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Genomes and Genes | Keith D WilkinsonSummaryAffiliation: Emory University Country: USA Publications
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Publications
The discovery of ubiquitin-dependent proteolysisKeith D Wilkinson
Department of Biochemistry, Emory University School of Medicine, 4017 Rollins Research Building, 1510 Clifton Road, Atlanta, GA 30322, USA
Proc Natl Acad Sci U S A 102:15280-2. 2005..The story of this discovery is a textbook example of the confluence of intellectual curiosity, unselfish collaboration, chance, luck, and preparation...- The ubiquitin signal: assembly, recognition and termination. Symposium on ubiquitin and signalingKeith D Wilkinson
Department of Biochemistry, 4017 Rollins Research Building, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA
EMBO Rep 6:815-20. 2005 
Ubiquitin: a Nobel proteinKeith D Wilkinson
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322, USA
Cell 119:741-5. 2004- Recognition of polyubiquitin isoforms by the multiple ubiquitin binding modules of isopeptidase TFrancisca E Reyes-Turcu
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
J Biol Chem 283:19581-92. 2008..These data suggest that recognition of the polyubiquitin isoforms by IsoT involves considerable conformational mobility in the polyubiquitin ligand, in the enzyme, or in both... - Prion induction by the short-lived, stress-induced protein Lsb2 is regulated by ubiquitination and association with the actin cytoskeletonTatiana A Chernova
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322, USA
Mol Cell 43:242-52. 2011..These findings directly implicate the UPS and actin cytoskeleton in regulating prions via a stress-inducible QN-rich protein... - Doa1 is a Cdc48 adapter that possesses a novel ubiquitin binding domainJames E Mullally
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322, USA
Mol Cell Biol 26:822-30. 2006..Combined, our data suggest that Doa1 plays a physiological role as a ubiquitin binding cofactor of Cdc48 and that human PLAA may play an analogous role via its interaction with p97/VCP... - Effects of ubiquitin system alterations on the formation and loss of a yeast prionKim D Allen
School of Biology and Institute for Bioengineering and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332 0230, USA
J Biol Chem 282:3004-13. 2007..We propose that UPS alterations induce an adaptive response, resulting in accumulation of the large "aggresome"-like aggregates that promote de novo prion generation and prion recovery from the chaperone treatment... - Modulating huntingtin half-life alters polyglutamine-dependent aggregate formation and cell toxicityMichael D Kaytor
Department of Human Genetics, Emory University School of Medicine, Atlanta, Georgia, USA
J Neurochem 89:962-73. 2004..Polyglutamine-induced neurotoxicity may therefore be triggered by non-aggregated protein, and aggregate formation itself may be a cellular defense mechanism... - Hsp70 chaperones as modulators of prion life cycle: novel effects of Ssa and Ssb on the Saccharomyces cerevisiae prion [PSI+]Kim D Allen
School of Biology and Institute for Bioengineering and Bioscience, Georgia Institute of Technology, Atlanta, 30332 0363, USA
Genetics 169:1227-42. 2005..In contrast, Ssb either stimulates refolding into nonprion conformation or targets misfolded proteins for degradation, in this way counteracting prion formation and propagation... - Ubiquitin-proteasome degradation of KLF5 transcription factor in cancer and untransformed epithelial cellsCeshi Chen
Department of Oncology and Hematology, Winship Cancer Institute, Emory University School of Medicine, 1365 C Clifton Road, Atlanta, GA, USA
Oncogene 24:3319-27. 2005..These results suggest that KLF5 protein is degraded at least in part through ubiquitination-proteasome pathway, which may have become hyperactive for KLF5 in cancer cells... - Protein partners of deubiquitinating enzymesKaren H Ventii
Department of Biochemistry, Rollins Research Building, Emory University School of Medicine, 1510 Clifton Road, Atlanta, GA 30322, USA
Biochem J 414:161-75. 2008..In the present review we suggest that, like ligases, much of the regulation and specificity of deubiquitination arises from the association of DUBs with these protein partners... - BRCA1-associated protein-1 is a tumor suppressor that requires deubiquitinating activity and nuclear localizationKaren H Ventii
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322, USA
Cancer Res 68:6953-62. 2008..The identification of the deubiquitinating enzyme BAP1 as a tumor suppressor may lead to further understanding of how the ubiquitin proteasome system contributes to cancer and aid in the identification of new targets for cancer therapy... - The ubiquitin binding domain ZnF UBP recognizes the C-terminal diglycine motif of unanchored ubiquitinFrancisca E Reyes-Turcu
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322, USA
Cell 124:1197-208. 2006..These data suggest that binding the ubiquitin C terminus may be necessary for the function of other proteins... 
Distribution and paralogue specificity of mammalian deSUMOylating enzymesNagamalleswari Kolli
Department of Biochemistry, Emory University, Atlanta, GA 30322, U S A
Biochem J 430:335-44. 2010..Our data suggest that SUMO2 metabolism is more dynamic than that of SUMO1 since most SENPs display a marked preference for SUMO2...- Familial Parkinson's disease-associated L166P mutation disrupts DJ-1 protein folding and functionJames A Olzmann
Departments of Pharmacology, Biochemistry, and Neurology, Center for Neurodegenerative Disease, Emory University School of Medicine, Atlanta, Georgia 30322 3090, USA
J Biol Chem 279:8506-15. 2004..Together these findings provide insights into the molecular mechanism by which loss-of-function mutations in DJ-1 lead to Parkinson's disease... - An emerging model for BAP1's role in regulating cell cycle progressionZiad M Eletr
Department of Biochemistry, Emory University, Atlanta, GA 30322, USA
Cell Biochem Biophys 60:3-11. 2011..Given the robust associations between BAP1/HCF-1 and HCF-1/E2Fs, it is reasonable to speculate that BAP1 influences cell proliferation at G1/S by co-regulating transcription from HCF-1/E2F-governed promoters... - Deubiquitinating enzyme purification, assay inhibitors, and characterizationNathaniel S Russell
Graduate Program in Biochemistry, Cell, and Developmental Biology, Emory University School of Medicine, Atlanta, GA, USA
Methods Mol Biol 301:207-19. 2005..coli using low-temperature expression as well as ion-exchange and affinity chromatography... - Dynamic compartmentalization of base excision repair proteins in response to nuclear and mitochondrial oxidative stressLyra M Griffiths
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
Mol Cell Biol 29:794-807. 2009..These studies demonstrate that trafficking of DNA repair proteins to organelles containing high levels of oxidative DNA damage may be a central point for regulating BER in response to oxidative stress... - Identification of a novel 29-linked polyubiquitin binding protein, Ufd3, using polyubiquitin chain analoguesNathaniel S Russell
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
Biochemistry 43:4844-54. 2004..Identification of these proteins will lead to a greater understanding of the physiological relevance of different polyubiquitin linkages... - Pleiotropic effects of Ubp6 loss on drug sensitivities and yeast prion are due to depletion of the free ubiquitin poolTatiana A Chernova
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
J Biol Chem 278:52102-15. 2003..These data link the Ub system to prion expression and propagation and have broad implications for other neuronal inclusion body diseases... - Derivitization of the C-terminus of ubiquitin and ubiquitin-like proteins using intein chemistry: methods and usesKeith D Wilkinson
Department of Biochemistry, Emory University, Atlanta, Georgia, USA
Methods Enzymol 399:37-51. 2005..Only active enzymes are efficiently detected with these reagents. Published results indicate that specificity is not strictly defined by the evolutionary relationships of these DUBs... - Quantitative analysis of protein-protein interactionsKeith D Wilkinson
Department of Biochemistry, Emory University School of Medicine, Atlanta, GA, USA
Methods Mol Biol 261:15-32. 2004..This chapter discusses some common design considerations that are necessary to obtain valid measurements, as well as the assumptions and analytical methods that are relevant to the quantitation of these interactions... - Burkholderia mallei tssM encodes a putative deubiquitinase that is secreted and expressed inside infected RAW 264.7 murine macrophagesJohn Shanks
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
Infect Immun 77:1636-48. 2009..Although the physiological substrate(s) is currently unknown, the TssM deubiquitinase may provide B. mallei a selective advantage in the intracellular environment during infection... - Identification and characterization of DEN1, a deneddylase of the ULP familyTudeviin Gan-Erdene
Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA
J Biol Chem 278:28892-900. 2003..This selectivity was unexpected as DEN1 is most closely related to enzymes that catalyze desumoylation. This observation expands to four the number of DUB families with members that can process the C terminus of Nedd8... - Varshavsky's contributionsWolfgang Baumeister
Science 306:1290-2. 2004 - Cell biology: unchaining the condemnedKeith D Wilkinson
Nature 419:351-3. 2002 - Chemistry-based functional proteomics reveals novel members of the deubiquitinating enzyme familyAnna Borodovsky
Department of Pathology, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA
Chem Biol 9:1149-59. 2002..We show that this polypeptide reacts with the C terminus of Ub, thus demonstrating DUB-like enzymatic activity for this novel superfamily of proteases... - Characterization of ubiquitin and ubiquitin-like-protein isopeptidase activitiesBenjamin Nicholson
Division of Research and Development, Progenra, Inc, Malvern, Pennsylvania 19355, USA
Protein Sci 17:1035-43. 2008..Taken together, these studies illustrate the utility of the reporter-based approach to measuring isopeptidase activity... - Structure and mechanisms of the proteasome-associated deubiquitinating enzyme USP14Min Hu
Department of Molecular Biology, Lewis Thomas Laboratory, Princeton University, Princeton, NJ, USA
EMBO J 24:3747-56. 2005..These structural observations, in conjunction with biochemical characterization, identify important regulatory mechanisms for USP14... - DEN1 is a dual function protease capable of processing the C terminus of Nedd8 and deconjugating hyper-neddylated CUL1Kenneth Wu
Derald H Ruttenberg Cancer Center and Department of Human Genetics, The Mount Sinai School of Medicine, New York, New York 10029 6574, USA
J Biol Chem 278:28882-91. 2003..These results suggest a unique role for DEN1 in regulating the modification of cullins by Nedd8... - Signal transduction: aspirin, ubiquitin and cancerKeith D Wilkinson
Nature 424:738-9. 2003 - OTU takes the chains OUTMaxim Y Balakirev
Nat Chem Biol 4:227-8. 2008 - Structural basis for ubiquitin recognition by the Otu1 ovarian tumor domain proteinTroy Eugene Messick
Wistar Institute, Philadelphia, Pennsylvania 19104, USA
J Biol Chem 283:11038-49. 2008..Together, these studies provide new insights into ubiquitin binding and hydrolysis by yeast Otu1 and other OTU domain-containing proteins... - Proteolytic processing and deubiquitinating activity of papain-like proteases of human coronavirus NL63Zhongbin Chen
Department of Microbiology and Immunology, Loyola University Medical Center, 2160 South First Avenue, Bldg 105, Rm 3929, Maywood, IL 60153, USA
J Virol 81:6007-18. 2007.... - DeTEKting ubiquitination of APC/C substratesArthur L Haas
Department of Biochemistry and Molecular Biology, Louisiana State University School of Medicine, New Orleans, LA 70112, USA
Cell 133:570-2. 2008..Reporting in this issue, Jin et al. (2008) identify a TEK motif in both ubiquitin and substrates of APC/C that mediates assembly of these degradation signals...