This list only includes ubiquitin-related publications.
Deubiquitinases:
Edelmann M.J., Iphofer A., Akutsu M., Altun M., di G.K., Kramer H.B., Fiebiger E., Dhe-Paganon S., and Kessler B.M. (2009). Structural basis and specificity of human otubain 1-mediated deubiquitination. Biochem J 418: 379-390.
Avvakumov G.V., Walker J.R., Xue S., Finerty P.J., Jr., MacKenzie F., Newman E.M., and Dhe-Paganon S. (2006). Amino-terminal dimerization, NRDP1-rhodanese interaction, and inhibited catalytic domain conformation of the ubiquitin-specific protease 8 (USP8). J Biol Chem. 281: 38061-38070.
E1 ubiquitin-activating enzyme
Bacik J.P., Walker J.R., Ali M., Schimmer A.D., and Dhe-Paganon S. (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.
Xu G.W., Ali M., Wood T.E., Wong D., Maclean N., Wang X., Gronda M., Skrtic M., Li X., Hurren R. et al. (2010). The ubiquitin-activating enzyme E1 as a therapeutic target for the treatment of leukemia and multiple myeloma. Blood 115: 2251-2259.
E2 conjugating enzymes
Ceccarelli D.F., Tang X., Pelletier B., Orlicky S., Xie W., Plantevin V., Neculai D., Chou Y.C., Ogunjimi A., Al-Hakim A. et al. (2011). An allosteric inhibitor of the human Cdc34 ubiquitin-conjugating enzyme. Cell 145: 1075-1087.
Ko S., Kang G.B., Song S.M., Lee J.G., Shin D.Y., Yun J.H., Sheng Y., Cheong C., Jeon Y.H., Jung Y.K. et al. (2010). Structural basis of E2-25K/UBB+1 interaction leading to proteasome inhibition and neurotoxicity. J Biol Chem. 285: 36070-36080.
E3 ligases
Shloush J., Vlassov J.E., Engson I., Duan S., Saridakis V., Dhe-Paganon S., Raught B., Sheng Y., and Arrowsmith C.H. (2011). Structural and functional comparison of the RING domains of two p53 E3 ligases, Mdm2 and Pirh2. J Biol Chem. 286: 4796-4808.
Soss S.E., Yue Y., Dhe-Paganon S., and Chazin W.J. (2011). E2 conjugating enzyme selectivity and requirements for function of the E3 ubiquitin ligase CHIP. J Biol Chem. 286: 21277-21286.
Bezsonova I., Walker J.R., Bacik J.P., Duan S., Dhe-Paganon S., and Arrowsmith C.H. (2009). Ring1B contains a ubiquitin-like docking module for interaction with Cbx proteins. Biochemistry 48: 10542-10548.
Ubiquitin-like domains
Wang H., Hota P.K., Tong Y., Li B., Shen L., Nedyalkova L., Borthakur S., Kim S., Tempel W., Buck M. et al. (2011). Structural basis of Rnd1 binding to plexin Rho GTPase binding domains (RBDs). J Biol Chem. 286: 26093-26106.
Tong Y., Chugha P., Hota P.K., Alviani R.S., Li M., Tempel W., Shen L., Park H.W., and Buck M. (2007). Binding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain. J Biol Chem. 282: 37215-37224.
Ubiquitin and Epigenetics
Nady N., Lemak A., Walker J.R., Avvakumov G.V., Kareta M.S., Achour M., Xue S., Duan S., lali-Hassani A., Zuo X. et al. (2011). Recognition of multivalent histone states associated with heterochromatin by UHRF1 protein. J Biol Chem. 286: 24300-24311.
Syeda F., Fagan R.L., Wean M., Avvakumov G.V., Walker J.R., Xue S., Dhe-Paganon S., and Brenner C. (2011). The replication focus targeting sequence (RFTS) domain is a DNA-competitive inhibitor of Dnmt1. J Biol Chem. 286: 15344-15351.
Bronner C., Fuhrmann G., Chedin F.L., Macaluso M., and Dhe-Paganon S. (2010). UHRF1 Links the Histone code and DNA Methylation to ensure Faithful Epigenetic Memory Inheritance. Genet Epigenet. 2009: 29-36.
Avvakumov G.V., Walker J.R., Xue S., Li Y., Duan S., Bronner C., Arrowsmith C.H., and Dhe-Paganon S. (2008). Structural basis for recognition of hemi-methylated DNA by the SRA domain of human UHRF1. Nature 455: 822-825.
Ubiquitin and Proteosome
Qiu L., Pashkova N., Walker J.R., Winistorfer S., lali-Hassani A., Akutsu M., Piper R., and Dhe-Paganon S. (2010). Structure and function of the PLAA/Ufd3-p97/Cdc48 complex. J Biol Chem. 285: 365-372.
