Lab Member Papers

Jason Berk, Select

Berk JM, Hochstrasser M: Protein Modification: Bacterial Effectors Rewrite the Rules of Ubiquitylation. Curr Biol. 2016 Jul 11. PMID: 27404243

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