrasser M: New structural clues to substrate specificity in the "ubiquitin system". Mol Cell. 2002 Mar. PMID: 11931752

Laney JD, Hochstrasser M: Assaying protein ubiquitination in Saccharomyces cerevisiae. Methods Enzymol. 2002. PMID: 12073348

Lab Member Papers

Jason Berk, Select

Zattas D, Berk JM, Kreft SG, Hochstrasser M: A Conserved C-terminal Element in the Yeast Doa10 and Human MARCH6 Ubiquitin Ligases Required for Selective Substrate Degradation. J Biol Chem. 2016 Jun 3; 2016 Apr 11. PMID: 27068744

Berk JM, Wilson KL: Simple Separation of Functionally Distinct Populations of Lamin-Binding Proteins. Methods Enzymol. 2016; 2015 Oct 27. PMID: 26778555

Berk JM, Simon DN, Jenkins-Houk CR, Westerbeck JW, Grønning-Wang LM, Carlson CR, Wilson KL: The molecular basis of emerin-emerin and emerin-BAF interactions. J Cell Sci. 2014 Sep 15; 2014 Jul 22. PMID: 25052089

Berk JM, Maitra S, Dawdy AW, Shabanowitz J, Hunt DF, Wilson KL: O-Linked β-N-acetylglucosamine (O-GlcNAc) regulates emerin binding to barrier to autointegration factor (BAF) in a chromatin- and lamin B-enriched "niche". J Biol Chem. 2013 Oct 18; 2013 Sep 6. PMID: 24014020

Berk JM, Tifft KE, Wilson KL: The nuclear envelope LEM-domain protein emerin. Nucleus. 2013 Jul-Aug; 2013 Jul 17. PMID: 23873439

Wilson KL, Berk JM: The nuclear envelope at a glance. J Cell Sci. 2010 Jun 15. PMID: 20519579

Effler JC, Kee YS, Berk JM, Tran MN, Iglesias PA, Robinson DN: Mitosis-specific mechanosensing and contractile-protein redistribution control cell shape. Curr Biol. 2006 Oct 10. PMID: 17027494

Lauren Budenholzer, Select

Bisignano P, Burford NT, Shang Y, Marlow B, Livingston KE, Fenton AM, Rockwell K, Budenholzer L, Traynor JR, Gerritz SW, Alt A, Filizola M: Ligand-Based Discovery of a New Scaffold for Allosteric Modulation of the μ-Opioid Receptor. J Chem Inf Model. 2015 Sep 28; 2015 Sep 15. PMID: 26347990

Burford NT, Livingston KE, Canals M, Ryan MR, Budenholzer LM, Han Y, Shang Y, Herbst JJ, O'Connell J, Banks M, Zhang L, Filizola M, Bassoni DL, Wehrman TS, Christopoulos A, Traynor JR, Gerritz SW, Alt A: Discovery, synthesis, and molecular pharmacology of selective positive allosteric modulators of the δ-opioid receptor. J Med Chem. 2015 May 28; 2015 May 7. PMID: 25901762

Patananan AN, Budenholzer LM, Pedraza ME, Torres ER, Adler LN, Clarke SG: The invertebrate Caenorhabditis elegans biosynthesizes ascorbate. Arch Biochem Biophys. 2015 Mar 1; 2015 Feb 7. PMID: 25668719

Patananan AN, Budenholzer LM, Eskin A, Torres ER, Clarke SG: Ethanol-induced differential gene expression and acetyl-CoA metabolism in a longevity model of the nematode Caenorhabditis elegans. Exp Gerontol. 2015 Jan; 2014 Nov 18. PMID: 25449858

Judith Ronau, Select

Ronau JA, Beckmann JF, Hochstrasser M: Substrate specificity of the ubiquitin and Ubl proteases. Cell Res. 2016 Apr; 2016 Mar 25. PMID: 27012468

Bueno AN, Shrestha RK, Ronau JA, Babar A, Sheedlo MJ, Fuchs JE, Paul LN, Das C: Dynamics of an Active-Site Flap Contributes to Catalysis in a JAMM Family Metallo Deubiquitinase. Biochemistry. 2015 Oct 6. PMID: 26368668

Ronau JA, Paul LN, Fuchs JE, Liedl KR, Abu-Omar MM, Das C: A conserved acidic residue in phenylalanine hydroxylase contributes to cofactor affinity and catalysis. Biochemistry. 2014 Nov 4; 2014 Oct 23. PMID: 25295853

Shrestha RK, Ronau JA, Davies CW, Guenette RG, Strieter ER, Paul LN, Das C: Insights into the mechanism of deubiquitination by JAMM deubiquitinases from cocrystal structures of the enzyme with the substrate and product. Biochemistry. 2014 May 20; 2014 May 9. PMID: 24787148

Ronau JA, Paul LN, Fuchs JE, Corn IR, Wagner KT, Liedl KR, Abu-Omar MM, Das C: An additional substrate binding site in a bacterial phenylalanine hydroxylase. Eur Biophys J. 2013 Sep; 2013 Jul 17. PMID: 23860686

Madden JT, Toth SJ, Dettmar CM, Newman JA, Oglesbee RA, Hedderich HG, Everly RM, Becker M, Ronau JA, Buchanan SK, Cherezov V, Morrow ME, Xu S, Ferguson D, Makarov O, Das C, Fischetti R, Simpson GJ: Integrated nonlinear optical imaging microscope for on-axis crystal detection and centering at a synchrotron beamline. J Synchrotron Radiat. 2013 Jul; 2013 May 3. PMID: 23765294

Morrow ME, Kim MI, Ronau JA, Sheedlo MJ, White RR, Chaney J, Paul LN, Lill MA, Artavanis-Tsakonas K, Das C: Stabilization of an unusual salt bridge in ubiquitin by the extra C-terminal domain of the proteasome-associated deubiquitinase UCH37 as a mechanism of its exo specificity. Biochemistry. 2013 May 21; 2013 May 9. PMID: 23617878

DeWalt EL, Begue VJ, Ronau JA, Sullivan SZ, Das C, Simpson GJ: Polarization-resolved second-harmonic generation microscopy as a method to visualize protein-crystal domains. Acta Crystallogr D Biol Crystallogr. 2013 Jan; 2012 Dec 20. PMID: 23275165

Loaiza A, Ronau JA, Ribbe A, Stanciu L, Burgner JW 2nd, Paul LN, Abu-Omar MM: Folding dynamics of phenylalanine hydroxylase depends on the enzyme's metallation state: the native metal, iron, protects against aggregate intermediates. Eur Biophys J. 2011 Aug; 2011 Jun 7. PMID: 21647679

Hong Yeoul Ryu, Select

Ryu HY, Ahn S: Yeast histone H3 lysine 4 demethylase Jhd2 regulates mitotic rDNA condensation. BMC Biol. 2014 Sep 24; 2014 Sep 24. PMID: 25248920

Ryu HY, Rhie BH, Ahn SH: Loss of the Set2 histone methyltransferase increases cellular lifespan in yeast cells. Biochem Biophys Res Commun. 2014 Mar 28; 2014 Mar 6. PMID: 24607280

Duan R, Rhie BH, Ryu HY, Ahn SH: The RNA polymerase II Rpb4/7 subcomplex regulates cellular lifespan through an mRNA decay process. Biochem Biophys Res Commun. 2013 Nov 8. PMID: 24358479

Duan R, Rhie BH, Ryu HY, Ahn SH: The RNA polymerase II Rpb4/7 subcomplex regulates cellular lifespan through an mRNA decay process. Biochem Biophys Res Commun. 2013 Oct 24; 2013 Oct 24. PMID: 24513203

Rhie BH, Song YH, Ryu HY, Ahn SH: Cellular aging is associated with increased ubiquitylation of histone H2B in yeast telomeric heterochromatin. Biochem Biophys Res Commun. 2013 Oct 4; 2013 Sep 8. PMID: 24025678