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Product References
Boston Biochem's products have been used successfully in hundreds of UPP-related publications. We have listed our most recent references below to provide our customers with an exceptional resource for product use information. The references are organized to mirror our product divisions for easy location. Products referenced in each article are listed below in red. Please inquire to request archives as we have curated references back to 2003.
E1 Activating
Hebron, M.L. et al. (2012) "Parkin ubiquitinates Tar-DNA binding protein-43 (TDP-43) and promotes its cytosolic accumulation via interaction with histone deacetylase 6 (HDAC6)." J. Biol. Chem.
Inhibitors
Rinetti, G.V. and Schweizer, F. (2010) “Ubiquitination Acutely Regulates Presynaptic Neurotransmitter Release in Mammalian Neurons.” J. Neurosci. 30: 3157 - 3166.
E2 Conjugating
Hebron, M.L. et al. (2012) "Parkin ubiquitinates Tar-DNA binding protein-43 (TDP-43) and promotes its cytosolic accumulation via interaction with histone deacetylase 6 (HDAC6)." J. Biol. Chem.
E3 Ligase
Cotto-Rios, X.M. et al. (2012) "Deubiquitinases as a signaling target of oxidative stress." Cell Rep 2(6): 1475–1484.
Hou, X. et al. (2012) "Mining and characterization of ubiquitin E3 ligases expressed in the mouse testis." BMC Genomics 13: 495.
Burchell, L. et al. (2012) "Small, N-terminal tags activate parkin e3 ubiquitin ligase activity by disrupting its autoinhibited conformation." PLoS ONE 7(4): e34748.
Johnson, B.N. et al. (2012) "The ubiquitin E3 ligase parkin regulates the proapoptotic function of Bax." Proc. Natl. Acad. Sci. U.S.A. 109(16): 6283–6288.
Schneider, S. et al. (2012) "Development of a homogeneous AlphaLISA ubiquitination assay using ubiquitin binding matrices as universal components for the detection of ubiquitinated proteins." Biochimica et biophysica acta. 2012 Apr 5.
Johnson, B.N. et al. (2012) "The ubiquitin E3 ligase parkin regulates the proapoptotic function of Bax." Proc. Natl. Acad. Sci. U.S.A. 109(16): 6283–6288.
Kalia, L.V., et al. (2011) “Ubiquitinylation of [alpha]-Synuclein by Carboxyl Terminus Hsp70-Interacting Protein (CHIP) Is Regulated by Bcl-2-Associated Athanogene 5 (BAG5).” PloS one, 6: e14695. doi:10.1371/journal.pone.0014695 .
Bosanac, I., et al. (2011) “Modulation of K11-Linkage Formation by Variable Loop Residues within UbcH5A.” Journal of Mol. Bio.: doi:10.1016/j.jmb.2011.03.011.* .
Shin, J., et al. (2011) “PARIS (ZNF746) Repression of PGC-1[alpha] Contributes to Neurodegeneration in Parkinson's Disease.” Cell, 144: 689-702.
Jin, X, et al. (2010) “An Atypical E3 Ligase Zinc Finger Protein 91 Stabilizes and Activates NF-B-inducing Kinase via Lys63-linked Ubiquitination.” J. Biol. Chem. 285: 30539-30547.
Kaneko, M., et al. (2010) “Loss of HRD1-Mediated Protein Degradation Causes Amyloid Precursor Protein Accumulation and Amyloid-[beta] Generation.” J. Neurosci., 3924 - 3932.
Chymkowitch, P., et al. (2010) "The phosphorylation of the androgen receptor by TFIIH directs the ubiquitin/proteasome process.” The EMBO Journal 30(3): 468–479.
Fu, W., et al. (2009) "MDM2 Acts Downstream of p53 as an E3 Ligase to Promote FOXO Ubiquitination and Degradation." J. Biol. Chem. 284: 13987-14000.
Siepe, D. and Jentsch, S. (2009) "Prolyl isomerase Pin1 acts as a switch to control the degree of substrate ubiquitylation.” Nature Cell Biology 11(8): 967–972.
Newton, K., et al. (2008) "Ubiquitin Chain Editing Revealed by Polyubiquitin Linkage-Specific Antibodies.” Cell 134(4): 668–678.
Hrecka, K., M. Gierszewska, et al. (2007). "Lentiviral Vpr usurps Cul4-DDB1[VprBP] E3 ubiquitin ligase to modulate cell cycle." PNAS 104(28): 11778-11783.
Fortier, J. M. and J. Kornbluth (2006). "NK Lytic-Associated Molecule, Involved in NK Cytotoxic Function, Is an E3 Ligase." J. Immunol. 176(11): 6454-6463.
Dai, M.-S., D. et al. (2006). "Regulation of the MDM2-p53 Pathway by Ribosomal Protein L11 Involves a Post-ubiquitination Mechanism." J. Biol. Chem. 281(34): 24304-24313.
Burstein E., et al. (2004) "A novel role for XIAP in copper homeostasis through regulation of MURR1." EMBO J. 23(1): 244-254.
Deconjugating
Cotto-Rios, X.M. et al. (2012) "Deubiquitinases as a signaling target of oxidative stress." Cell Rep 2(6): 1475–1484.
Zang, Y. et al. (2012) "Rice UBC13, a candidate housekeeping gene, is required for K63-linked polyubiquitination and tolerance to DNA damage." Rice 5(1): 24.
Reverdy, C. et al. (2012) "Discovery of Specific Inhibitors of Human USP7/HAUSP Deubiquitinating Enzyme." Chem. Biol. 19(4): 467–477.
Issaenko, O.A. and Amerik, A.Y. (2012) "Chalcone-based small-molecule inhibitors attenuate malignant phenotype via targeting deubiquitinating enzymes." Cell cycle (Georgetown, Tex.) 11(9).
Shi, T. et al. (2012) "Identification Of Small Molecule TRABID Deubiquitinase Inhibitors By Computation-Based Virtual Screen." BMC chemical biology 12(1): 4.
Capodagli, G., et al. (2011) “Structural analysis of a viral ovarian tumor domain protease from the Crimean-Congo Hemorrhagic Fever virus in complex with covalently bonded ubiquitin.” Journal of Virology, 85: 3621-3630.
Chen, B.B., et al (2011) “Calmodulin antagonizes a calcium-activated SCF ubiquitin E3 ligase subunit, FBXL2, to regulate surfactant homeostasis.” Molecular and Cellular Biology: doi:10.1128/MCB.00723-10.”
James, T., et al. (2011) “Structural basis for the removal of ubiquitin and interferon-stimulated gene 15 by a viral ovarian tumor domain-containing protease.” PNAS, 108: 2222-2227.
Cao, X., et al. (2011) “WW Domain-containing E3 Ubiquitin Protein Ligase 1 (WWP1) Delays Cellular Senescence by Promoting p27 Kip1 Degradation in Human Diploid Fibroblasts.” J. Biol. Chem. 286: 33447 - 33456.
Cosper, P. and Leinwand, L. (2011) “Cancer Causes Cardiac Atrophy and Autophagy in a Sexually Dimorphic Manner.” Cancer Research, 71: 1710.
Cotto-Rios, X.M., et al. (2011) “APC/CCdh1-dependent proteolysis of USP1 regulates the response to UV-mediated DNA damage.” J. Cell Biol. 194: 177 - 186.
Huang, Z., et al. (2011) “Deubiquitylase HAUSP stabilizes REST and promotes maintenance of neural progenitor cells.” Nature Cell Biology, 13: 142-152.
Lu, J., et al. (2011) “RNF170 Protein, an Endoplasmic Reticulum Membrane Ubiquitin Ligase, Mediates Inositol 1,4,5-Trisphosphate Receptor Ubiquitination and Degradation.” J. Biol. Chem. 286: 24426 - 24433.
Lu, K., et al. (2011) “Pivotal role of the SMURF1 C2 domain in substrate selection.” The Journal of Biological Chemistry: doi:10.1074/jbc.M110.211979.
Stringer, D. and Piper, R. (2011) “A single ubiquitin is sufficient for cargo protein entry into MVBs in the absence of ESCRT Ubiquitination.” JCB, 192: 229-242.
Uchida, S., et al. (2011) “SCF[beta]TrCP mediates stress-activated MAPK-induced Cdc25B degradation.” J. Cell Sci. 124: 2816 - 2825.
Wickliffe, K., et al. (2011) “The Mechanism of Linkage-Specific Ubiquitin Chain Elongation by a Single-Subunit E2.” Cell, 144: 769-781.
Yang, K., et al. (2011) “Regulation of the Fanconi anemia pathway by a SUMO-like delivery network.” Genes & Dev. 25: 1847 - 1858.
Mansfeld, J., et al. (2011) "APC15 drives the turnover of MCC-CDC20 to make the spindle assembly checkpoint responsive to kinetochore attachment.” Nature cell biology 13(10): 1234–1243.
Chenon, M., et al. (2011) "A viral deubiquitylating enzyme targets viral RNA-dependent RNA polymerase and affects viral infectivity.” The EMBO Journal 31(3): 741–753.
Jones, M.J.K., et al. (2011) "Dysregulation of DNA polymerase [kappa] recruitment to replication forks results in genomic instability.” The EMBO Journal. 31(4):908-18.
Artavanis-Tsakonas, K., et al. (2010) “Characterization and Structural Studies of the Plasmodium falciparum Ubiquitin and Nedd8 Hydrolase UCHL3.” J. Biol. Chem. 285: 6857 - 6866.
Clapp, K. M., et al. (2010) “C331A Mutant of Neuronal Nitric-oxide Synthase Is Labilized for Hsp70/CHIP (C Terminus of HSC70-interacting Protein)-dependent Ubiquitination.” J. Biol. Chem. 285: 33642-33651.
Proteasome
Gobec, M. et al. (2012) "Selective Cytotoxicity of Amidinopiperidine Based Compounds Towards Burkitt’s Lymphoma Cells Involves Proteasome Inhibition." PLoS ONE 7(7): e41961.
Zhu, Y. et al. (2012) "Synthesis and inhibitory activities against colon cancer cell growth and proteasome of alkylresorcinols." J. Agric. Food Chem. 60(35): 8624–8631.
Zhao, X. et al. (2012) "Orai1 mediates exacerbated ca(2+) entry in dystrophic skeletal muscle." PLoS ONE 7(11): e49862.
Zhang, Z. et al. (2012 "1,10-Phenanthroline promotes copper complexes into tumor cells and induces apoptosis by inhibiting the proteasome activity." J. Biol. Inorg. Chem. 17(8): 1257–1267.
Xu, X. et al. (2012) "Identification of insulin receptor substrate 1’s degradation determinants for signaling cullin-RING E3 ubiquitin ligase 7-mediated ubiquitination." J. Biol. Chem. 287(48):40758-66.
Blackburn C, Barrett C, Blank JL, et al. "Optimization of a series of dipeptides with a P3 β-neopentyl asparagine residue as non-covalent inhibitors of the chymotrypsin-like activity of human 20S proteasome." Med. Chem. Commun. 2012 May 30;3(6):710–719.
Held, S.A.E. et al. (2012) "Imatinib mesylate and nilotinib affect MHC-class I presentation by modulating the proteasomal processing of antigenic peptides." Cancer Immunol. Immunother.
Lu, B. et al. (2012) "Phosphorylation of Human TFAM in Mitochondria Impairs DNA Binding and Promotes Degradation by the AAA(+) Lon Protease." Mol. Cell.
Henle, A.M. et al. (2012) "Enzymatic Discovery of a HER-2/neu Epitope That Generates Cross-Reactive T Cells." J. Immunol.
Guan, B. et al. (2012) "Functional Analysis of In-frame Indel ARID1A Mutations Reveals New Regulatory Mechanisms of Its Tumor Suppressor Functions." Neoplasia 14(10): 986–993.
Dechavanne, V. et al. (2012) "Purification and separation of the 20S immunoproteasome from the constitutive proteasome and identification of the subunits by LC-MS." Protein Expr. Purif.
Burrows, A.C. et al. (2012) "Skp1-Cul1-F-box Ubiquitin Ligase (SCFβTrCP)-Mediated Destruction of the Ubiquitin-Specific Protease USP37 During G2-phase Promotes Mitotic Entry." J. Biol. Chem.
Foy, R.L. et al. (2012) "Polycystin-1 regulates the stability and ubiquitination of transcription factor Jade-1." Hum. Mol. Genet.
Carvalho, A.N. et al. (2012) "Ubiquitin-Proteasome System Impairment and MPTP-Induced Oxidative Stress in the Brain of C57BL/6 Wild-type and GSTP Knockout Mice." Mol. Neurobiol.
Ismail, A. et al. (2012) "Proteasome Inhibitory Potential of Commonly Consumed Dietary Ingredients." International Journal of Food and Nutrition Science 1(4): 27–31.
Lansdell, T.A. et al. (2012) "Non-competitive modulation of the proteasome by imidazoline scaffolds overcome bortezomib resistant and delay MM tumor growth in vivo." ACS Chem. Biol.
Blount, J.R. et al. (2012) "Ubiquitin-Specific Protease 25 Functions in Endoplasmic Reticulum-Associated Degradation." PLoS ONE 7(5): e36542.
Chollangi, S. et al. (2012) "The hemerythrin-like domain within F-box and leucine-rich repeat protein 5 communicates cellular iron and oxygen availability by distinct mechanisms." The Journal of biological chemistry. 2012 May 30;
Zhang, Y. et al. (2012) "Regulation of cell cycle progression by forkhead transcription factor FOXO3 through its binding partner DNA replication factor Cdt1." Proc. Natl. Acad. Sci. U.S.A. 109(15): 5717–5722.
Inhibitor
Zhang, S. et al. (2012) "GST:Identification of RNF8 as a ubiquitin ligase involved in targeting the p12 subunit of DNA polymerase δ for degradation in response to DNA damage." J. Biol. Chem.
Frisan, T. et al. (2012) "Ubiquitin C-terminal hydrolase-L1 interacts with adhesion complexes and promotes cell migration, survival, and anchorage independent growth." FASEB J.
Henle, A.M. et al. (2012) "Enzymatic Discovery of a HER-2/neu Epitope That Generates Cross-Reactive T Cells." J. Immunol.
Guan, B. et al. (2012) "Functional Analysis of In-frame Indel ARID1A Mutations Reveals New Regulatory Mechanisms of Its Tumor Suppressor Functions." Neoplasia 14(10): 986–993.
Cosper, P.F. et al. (2012) "Interferon-γ Causes Cardiac Myocyte Atrophy via Selective Degradation of Myosin Heavy Chain in a Model of Chronic Myocarditis." Am. J. Pathol. 181(6): 2038–2046.
Carvalho, A.N. et al. (2012) "Ubiquitin-Proteasome System Impairment and MPTP-Induced Oxidative Stress in the Brain of C57BL/6 Wild-type and GSTP Knockout Mice." Mol. Neurobiol.
Caldeira, M.V. et al. (2012) "Excitotoxic stimulation downregulates the ubiquitin-proteasome system through activation of NMDA receptors in cultured hippocampal neurons." Biochim. Biophys. Acta.
Blount, J.R. et al. (2012) "Ubiquitin-Specific Protease 25 Functions in Endoplasmic Reticulum-Associated Degradation." PLoS ONE 7(5): e36542.
Chollangi, S. et al. (2012) "The hemerythrin-like domain within F-box and leucine-rich repeat protein 5 communicates cellular iron and oxygen availability by distinct mechanisms." The Journal of biological chemistry. 2012 May 30;
Zhang, Y. et al. (2012) "Regulation of cell cycle progression by forkhead transcription factor FOXO3 through its binding partner DNA replication factor Cdt1." Proc. Natl. Acad. Sci. U.S.A. 109(15): 5717–5722.
Kensche, T. et al. (2012) "Analysis of NF-κB essential modulator (NEMO) binding to linear and lysine-linked ubiquitin chains and its role in the activation of NF-κB." The Journal of biological chemistry. 2012 May 17;
Long, M.J.C. et al. (2012) "Inhibitor Mediated Protein Degradation." Chemistry & Biology 19(5): 629–637.
Tsuji, T. et al. (2012) "Heat Shock Protein 90-Mediated Peptide-Selective Presentation of Cytosolic Tumor Antigen for Direct Recognition of Tumors by CD4+ T Cells." J. Immunol. 188(8): 3851–3858.
Long, M.J.C. et al. (2012) "Inhibitor Mediated Protein Degradation." Chemistry & Biology 19(5): 629–637.
Ubiquitin
Chicooree, N. et al. (2013) "A novel approach to the analysis of SUMOylation with the independent use of trypsin and elastase digestion followed by database searching utilising consecutive residue addition to lysine." Rapid Commun. Mass Spectrom. 27(1): 127–134.
Hebron, M.L. et al. (2012) "Parkin ubiquitinates Tar-DNA binding protein-43 (TDP-43) and promotes its cytosolic accumulation via interaction with histone deacetylase 6 (HDAC6)." J. Biol. Chem.
SUMO
Chicooree, N. et al. (2013) "A novel approach to the analysis of SUMOylation with the independent use of trypsin and elastase digestion followed by database searching utilising consecutive residue addition to lysine." Rapid Commun. Mass Spectrom. 27(1): 127–134.
Cotto-Rios, X.M. et al. (2012) "Deubiquitinases as a signaling target of oxidative stress." Cell Rep 2(6): 1475–1484.
Guo, Z. et al. (2012) "Sequential Posttranslational Modifications Program FEN1 Degradation during Cell-Cycle Progression." Molecular cell.
Hu, X. et al. (2012) "Rap80 Protein Recruitment to DNA Double-strand Breaks Requires Binding to Both Small Ubiquitin-like Modifier (SUMO) and Ubiquitin Conjugates." J. Biol. Chem. 287(30): 25510–25519.
Liu, Y. et al. (2012) "NF-κB Repression by PIAS3 Mediated RelA SUMOylation." PLoS ONE 7(5): e37636.
Luo, K. et al. (2012) "Sumoylation of MDC1 is important for proper DNA damage response." The EMBO journal. 2012 May 25;
Rendtlew Danielsen, J. et al. (2012) "DNA damage-inducible SUMOylation of HERC2 promotes RNF8 binding via a novel SUMO-binding Zinc finger." J. Cell Biol. 197(2): 179–187.
Osula, O. et al. (2012) "Identification of protein SUMOylation sites by mass spectrometry using combined microwave-assisted aspartic acid cleavage and tryptic digestion." J Mass Spectrom 47(5): 644–654.
Chang, C., et al (2011) “A Novel Cyclic AMP/Epac1/CaMKI Signaling Cascade Promotes GCM1 Desumoylation and Placental Cell Fusion.” Mol. Cell. Biol. 31: 3820 - 3831.
Chang, C., et al (2011) “A Novel Cyclic AMP/Epac1/CaMKI Signaling Cascade Promotes GCM1 Desumoylation and Placental Cell Fusion.” Mol. Cell. Biol. 31: 3820 - 3831.
Galisson, F., et al. (2011) “A Novel Proteomics Approach to Identify SUMOylated Proteins and Their Modification Sites in Human Cells.” Molecular and Cellular Proteomics, 10: M110.004796.
Wyatt, D., et al. (2011) “Small Ubiquitin-like Modifier Modification of Arrestin-3 Regulates Receptor Trafficking.” The Journal of Biological Chemistry, 286: 3884-3893.
Koike, A, et al. (2010) “Recruitment of Phosphorylated NPM1 to Sites of DNA Damage through RNF8-Dependent Ubiquitin Conjugates.” Cancer Res. 70: 6746 - 6756.
Chu, Y. and Yang, X. (2010) "SUMO E3 ligase activity of TRIM proteins.” Oncogene 30(9): 1108–1116.
Shanks. J., et al. (2009) "Burkholderia mallei tssM Encodes a Putative Deubiquitinase That Is Secreted and Expressed inside Infected RAW 264.7 Murine Macrophages." Infect. Immun. 77 (4): 1636-1648.
Zunino, R., et al.(2009) "Translocation of SenP5 from the Nucleoli to the Mitochondria Modulates DRP1-dependent Fission during Mitosis." J. Biol. Chem. 284: 17783-17795.
MacPherson, M.J., et al. (2009) "The CTCF Insulator Protein Is Post-translationally Modified by SUMO." Mol. Cell. Biol. 29(3): 714-725.
Dawlaly, M.M., et al. (2008) "Resolution of Sister Centromeres requires RanBP2-mediated SUMOylation of Topoisomerase II[alpha]." Cell 133: 103-115.
Lima, C.D. and Reverter, D. (2008) "Structure of the Human SENP7 Catalytic Domain and Poly-SUMO Deconjugation Activities for SENP6 and SENP7." J. Biol. Chem. 283 (46): 32045-32055.
Benson, M. D., et al. (2007). "SUMO modification regulates inactivation of the voltage-gated potassium channel Kv1.5." PNAS 104(6): 1805-1810.
Chou, C.-C., et al. (2007). "SUMO modification regulates the DNA-binding activity of GCMa." J. Biol. Chem.: 282(37): 27239-27249.
Catic A., et al. (2007) "Screen for ISG15-cross-reactive Deubiquitinases." PLoS ONE 2(7): E769.
Miller, S. L. H., et al. (2007). "Ubiquitin-interacting Motifs Inhibit Aggregation of PolyQ-expanded Huntingtin." J. Biol. Chem. 282(13): 10096-10103.
Rytkonen, A., et al. (2007) "SseL, a Salmonella deubiquitinase required for macrophage killing and virulence4." PNAS 104(9): 3502-3507.
Avvakumov, G. V., et al. (2006). "Amino-terminal dimerization, NRDP1 (FLRF) - rhodanese interaction, and inhibited catalytic domain conformation of the ubiquitin specific protease 8 (USP8/UBPY)." J. Biol. Chem.281(49):38061-38070.
NEDD8
Zhong, H.-J. et al. (2012) "A Metal-Based Inhibitor of NEDD8-Activating Enzyme." PLoS ONE 7(11): e49574.
Na, C.-H. et al. (2012) "Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis." J. Proteome Res. 11(9):4722-32.
Gastaldello, S. et al. (2012) "Herpes virus deneddylases interrupt the cullin-RING ligase neddylation cycle by inhibiting the binding of CAND1." Journal of molecular cell biology. 2012 Apr 3;
Capodagli, G., et al. (2011) “Structural analysis of a viral ovarian tumor domain protease from the Crimean-Congo Hemorrhagic Fever virus in complex with covalently bonded ubiquitin.” Journal of Virology, 85: 3621-3630.
Wu, K., et al. (2011) “Mono-ubiquitination Drives Nuclear Export of the Human DCN1-like Protein hDCNL1.” J. Biol. Chem. 286: 34060 - 34070.
Hosp, J., et al. (2011) "A tobacco homolog of DCN1 is involved in cellular reprogramming and in developmental transitions.” doi:10101/npre.2011.5728.1
Artavanis-Tsakonas, K., et al. (2010) “Characterization and Structural Studies of the Plasmodium falciparum Ubiquitin and Nedd8 Hydrolase UCHL3.” J. Biol. Chem. 285: 6857 - 6866.
Choi, Y. et al. (2010) "The Human Cdc34 Carboxyl Terminus Contains a Non-covalent Ubiquitin Binding Activity That Contributes to SCF-dependent Ubiquitination." J. Biol. Chem. 285: 17754 - 17762.
Gastaldello, S., et al. (2010) "A deneddylase encoded by Epstein–Barr virus promotes viral DNA replication by regulating the activity of cullin-RING ligases.” Nature cell biology 12(4): 351–361.
Cooper, E.M., et al. (2009) "K63-specific deubuiquitination by two JAMM/MPN+ complexes:BRISC-associated Brcc-36 and proteasomal Poh1." EMBO J. 28(6) 621-631 .
Kim, A.Y., et al. (2008) “SCCRO (DCUN1D1) Is an Essential Component of the E3 Complex for Neddylation.” J. Biol. Chem. 283(48): 33211-33220.
Heuzé, M.L., et al. (2008) "ASB2 targets filamins A and B to proteasomal degradation." Blood 112(13): 5130-5140.
Miller, S. L. H., et al. (2007). "Ubiquitin-interacting Motifs Inhibit Aggregation of PolyQ-expanded Huntingtin." J. Biol. Chem. 282(13): 10096-10103.
Avvakumov, G. V., et al. (2006). "Amino-terminal dimerization, NRDP1 (FLRF) - rhodanese interaction, and inhibited catalytic domain conformation of the ubiquitin specific protease 8 (USP8/UBPY)." J. Biol. Chem.281(49):38061-38070.
Oved, S., Y. Mosesson, et al. (2006). "Conjugation to Nedd8 Instigates Ubiquitylation and Down-regulation of Activated Receptor Tyrosine Kinases." J. Biol. Chem. 281(31): 21640-21651.
ISG15
Na, C.-H. et al. (2012) "Synaptic protein ubiquitination in rat brain revealed by antibody-based ubiquitome analysis." J. Proteome Res. 11(9):4722-32.
Basters, A. et al. (2012) "High yield expression of catalytically active USP18 using a Trigger Factor fusion system." BMC Biotechnol. 12(1): 56.
Capodagli, G., et al. (2011) “Structural analysis of a viral ovarian tumor domain protease from the Crimean-Congo Hemorrhagic Fever virus in complex with covalently bonded ubiquitin.” Journal of Virology, 85: 3621-3630.
James, T., et al. (2011) “Structural basis for the removal of ubiquitin and interferon-stimulated gene 15 by a viral ovarian tumor domain-containing protease.” PNAS, 108: 2222-2227.
Malakhova O.A. and Zhang D-E. (2008) "ISG15 Inhibits Nedd4 Ubiquitin E3 Activity and Enhances the Innate Antiviral Response." J. Biol. Chem. 283: 8783-8787.
Ratia, K, et al. (2008). "A non-covalent class of papain-like protease/deubiquitinase inhibitors blocks SARS virus replication." PNAS 105 (42): 16119-16124 .
Catic A., et al. (2007) "Screen for ISG15-cross-reactive Deubiquitinases." PLoS ONE 2(7): E769.
UFM1
Bacik, J., et al. (2010) “Crystal Structure of the Human Ubiquitin-activating Enzyme 5 (UBA5) Bound to ATP: MECHANISTIC INSIGHTS INTO A MINIMALISTIC E1 ENZYME.” J. Biol. Chem. 285: 20273 - 20280.
Autophagy
Havens, C. G., et al. (2006) "Regulation of Late G1/S Phase Transition and APCCdh1 by Reactive Oxygen Species." Mol. Cell. Biol. 26(12): 4701-4711.
FAT10
Antibodies
Pulvino, M. et al. (2012) "Inhibition of proliferation and survival of diffuse large B-cell lymphoma cells by a small-molecule inhibitor of the ubiquitin-conjugating enzyme Ubc13-Uev1A." Blood.
Hu, R. et al. (2012) "Distinct transcriptional programs mediated by the ligand-dependent full-length androgen receptor and its splice variants in castration-resistant prostate cancer." Cancer research.
Maezawa, S. et al. (2012) "Ubiquitylation of terminal deoxynucleotidyltransferase inhibits its activity." PLoS ONE 7(7): e39511.
Delfino, G.B. et al. (2012) "Quadriceps Muscle Atrophy After Anterior Cruciate Ligament Transection Involves Increased mRNA Levels of Atrogin-1, Muscle Ring Finger 1, and Myostatin." Am J Phys Med Rehabil.
Ali, A.M. et al. (2012) "FAAP20: a novel ubiquitin-binding FA nuclear core-complex protein required for functional integrity of the FA-BRCA DNA repair pathway." Blood 119(14): 3285–3294.
Zhang, Y.-G. et al. (2012) "Axin1 prevents salmonella invasiveness and inflammatory response in intestinal epithelial cells." PLoS ONE 7(4): e34942.
Diniz, G.P. et al. (2012) "New Insight into the mechanisms associated to rapid effect of T3 on AT1R expression." Journal of molecular endocrinology. 2012 Apr 23;
Kudryashova, E. et al. (2012) "Satellite cell senescence underlies myopathy in a mouse model of limb-girdle muscular dystrophy 2H." J. Clin. Invest. 122(5): 1764–1776.
Song, M., et al. (2011) “Nuclear PTEN Regulates the APC-CDH1 Tumor-Suppressive Complex in a Phosphatase-Independent Manner.” Cell, 144: 187-199.
Wang, H., et al. (2011) “CCI-779 Inhibits Cell-Cycle G2–M Progression and Invasion of Castration-Resistant Prostate Cancer via Attenuation of UBE2C Transcription and mRNA Stability.” Cancer Res. 71: 4866 - 4876.
Chen, A., et al. (2011) “Enzyme E2 from Chinese White Shrimp Inhibits Replication of White Spot Syndrome Virus and Ubiquitinates Its RING Domain Proteins.” J. Virol. 85: 8069 - 8079.
Chen, L., et al. (2011) “Sts1 Plays a Key Role in Targeting Proteasomes to the Nucleus.” The Journal of Biological Chemistry, 286: 3104-3118.
Rakovic, A., et al. (2011) “Mutations in PINK1 and Parkin Impair Ubiquitination of Mitofusins in Human Fibroblasts.” PLoS one, 6: e16746. doi:10.1371/journal.pone.0016746.
Wyatt, D., et al. (2011) “Small Ubiquitin-like Modifier Modification of Arrestin-3 Regulates Receptor Trafficking.” The Journal of Biological Chemistry, 286: 3884-3893.
Kaiser, S.E., et al. (2011) "Protein standard absolute quantification (PSAQ) "method for the measurement of cellular ubiquitin pools.” Nature methods 8(8): 691–696.
Kaiser, S.E., et al. (2011) "Protein standard absolute quantification (PSAQ) method for the measurement of cellular ubiquitin pools.” Nature methods 8(8): 691–696.
Mansfeld, J., et al. (2011) "APC15 drives the turnover of MCC-CDC20 to make the spindle assembly checkpoint responsive to kinetochore attachment.” Nature cell biology 13(10): 1234–1243.
Bacik, J., et al. (2010) “Crystal Structure of the Human Ubiquitin-activating Enzyme 5 (UBA5) Bound to ATP: MECHANISTIC INSIGHTS INTO A MINIMALISTIC E1 ENZYME.” J. Biol. Chem. 285: 20273 - 20280.
Kavazis, A. N., et al. (2010) “Short-term exercise training protects against doxorubicin-induced cardiac mitochondrial damage independent of HSP72.” Am. J. Physiol. Heart Circ. Physiol. 299: H1515-H1524.
Tang, W., et al. (2010) “Emi2-mediated Inhibition of E2-substrate Ubiquitin Transfer by the Anaphase-promoting Complex/Cyclosome through a D-Box–independent Mechanism.” Mol. Biol. Cell 21: 2589 - 2597.
Kumar, B., et al. (2010) “The C Terminus of Rpt3, an ATPase Subunit of PA700 (19 S) Regulatory Complex, Is Essential for 26 S Proteasome Assembly but Not for Activation.” J. Biol. Chem. 285: 39523-39535.
Liang, J., et al. (2010) “MCP-induced protein 1 deubiquitinates TRAF proteins and negatively regulates JNK and NF-B signaling.” J. Exp. Med. 207: 2959-2973.
Kits
Guo, Z. et al. (2012) "Sequential Posttranslational Modifications Program FEN1 Degradation during Cell-Cycle Progression." Molecular cell.
Lim, J.H. et al. (2012) "CYLD negatively regulates transforming growth factor-β-signalling via deubiquitinating Akt." Nat Commun 3: 771
Osula, O. et al. (2012) "Identification of protein SUMOylation sites by mass spectrometry using combined microwave-assisted aspartic acid cleavage and tryptic digestion." J Mass Spectrom 47(5): 644–654.
Zhou, X.H. et al. (2012) "A three generation study with high-lysine transgenic rice in Sprague-Dawley rats." Food and chemical toxicology: an international journal published for the British Industrial Biological Research Association 50(6): 1902–1910.
Hodson, C., et al. (2011) “Structural Analysis of Human FANCL, the E3 Ligase in the Fanconi Anemia Pathway.” J. Biol. Chem. 286: 32628 - 32637.
Sung, C.K., et al. (2011) “Transcriptional and post-translational regulation of the quiescence factor and putative tumor suppressor p150Sal2.” The FASEB Journal fj.10-173674; published ahead of print January 12, 2011,doi:10.1096/fj.10-173674.
Dolan, P.J. and Johnson, G. (2010) “A Caspase Cleaved Form of Tau Is Preferentially Degraded through the Autophagy Pathway.” J. Biol. Chem. 285: 21978 - 21987.
Cohen, S., et al. (2009) "During muscle atrophy, thick, but not thin, filament components are degraded by MuRF1-dependent ubiquitylation." J. Cell Biol. 185: 1083-1095.
Pacheco, C.D., et al. (2009) "Tau deletion exacerbates the phenotype of Niemann–Pick type C mice and implicates autophagy in pathogenesis." Hum. Mol. Genet. 18(5): 956-965.
Sun, L., et al. (2009) “JFK, a Kelch domain-containing F-box protein, links the SCF complex to p53 regulation.” PNAS 106: 10195-10200.
Stanisic, V., et al (2009) "OTU Domain-containing Ubiquitin Aldehyde-binding Protein 1 (OTUB1) Deubiquitinates Estrogen Receptor (ER)a and Affects ERa Transcriptional Activity." J. Biol. Chem. 284: 16135-16145.
Marfella, R., et al. (2008) "Proteasome Activity as a Target of Hormone Replacement Therapy-Dependent Plaque Stabilization in Postmenopausal Women." Hypertension 51: 1135-41.
Marfella, R., et al. (2008) "Effects of Ubiquitin-Proteasome System Deregulation on the Vascular Senescence and Atherosclerosis Process in Elderly Patients." J. Gerontol. A Biol. Sci. Med. Sci. 63: 200-3.
Marfella, R., et al. (2007). "Morning Blood Pressure Surge as a Destabilizing Factor of Atherosclerotic Plaque: Role of Ubiquitin-Proteasome Activity." Hypertension 49(4): 784-791.
Esposito, K., et al. (2006). "Rosiglitazone Cools Down Inflammation in the Metabolic Syndrome." Arterioscler. Thromb. Vasc. Biol. 26(6): 1413-1414.
Samuel, T., et al. (2006). "Distinct BIR Domains of cIAP1 Mediate Binding to and Ubiquitination of Tumor Necrosis Factor Receptor-associated Factor 2 and Second Mitochondrial Activator of Caspases." J. Biol. Chem. 281(2): 1080-1090.
Marfella, R., et al. (2006). "The Ubiquitin-Proteasome System and Inflammatory Activity in Diabetic Atherosclerotic Plaques: Effects of Rosiglitazone Treatment." Diabetes 55(3): 622-632.
Gurova K. V., et al. (2005) "Small molecules that reactivate p53 in renal cell carcinoma reveal a NF-κB-dependent mechanism of p53 suppression in tumors." PNAS 102(48): 17448-17453.
Buffers, Solutions, Standards
Zhang, S. et al. (2012) "GST:Identification of RNF8 as a ubiquitin ligase involved in targeting the p12 subunit of DNA polymerase δ for degradation in response to DNA damage." J. Biol. Chem.
Guo, Z. et al. (2012) "Sequential Posttranslational Modifications Program FEN1 Degradation during Cell-Cycle Progression." Molecular cell.
Zhao, Y. et al. (2012) "Non-Covalent Interaction between Polyubiquitin and GTP Cyclohydrolase 1 Dictates Its Degradation." PLoS ONE 7(9): e43306.
Zang, Y. et al. (2012) "Rice UBC13, a candidate housekeeping gene, is required for K63-linked polyubiquitination and tolerance to DNA damage." Rice 5(1): 24.
Merkx, R. et al. (2012) "Synthesis and Evaluation of a Selective Fluorogenic Pup Derived Assay Reagent for Dop, a Potential Drug Target in Mycobacterium tuberculosis." Chembiochem 13(14): 2056–2060.
Humphrey, R.K. et al. (2012) "Lysine 63-linked Ubiquitination Modulates Mixed Lineage Kinase-3 Interaction with JIP1 Scaffold protein in Cytokine-induced Pancreatic Beta Cell Death." J. Biol. Chem.
Henle, A.M. et al. (2012) "Enzymatic Discovery of a HER-2/neu Epitope That Generates Cross-Reactive T Cells." J. Immunol.
Marfella, R. et al. (2012) "Dipeptidyl Peptidase 4 Inhibition May Facilitate Healing of Chronic Foot Ulcers in Patients with Type 2 Diabetes." Experimental Diabetes Research 2012: 1–11.
Huett, A. et al. (2012) "The LRR and RING Domain Protein LRSAM1 Is an E3 Ligase Crucial for Ubiquitin-Dependent Autophagy of Intracellular Salmonella Typhimurium." Cell Host Microbe 12(6): 778–790.
Kensche, T. et al. (2012) "Analysis of Nuclear Factor-κB (NF-κB) Essential Modulator (NEMO) Binding to Linear and Lysine-linked Ubiquitin Chains and Its Role in the Activation of NF-κB." J. Biol. Chem. 287(28): 23626–23634.
Sambuughin, N. et al. (2012) "KBTBD13 interacts with Cullin 3 to form a functional ubiquitin ligase." Biochemical and biophysical research communications. 2012 Apr 20;
Luo, K. et al. (2012) "Sumoylation of MDC1 is important for proper DNA damage response." The EMBO journal. 2012 May 25;
Bell, J.L. et al. (2012) "TRIM16 Acts as an E3 Ubiquitin Ligase and Can Heterodimerize with Other TRIM Family Members." PLoS ONE 7(5): e37470.
Luo, K. et al. (2012) "Sumoylation of MDC1 is important for proper DNA damage response." The EMBO journal. 2012 May 25;
Substrate Proteins
Guglielmotto, M. et al. (2012) "Aβ 1-42-mediated down-regulation of Uch-L1 is dependent on NF-κB activation and impaired BACE1 lysosomal degradation." Aging cell.
Chung, D.-W.D. et al. (2012) "Characterization of the Ubiquitylating Components of the Human Malaria Parasite’s Protein Degradation Pathway." PLoS ONE 7(8): e43477.
Kanga, S. et al. (2012) "A deubiquitylating complex required for neosynthesis of a yeast mitochondrial ATP synthase subunit." PLoS ONE 7(6): e38071.
Hochrainer, K. et al. (2012) "Reperfusion rather than ischemia drives the formation of ubiquitin aggregates after middle cerebral artery occlusion." Stroke 43(8): 2229–2235.
Zhu, Y. et al. (2012) "Synthesis and inhibitory activities against colon cancer cell growth and proteasome of alkylresorcinols." J. Agric. Food Chem. 60(35): 8624–8631.
Neilsen, P.M. et al. (2012) "New 26S Proteasome Inhibitors with High Selectivity for Chymotrypsin-Like Activity and p53-Dependent Cytotoxicity." ACS Chem. Biol.
Blackburn C, Barrett C, Blank JL, et al. "Optimization of a series of dipeptides with a P3 β-neopentyl asparagine residue as non-covalent inhibitors of the chymotrypsin-like activity of human 20S proteasome." Med. Chem. Commun. 2012 May 30;3(6):710–719.
Henle, A.M. et al. (2012) "Enzymatic Discovery of a HER-2/neu Epitope That Generates Cross-Reactive T Cells." J. Immunol.
Carvalho, A.N. et al. (2012) "Ubiquitin-Proteasome System Impairment and MPTP-Induced Oxidative Stress in the Brain of C57BL/6 Wild-type and GSTP Knockout Mice." Mol. Neurobiol.
Lansdell, T.A. et al. (2012) "Non-competitive modulation of the proteasome by imidazoline scaffolds overcome bortezomib resistant and delay MM tumor growth in vivo." ACS Chem. Biol.
Rodriguez, K.A. et al. (2012) "Altered composition of liver proteasome assemblies contributes to enhanced proteasome activity in the exceptionally long-lived naked mole-rat." PLoS ONE 7(5): e35890.
Rodriguez, K.A. et al. (2012) "Altered composition of liver proteasome assemblies contributes to enhanced proteasome activity in the exceptionally long-lived naked mole-rat." PLoS ONE 7(5): e35890.
Rodriguez, K.A. et al. (2012) "Altered composition of liver proteasome assemblies contributes to enhanced proteasome activity in the exceptionally long-lived naked mole-rat." PLoS ONE 7(5): e35890.
Chou, Y.-W. et al. (2012) "Differential domain structure stability of the severe acute respiratory syndrome coronavirus papain-like protease." Arch. Biochem. Biophys. 520(2): 74–80.
Reverdy, C. et al. (2012) "Discovery of Specific Inhibitors of Human USP7/HAUSP Deubiquitinating Enzyme." Chem. Biol. 19(4): 467–477.
Affinity Matrices
Hu, X. et al. (2012) "Rap80 Protein Recruitment to DNA Double-strand Breaks Requires Binding to Both Small Ubiquitin-like Modifier (SUMO) and Ubiquitin Conjugates." J. Biol. Chem. 287(30): 25510–25519.
Durcan, T.M., et al. (2011) “The Machado–Joseph disease-associated mutant form of ataxin-3 regulates parkin ubiquitination and stability.” Human Molecular Genetics, 20: 141-154.
Gerlach, B., et al. (2011) "Linear ubiquitination prevents inflammation and regulates immune signalling.” Nature 471(7340): 591–596.
LaLonde, D. and Bretscher, A. (2011) “The UBX Protein SAKS1 Negatively Regulates Endoplasmic Reticulum-associated Degradation and p97-dependent Degradation.” The Journal of Biological Chemistry, 286: 4892-4901.
Sun, H., et al. (2011) “Bcr-Abl ubiquitination and Usp9x inhibition block kinase signaling and promote CML cell apoptosis.” Blood, 117: 3151-3162.
Feng, L., et al. (2010) “The Lys63-specific Deubiquitinating Enzyme BRCC36 Is Regulated by Two Scaffold Proteins Localizing in Different Subcellular Compartments.” J. Biol. Chem. 285: 30982-30988.
Liang, J., et al. (2010) “MCP-induced protein 1 deubiquitinates TRAF proteins and negatively regulates JNK and NF-B signaling.” J. Exp. Med. 207: 2959-2973.
De Schutter, J., et al. (2009) “SHIP2 (SH2 Domain-containing Inositol Phosphatase 2) SH2 Domain Negatively Controls SHIP2 Monoubiquitination in Response to Epidermal Growth Factor.” J. Biol. Chem. 284: 36062 - 36076.
Lis, E. T. and F. E. Romesberg (2006). "Role of Doa1 in the Saccharomyces cerevisiae DNA Damage Response." Mol. Cell. Biol. 26(11): 4122-4133.
Kowanetz K., et al. (2004) "Suppressors of T-cell Receptor Signaling Sts-1 and Sts-2 Bind to Cbl and Inhibit Endocytosis of Receptor Tyrosine Kinases." J. Biol. Chem. 279(31): 32786-32795.
Fractions
Zhang, S. et al. (2012) "GST:Identification of RNF8 as a ubiquitin ligase involved in targeting the p12 subunit of DNA polymerase δ for degradation in response to DNA damage." J. Biol. Chem.
Herr, R.A. et al. (2012) "Newly Discovered Viral E3 Ligase pK3 Induces Endoplasmic Reticulum-associated Degradation of Class I Major Histocompatibility Proteins and Their Membrane-bound Chaperones." J. Biol. Chem. 287(18): 14467–14479.
Watanabe, T. et al. (2012) "FBL2 regulates amyloid precursor protein (APP) metabolism by promoting ubiquitination-dependent APP degradation and inhibition of APP endocytosis." J. Neurosci. 32(10): 3352–3365.
Kensche, T. et al. (2012) "Analysis of Nuclear Factor-κB (NF-κB) Essential Modulator (NEMO) Binding to Linear and Lysine-linked Ubiquitin Chains and Its Role in the Activation of NF-κB." J. Biol. Chem. 287(28): 23626–23634.
Herr, R.A. et al. (2012) "Newly Discovered Viral E3 Ligase pK3 Induces Endoplasmic Reticulum-associated Degradation of Class I Major Histocompatibility Proteins and Their Membrane-bound Chaperones." J. Biol. Chem. 287(18): 14467–14479.
Arun, P., et al. (2011) “Senescence Marker Protein 30 (SMP30) Expression in Eukaryotic Cells: Existence of Multiple Species and Membrane Localization.” PLoS one, 6: e16545. doi:10.1371/journal.pone.0016545.
Zhu, F., et al. (2011) “Phosphorylation of H2AX at Ser139 and a New Phosphorylation Site Ser16 by RSK2 Decreases H2AX Ubiquitination and Inhibits Cell Transformation.” Cancer Research, 71: 393.
Bhandari, D., et al. (2011) “Ubiquitination of mRNA cycling sequence binding protein from Leishmania donovani (LdCSBP) modulates the RNA endonuclease activity of its Smr domain.” FEBS Letters, 585: 809-813.
Chaugule, V.K., et al. (2011) "Autoregulation of Parkin activity through its ubiquitin-like domain.” The EMBO Journal 30(14): 2853–2867.
Burnett, B.G., et al. (2009) "Regulation of SMN Protein Stability." Mol. Cell. Biol. 29: 1107-1115.
Marteijn, J., et al. (2009) "The ubiquitin ligase Triad1 inhibits myelopoiesis through UbcH7 and Ubc13 interacting domains.” Leukemia 23(8): 1480–1489.
Wang, X., et al. (2009) “Ube2j2 ubiquitinates hydroxylated amino acids on ER-associated degradation substrates.” J. Cell Biol. 187: 655 - 668.
Chiang M-H., et al. (2008) "Ubiquitin-Conjugating Enzyme UBE2D2 Is Responsible for FBXW2 (F-Box and WD Repeat Domain Containing 2)-Mediated Human GCM1 (Glial Cell Missing Homolog 1) Ubiquitination and Degradation." Biol Reprod 79(5):914-920.
Liu, J., et al. (2008) "A therapeutic dose of doxorubicin activates ubiquitin-proteasome system-mediated proteolysis by acting on both the ubiquitination apparatus and proteasome." Am. J. Physiol. Heart.Circ. Physiol. 295(6): H2541-H2550.
Todi, S. V., et al. (2007). "Cellular turnover of the polyglutamine disease protein ataxin-3 is regulated by its catalytic activity." J. Biol. Chem.: 282(40): 29348-29358.
Zhu, F., et al. (2006). "COOH-Terminal Src Kinase-Mediated c-Jun Phosphorylation Promotes c-Jun Degradation and Inhibits Cell Transformation." Cancer Res. 66(11): 5729-5736.
Doss-Pepe E. W., et al. (2005) "[alpha]-Synuclein and Parkin Contribute to the Assembly of Ubiquitin Lysine 63-linked Multiubiquitin Chains." J. Biol. Chem. 280(17): 16619-16624.
Kaneko-Oshikawa C., et al. (2005) "Mammalian E4 Is Required for Cardiac Development and Maintenance of the Nervous System." Mol. Cell. Biol. 25(24): 10953-10964.
Marteijn J. A. F., et al. (2005) "The E3 ubiquitin-protein ligase Triad1 inhibits clonogenic growth of primary myeloid progenitor cells." Blood 106(13): 4114-4123.
Song B.-L. and DeBose-Boyd R.A. (2004) "Ubiquitination of 3-Hydroxy-3-methylglutaryl-CoA Reductase in Permeabilized Cells Mediated by Cytosolic E1 and a Putative Membrane-bound Ubiquitin Ligase." J. Biol. Chem. 279(27): 28798-28806.
Sampathu, D.M., et al. (2003) "Ubiquitination of [alpha]-synuclein is not required for formation of pathological inclusions in [alpha]--Synucleinopathies." Am. J. Path. 163: 91-100.
Shim, M., et al. (2003). "Lithium stabilizes the CCAAT/Enhancer-binding protein [alpha] (C/EBP[alpha]) through a glycogen synthase kinase 3 (GSK3)-independent pathway involving direct inhibitor of proteasomal activity." Genes Cells 11(7): 731-744.
Ohh, M., et al. (2002). "An intact NEDD8 pathway is required for Cullin-dependent ubiquitylation in mammalian cells.” EMBO Reports 3(2): 177-182.






