Maho Yagi-Utsumi
Nagoya City University
30Publications
13H-index
546Citations
Publications 30
Newest
Published on Sep 27, 2018in bioRxiv
Mahesh S. Chandak (National Institutes of Natural Sciences, Japan), Maho Yagi-Utsumi13
Estimated H-index: 13
+ 3 AuthorsKunihiro Kuwajima34
Estimated H-index: 34
(University of Tokyo)
The characterization of residual structures persistent in unfolded proteins in concentrated denaturant solution is currently an important issue in studies of protein folding, because the residual structure present, if any, in the unfolded state may form a folding initiation site and guide the subsequent folding reactions. Here, we thus studied the hydrogen/deuterium (H/D)-exchange behavior of unfolded ubiquitin in 6.0 M guanidinium chloride at pH 2.6 and 20°C. We employed a dimethylsulfoxide (DM...
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Published on Oct 1, 2015in Biomolecular Nmr Assignments 0.59
Hirokazu Yagi20
Estimated H-index: 20
(Nagoya City University),
Ying Zhang7
Estimated H-index: 7
(Nagoya City University)
+ 4 AuthorsKoichi Kato52
Estimated H-index: 52
(Nagoya City University)
The Fc portion of immunoglobulin G (IgG) recruits complements and its cognate receptors, thereby promoting defensive mechanisms in the humoral immune system. These effector functions critically depend on N-glycosylation at the Fc region, which is therefore regarded as a crucial factor in the design and production of therapeutic antibodies. NMR spectroscopy plays a unique role in the characterization of conformational dynamics and intermolecular interactions of IgG-Fc in solutions. Here, we repor...
14 Citations Source Cite
Published on Jan 1, 2015in Advances in Experimental Medicine and Biology 1.76
Ying Zhang7
Estimated H-index: 7
(Nagoya City University),
Takumi Yamaguchi15
Estimated H-index: 15
(Nagoya City University)
+ 5 AuthorsKoichi Kato52
Estimated H-index: 52
Oligosaccharides play pivotal roles in physiological and pathological contexts primarily through their interactions with proteins on cell surfaces and in intracellular environments. Although crystallographic approaches provide cumulative information about the atomic details of oligosaccharides complexed with proteins, quantitative characterization of the dynamic conformation of uncomplexed oligosaccharides is essential for better understanding of the energetics of carbohydrate–protein interactio...
10 Citations Source Cite
Published on Jan 1, 2015in Chemical Communications 6.29
Sota Sato31
Estimated H-index: 31
(University of Tokyo),
Ryosuke Takeuchi1
Estimated H-index: 1
(University of Tokyo)
+ 4 AuthorsMakoto Fujita85
Estimated H-index: 85
(University of Tokyo)
The number of molecules constituting 1D intermolecular aggregates of the π-stacked self-assembled complex was controlled by altering the concentration and temperature. Enhanced magnetic orientation was observed for the aggregates with larger aggregation numbers. It was demonstrated that the designable complex aggregates serve as magnetic aligners to induce magnetic alignment upon an analyte protein coexisting in the solution, resulting in the observation of residual dipolar coupling (RDC) of the...
3 Citations Source Cite
Published on Mar 1, 2015in Nature Structural & Molecular Biology 13.33
Yu Kitago10
Estimated H-index: 10
,
Masamichi Nagae12
Estimated H-index: 12
+ 6 AuthorsJunichi Takagi47
Estimated H-index: 47
The neuronal sorting receptor SorLA protects against Alzheimer's disease by binding Aβ peptides. Three new structures of the Vps10p Aβ-binding domain in ligand-free and ligand-bound forms explain the basis of SorLA peptide recognition.
20 Citations Source Cite
Published on Nov 28, 2014in FEBS Letters 3.00
Tadashi Satoh14
Estimated H-index: 14
(Nagoya City University),
Akira Sumiyoshi12
Estimated H-index: 12
(National Presto Industries)
+ 8 AuthorsTakatsugu Hirokawa21
Estimated H-index: 21
(National Institute of Advanced Industrial Science and Technology)
Ataxin-3, which is encoded by a gene that has been associated with Machado–Joseph disease, contains a catalytic N-terminal Josephin domain with deubiquitinase activity. Here, we show that the Josephin domain of ataxin 3 catalyzes endo-type cleavage of Lys48-linked polyubiquitin. Furthermore, NMR data obtained following site-specific paramagnetic spin labeling of Lys48-linked di-ubiquitin revealed that both ubiquitin units interact with the Josephin domain, with the C-terminal Gly76 of the proxim...
8 Citations Source Cite
Published on May 1, 2014in Structure 4.91
Tadashi Satoh14
Estimated H-index: 14
(Nagoya City University),
Yasushi Saeki26
Estimated H-index: 26
+ 8 AuthorsKeiji Tanaka119
Estimated H-index: 119
Summary Proteasome formation does not occur due to spontaneous self-organization but results from a highly ordered process assisted by several assembly chaperones. The assembly of the proteasome ATPase subunits is assisted by four client-specific chaperones, of which three have been structurally resolved. Here, we provide the structural basis for the working mechanisms of the last, hereto structurally uncharacterized assembly chaperone, Nas2. We revealed that Nas2 binds to the Rpt5 subunit in a ...
12 Citations Source Cite
Published on Jan 28, 2014in Biochemistry 3.00
Soichiro Kitazawa4
Estimated H-index: 4
,
Tomoshi Kameda13
Estimated H-index: 13
+ 5 AuthorsRyo Kitahara16
Estimated H-index: 16
We present the nuclear Overhauser effect- based structure determination of the Q41N variant of ubiquitin at 2500 bar, where the alternatively folded N2 state is 97% populated. This allows us to characterize the structure of the "pure" N2 state of ubiquitin. The N2 state shows a substantial change in the orientation of strand β5 compared to that of the normal folded N1 state, which matches the changes seen upon binding of ubiquitin to ubiquitin-activating enzyme E1. The recognition of E1 by ubiqu...
12 Citations Source Cite
Published on Apr 1, 2013in Protein Science 2.41
Mahesh S. Chandak1
Estimated H-index: 1
(Graduate University for Advanced Studies),
Toshio Takenaka1
Estimated H-index: 1
+ 5 AuthorsKunihiro Kuwajima34
Estimated H-index: 34
(Graduate University for Advanced Studies)
Dimethylsulfoxide (DMSO)-quenched hydrogen/deuterium (H/D)-exchange is a powerful method to characterize the H/D-exchange behaviors of proteins and protein assemblies, and it is potentially useful for investigating non-protected fast-exchanging amide protons in the unfolded state. However, the method has not been used for studies on fully unfolded proteins in a concentrated denaturant or protein solutions at high salt concentrations. In all of the current DMSO-quenched H/D-exchange studies of pr...
1 Citations Source Cite
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