scholarly journals Crystal Structures of UbcH5b-Ubiquitin Intermediate and Cyclic Lys48-Linked Tetraubiquitin: Structural Insights into Polyubiquitin Chain Formation Mechanisms and its Dynamics

2010 ◽  
Vol 52 (5) ◽  
pp. 255-261
Author(s):  
Eri SAKATA ◽  
Tadashi SATOH ◽  
Yoshiki YAMAGUCHI ◽  
Soichi WAKATSUKI ◽  
Koichi KATO
2019 ◽  
Vol 10 (1) ◽  
Author(s):  
Yusuke Sato ◽  
Hikaru Tsuchiya ◽  
Atsushi Yamagata ◽  
Kei Okatsu ◽  
Keiji Tanaka ◽  
...  

AbstractNpl4 is likely to be the most upstream factor recognizing Lys48-linked polyubiquitylated substrates in the proteasomal degradation pathway in yeast. Along with Ufd1, Npl4 forms a heterodimer (UN), and functions as a cofactor for the Cdc48 ATPase. Here, we report the crystal structures of yeast Npl4 in complex with Lys48-linked diubiquitin and with the Npl4-binding motif of Ufd1. The distal and proximal ubiquitin moieties of Lys48-linked diubiquitin primarily interact with the C-terminal helix and N-terminal loop of the Npl4 C-terminal domain (CTD), respectively. Mutational analysis suggests that the CTD contributes to linkage selectivity and initial binding of ubiquitin chains. Ufd1 occupies a hydrophobic groove of the Mpr1/Pad1 N-terminal (MPN) domain of Npl4, which corresponds to the catalytic groove of the MPN domain of JAB1/MPN/Mov34 metalloenzyme (JAMM)-family deubiquitylating enzyme. This study provides important structural insights into the polyubiquitin chain recognition by the Cdc48–UN complex and its assembly.


RSC Advances ◽  
2021 ◽  
Vol 11 (31) ◽  
pp. 18938-18944
Author(s):  
Jia-Hong Lei ◽  
Ling-Ling Ma ◽  
Jing-Hong Xian ◽  
Hai Chen ◽  
Jian-Jian Zhou ◽  
...  

Crystal structures of tubulin complexed with ELR510444 and parbendazole facilitate the design of novel colchicine binding site inhibitors.


2001 ◽  
Vol 313 (1) ◽  
pp. 139-150 ◽  
Author(s):  
Colin E McVey ◽  
Martin A Walsh ◽  
G.Guy Dodson ◽  
Keith S Wilson ◽  
James A Brannigan

2019 ◽  
Author(s):  
Xiaomin Ni ◽  
David Heidenreich ◽  
Thomas Christott ◽  
James Bennett ◽  
Moses Moustakim ◽  
...  

ABSTRACTYEATS-domain-containing MLLT1 is an acetyl/acyl-lysine reader domain, which is structurally distinct from well-studied bromodomains and has been strongly associated in development of cancer. Here, we characterized piperazine-urea derivatives as an acetyl/acyl-lysine mimetic moiety for MLLT1. Crystal structures revealed distinct interaction mechanisms of this chemotype compared to the recently described benzimidazole-amide based inhibitors, exploiting different binding pockets within the protein. Thus, the piperazine-urea scaffold offers an alternative strategy for targeting the YEATS domain family.


2021 ◽  
Vol 7 (11) ◽  
pp. 897
Author(s):  
Danyon O. Graham ◽  
Rajni K. Wilson ◽  
Yasmeen N. Ruma ◽  
Mikhail V. Keniya ◽  
Joel D. A. Tyndall ◽  
...  

Target-based azole resistance in Candida albicans involves overexpression of the ERG11 gene encoding lanosterol 14α-demethylase (LDM), and/or the presence of single or multiple mutations in this enzyme. Overexpression of Candida albicans LDM (CaLDM) Y132H I471T by the Darlington strain strongly increased resistance to the short-tailed azoles fluconazole and voriconazole, and weakly increased resistance to the longer-tailed azoles VT-1161, itraconazole and posaconazole. We have used, as surrogates, structurally aligned mutations in recombinant hexahistidine-tagged full-length Saccharomyces cerevisiae LDM6×His (ScLDM6×His) to elucidate how differential susceptibility to azole drugs is conferred by LDM of the C. albicans Darlington strain. The mutations Y140H and I471T were introduced, either alone or in combination, into ScLDM6×His via overexpression of the recombinant enzyme from the PDR5 locus of an azole hypersensitive strain of S. cerevisiae. Phenotypes and high-resolution X-ray crystal structures were determined for the surrogate enzymes in complex with representative short-tailed (voriconazole) and long-tailed (itraconazole) triazoles. The preferential high-level resistance to short-tailed azoles conferred by the ScLDM Y140H I471T mutant required both mutations, despite the I471T mutation conferring only a slight increase in resistance. Crystal structures did not detect changes in the position/tilt of the heme co-factor of wild-type ScLDM, I471T and Y140H single mutants, or the Y140H I471T double-mutant. The mutant threonine sidechain in the Darlington strain CaLDM perturbs the environment of the neighboring C-helix, affects the electronic environment of the heme, and may, via differences in closure of the neck of the substrate entry channel, increase preferential competition between lanosterol and short-tailed azole drugs.


2014 ◽  
Vol 70 (a1) ◽  
pp. C1166-C1166
Author(s):  
Jason Brouwer ◽  
Adeline Robin ◽  
Geoff Thompson ◽  
Ahmad Wardak ◽  
Ruth Kluck ◽  
...  

Apoptotic stimuli activate and oligomerise the pro-apoptotic proteins Bak and Bax resulting in mitochondrial outer membrane permeabilisation and subsequent cell death. This activation can occur when certain BH3-only proteins directly interact with Bak and Bax. A recent crystal structure by Czabotar et al. (2013) revealed a novel conformational change for Bax upon activation by BH3-only peptides. Distinguishing characteristics of BH3-only proteins capable of directly activating Bax were also elucidated. Here we describe complementary studies on the related protein Bak. We identify specific BH3-only peptides capable of inducing Bak dimerisation and describe crystal structures that provide key insights into Bak activation and oligomerisation. These structures demonstrate that Bak undergoes similar conformational changes upon activation to those observed with Bax. Altogether our results confirm an analogous mechanism for activation and dimerization of Bak and Bax in response to BH3-only peptides.


RSC Advances ◽  
2019 ◽  
Vol 9 (38) ◽  
pp. 21637-21645 ◽  
Author(s):  
Darko Vušak ◽  
Neven Smrečki ◽  
Biserka Prugovečki ◽  
Ivica Đilović ◽  
Inka Kirasić ◽  
...  

We report the crystal structures and magnetic properties of nine mononuclear complexes and one 1D coordination polymer containing CuII/CuI ions.


2013 ◽  
Vol 288 (12) ◽  
pp. 8209-8221 ◽  
Author(s):  
Frederick C. Streich ◽  
Virginia P. Ronchi ◽  
J. Patrick Connick ◽  
Arthur L. Haas

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