Deconjugating Enzymes
Amsel A.D., et al. (2008) ‘Regulation of the pro-apoptotic factor Bax by Ku70-dependent deubiquitylation.’ PNAS 105: 5117-22.
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.
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.
Barretto N., et al. (2005) "The Papain-Like Protease of Severe Acute Respiratory Syndrome Coronavirus Has Deubiquitinating Activity." J. Virol. 79(24): 15189-15198.
Bellare, P. et al. (2006). "Ubiquitin binding by a variant Jab1/MPN domain in the essential pre-mRNA splicing factor Prp8p." RNA 12(2): 292-302.
Burnett, B. et al. (2003). "The polyglutamine neurodegenerative protein Ataxin-3 binds poly-ubiquitinated proteins and has ubiquitin protease activity." Hum. Mol. Genet. 12(23): 3195-3205.
Catic A., et al. (2007) "Screen for ISG15-cross-reactive Deubiquitinases." PLoS ONE 2(7): E769.
Chen, Z., Y. Wang, et al. (2007). "Proteolytic Processing and Deubiquitinating Activity of Papain-Like Proteases of Human Coronavirus NL63." J. Virol. 81(11): 6007-6018.
Clementz, M.A., et al. (2010) "Deubiquitinating and Interferon Antagonism Activities of Coronavirus Papain-Like Proteases." J. Virol. 84: 4619 - 4629.
Cohn, M.A., et al. (2009) "UAF1 Is a Subunit of Multiple Deubiquitinating Enzyme Complexes." J. Biol. Chem. 284 (8): 5343-5351
Colland, F., et al. (2009) “Small-molecule inhibitor of USP7/HAUSP ubiquitin protease stabilizes and activates p53 in cells.” Mol. Cancer Ther. 8: 2286 - 2295.
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.
Das, C., et al. (2006). "Structural basis for conformational plasticity of the Parkinson's disease-associated ubiquitin hydrolase UCH-L1." PNAS 103(12): 4675-4680.
Doss-Pepe, E.W., et al. (2003). "Ataxin-3 interactions with Rad23 and valosin-containing protein and its associations with ubiquitin chains and the proteasome are consistent with a role in ubiquitin-mediated proteolysis." Mol. Cell. Biol 23(18): 6469-6483
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.
Evans, P.C., et al. (2004). "Zinc-finger protein A20, a regulator of inflammation and cell survival has de-ubiquitination activity." Biochem. J. 378: 727-734.
Faustrup, H., et al. (2009) "USP7 counteracts SCFβTrCP- but not APCCdh1-mediated proteolysis of Claspin." J. Cell Biol. 184(1):13-19.
Felle, M., et al. (2011) “The USP7/Dnmt1 complex stimulates the DNA methylation activity of Dnmt1 and regulates the stability of UHRF1.” Nucleic Acids Res. 10.1093/nar/gkr528.
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.
Gallery, M., J. L. Blank, et al. (2007). "The JAMM motif of human deubiquitinase Poh1 is essential for cell viability." Mol. Cancer Ther. 6(1): 262-268.
Guo, Y., et al. (2010) “Blockade of the Ubiquitin Protease UBP43 Destabilizes Transcription Factor PML/RAR and Inhibits the Growth of Acute Promyelocytic Leukemia.” Cancer Res. 70: 9875-9885.
Huang, Z., et al. (2011) “Deubiquitylase HAUSP stabilizes REST and promotes maintenance of neural progenitor cells.” Nature Cell Biology, 13: 142-152.
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.
Kabuta T., et al. (2008). "Aberrant molecular properties shared by familial Parkinson’s disease-associated mutant UCH-L1 and carbonyl-modified UCH-L1." Hum. Mol. Genet. 17(10):1482-1496.
Kee, Y., et al. "WDR20 Regulates Activity of the USP12•UAF1 Deubiquitinating Enzyme Complex." J. Biol. Chem. 285: 11252 - 11257.
Kee, Y., et al. (2006). "The Ubp2 deubiquitinating enzyme modulates Rsp5-dependent K63-linked polyubiquitin conjugates in Saccharomyces cerevisiae." J. Biol. Chem. 286: 36724-36731.
Kim, E.T., et al. (2009) “Cleavage Specificity of the UL48 Deubiquitinating Protease Activity of Human Cytomegalovirus and the Growth of an Active-Site Mutant Virus in Cultured Cells.” J. Virol. 83: 12046 - 12056.
Koulich, E., et al. (2008) ‘Relative Structural and Functional Roles of Multiple Deubiquitylating Proteins Associated with Mammalian 26S Proteasome.’ Mol. Biol. Cell 19: 1072-82.
Le Negrate, G., et al. (2008) ‘Salmonella Secreted Factor L Deubiquitinase of Salmonella typhimurium Inhibits NF-κB, Suppresses IκBα Ubiquitination and Modulates Innate Immune Responses.’ J. Immunol. 180: 5045-56.
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.
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.
Lindner H. A., et al. (2005) "The Papain-Like Protease from the Severe Acute Respiratory Syndrome Coronavirus is a Deubiquitinating Enzyme." J. Virol. 79(24): 15199-15208.
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.
Lui, T., et al. (2011) “The Ubiquitin specific protease USP34 regulates Axin stability and Wnt/-catenin signaling.” Molecular and Cellular Biology: doi:10.1128/MCB.01094-10.
McCullough J., et al. (2004) "AMSH is an endosome-associated ubiquitin isopeptidase." J. Cell Biol. 166(4): 487-492.
Misaghi. S, et al. (2009) "Association of C-terminal ubiquitin hydrolase BAP1 with cell cycle regulator HCF-1." Mol. Cell. Biol. MCB.01517-08v1
Mizuno, E., et al. (2005) "Regulation of Epidermal Growth Factor Receptor Down-Regulation by UBPY-mediated Deubiquitination at Endosomes." Mol. Biol. Cell 16(11): 5163-5174.
Nakamura, M. N. Tanaka, et al. (2006). "Clathrin anchors deubiquitinating enzymes, AMSH and AMSH-like protein, on early endosomes." Genes Cells 11(6): 593-606.
Nicholson, B., et al. (2008). "Characterization of ubiquitin and ubiquitin-like-protein isopeptidase activities." Prot. Sci. 17: 1035-1043.
Oberfeld, B., et al. (2011) “Ubiquitin-specific protease 2-45 (Usp2-45) binds to epithelial Na+ channel (ENaC)-ubiquitylating enzyme Nedd4-2.” Am J Physiol Renal Physiol. 301: F189 - F196.
Osaka, H., et al. (2003). "Ubiquitin carboxyl-terminal hydrolases L1 binds to and stabilizes monoubiquitin in neuron." Hum. Molec. Genet. 12: 1945-1958.
Patterson-Fortin, J., et al. (2010) “Differential Regulation of JAMM Domain Deubiquitinating Enzyme Activity within the RAP80 Complex.” J. Biol. Chem. 285: 30971-30981.
Pierre, S., et al. (2008) "Toponomics Analysis of Functional Interactions of the Ubiquitin Ligase PAM (Protein Associated with Myc) during Spinal Nociceptive Processing." Mol. Cell. Proteomics 7(12): 2475-2485.
Popp, M.W., et al. (2009) "Substrate Filtering by the Active Site Crossover Loop in UCHL3 Revealed by Sortagging and Gain-of-function Mutations." J. Biol. Chem. 284 (6): 3593-3602.
Ratia, K, et al. (2008). "A non-covalent class of papain-like protease/deubiquitinase inhibitors blocks SARS virus replication." PNAS 105 (42): 16119-16124
Row, P. E., H. Liu, et al. (2007). "The MIT domain of UBPY constitutes a CHMP binding and endosomal localisation signal required for efficient EGF receptor degradation." J. Biol. Chem.: 282:30929-30937.
Rytkonen, A., et al. (2007) "SseL, a Salmonella deubiquitinase required for macrophage killing and virulence4." PNAS 104(9): 3502-3507.
Sakurai, M., et al. (2006) "Ubiquitin C-terminal hydrolase L1 regulates the morphology of neural progenitor cells and modulates their differentiation." J. Cell Sci. 119(1): 162-171.
Scortegagna, M., et al. (2011) “USP13 Enzyme Regulates Siah2 Ligase Stability and Activity via Noncatalytic Ubiquitin-binding Domains.” J. Biol. Chem. 286: 27333 - 27341.
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.
Shenoy, S.K., et al. (2009) "b-Arrestin-dependent signaling and trafficking of 7-transmembrane receptors is reciprocally regulated by the deubiquitinase USP33 and the E3 ligase Mdm2." PNAS 106: 6650-6655
Shi, C. and Kehrl, J.H. (2010) “TRAF6 and A20 Regulate Lysine 63–Linked Ubiquitination of Beclin-1 to Control TLR4-Induced Autophagy.” Sci. Signal. 3: ra42.
Song, E.J., et al. (2010) “The Prp19 complex and the Usp4Sart3 deubiquitinating enzyme control reversible ubiquitination at the spliceosome.” Genes & Dev. 24: 1434 - 1447.
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
Sun, H., et al. (2011) “Bcr-Abl ubiquitination and Usp9x inhibition block kinase signaling and promote CML cell apoptosis.” Blood, 117: 3151-3162.
Sun, Z., et al. (2010) “The Cysteine Protease Domain of Porcine Reproductive and Respiratory Syndrome Virus Nonstructural Protein 2 Possesses Deubiquitinating and Interferon Antagonism Functions.” J. Virol. 84: 7832 - 7846.
Takeyama, K., et al. (2003). "The BAL-binding protein BBAP and related Deltex family members exhibit ubiquitin-protein isopeptide ligase activity." J. Biol. Chem. 278(24): 21930-21937.
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.
Tzimas C, et al. (2006) "Human ubiquitin specific protease 31 is a deubiquitinating enzyme implicated in activation of nuclear factor-kappaB. Cell. Signal. 18(1):83-92.
Tzimas C, et al. (2006) "Human ubiquitin specific protease 31 is a deubiquitinating enzyme implicated in activation of nuclear factor-kappaB. Cell. Signal. 18(1):83-92.
Whitehurst, C.B., et al. (2009) "The Epstein-Barr Virus (EBV) Deubiquitinating Enzyme BPLF1 Reduces EBV Ribonucleotide Reductase Activity." J. Virol. 83: 4345-4353
Winborn, B.J., et al. (2008) "The deubiquitinating enzyme ataxin-3, a polyglutamine disease protein, edits K63-linkages in mixed linkage ubiquitin chains." J. Biol. Chem. 283(39):26436-26443
Xu, G., et al. (2010) “Ubiquitin-specific Peptidase 21 Inhibits Tumor Necrosis Factor -induced Nuclear Factor B Activation via Binding to and Deubiquitinating Receptor-interacting Protein 1.” J. Biol. Chem. 285: 969 - 978.
Xu, S., et al. (2007). "Substrate Recognition and Ubiquitination of SCFSkp2/Cks1 Ubiquitin-Protein Isopeptide Ligase." J. Biol. Chem. 282(21): 15462-15470.
Ye, Z., et al. (2007) "Salmonella effector AvrA regulation of colonic epithelial cell inflammation by deubiquitination." Am. J. Pathol. 171: 882-892.
Yi, Y.-J., et al. (2007). "Ubiquitin C-Terminal Hydrolase-Activity Is Involved in Sperm Acrosomal Function and Anti-Polyspermy Defense During Porcine Fertilization." Biol. Reprod.77:780-793.
Yu, H., et al. (2010) “The Ubiquitin Carboxyl Hydrolase BAP1 Forms a Ternary Complex with YY1 and HCF-1 and is a Critical Regulator of Gene Expression.” Mol. Cell. Biol. 10.1128/MCB.00396-10.
Yu, H., et al. (2010) “The Ubiquitin Carboxyl Hydrolase BAP1 Forms a Ternary Complex with YY1 and HCF-1 and Is a Critical Regulator of Gene Expression.” Mol. Cell. Biol. 30: 5071-5085.
Zhou H., et al. (2005) "Yersinia virulence factor YopJ acts as a deubiquitinase to inhibit NF-κB activation." J. Exp. Med. 202(10): 1327-1332.
Zou, C., et al. (2011) “LPS Impairs Phospholipid Synthesis by Triggering β-Transducin Repeat-containing Protein (β-TrCP)-mediated Polyubiquitination and Degradation of the Surfactant Enzyme Acyl-CoA:Lysophosphatidylcholine Acyltransferase I (LPCAT1).” The
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