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Tomoshi Kameda
National Institute of Advanced Industrial Science and Technology
82Publications
14H-index
576Citations
Publications 82
Newest
#1Kiyoto Kamagata (Tohoku University)H-Index: 12
#2Eriko Mano (Tohoku University)H-Index: 1
Last.Tomoshi Kameda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 14
view all 9 authors...
Intrinsically disordered regions (IDRs) of proteins are involved in many diseases. The rational drug design against disease-mediating proteins is often based on the 3D structure; however, the flexible structure of IDRs hinders the use of such structure-based design methods. Here, we developed a rational design method to obtain a peptide that can bind an IDR using only sequence information based on the statistical contact energy of amino acid pairs. We applied the method to the disordered C-termi...
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#1Suguru Nishinami (University of Tsukuba)H-Index: 2
#2Tomoshi Kameda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 14
Last.Kentaro Shiraki (University of Tsukuba)H-Index: 28
view all 4 authors...
Therapeutic antibodies for subcutaneous (SC) injection must be formulated at high concentrations because of the large therapeutic dose and volume restriction. However, concentrated antibody solutions have undesirably high viscosity, which hampers SC injection. In this study, we demonstrated that hydantoin and its derivatives suppressed the viscosity of concentrated antibody and bovine serum albumin solutions. Hydantoin derivatives, in particular 1-methylhydantoin, appeared more effective. Both h...
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#1Tomohiko Matsuzawa (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 11
#2Masahiro Watanabe (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 67
Last.Katsuro Yaoi (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 21
view all 5 authors...
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#1Yutaka Saito (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 7
#2Wataru Kitagawa (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 12
Last.Tomoshi Kameda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 14
view all 9 authors...
Codon optimization by synonymous substitution is widely used for recombinant protein expression. Recent studies have investigated sequence features for codon optimization based on large-scale expression analyses. However, these studies have been limited to common host organisms such as Escherichia coli. Here, we develop a codon optimization method for Rhodococcus erythropolis, a gram-positive GC-rich actinobacterium attracting attention as an alternative host organism. We evaluate the recombinan...
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#1Atsushi Hirano (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 17
#2Kazuki Iwashita (University of Tsukuba)H-Index: 5
Last.Tomoshi Kameda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 14
view all 7 authors...
Abstract Salt solutions are widely used as eluents for ion-exchange chromatography. In general, salts reduce the retention of applied solutes on ion-exchange columns via electrostatic screening effects. The reverse phenomenon, namely, salt-enhanced retention, has not been reported. Here, we report that cations, including arginine, guanidine and sodium ions, enhance the retention of uncharged aromatic solutes on a cation-exchange resin, i.e., a negatively charged resin, with carboxyl groups, wher...
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#1Yuko Shishido (Nagoya University)H-Index: 2
#2Fumiaki Tomoike (Nagoya University)H-Index: 5
Last.Hiroshi Abe (Nagoya University)H-Index: 65
view all 11 authors...
2 CitationsSource
#1Atsushi Hirano (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 17
#2Kentaro Shiraki (University of Tsukuba)H-Index: 28
Last.Tomoshi Kameda (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 14
view all 3 authors...
2 CitationsSource
#1Shun SakurabaH-Index: 9
#2Junichi IwakiriH-Index: 7
Last.Kiyoshi AsaiH-Index: 37
view all 8 authors...
In RNA secondary structure prediction, nearest-neighbor parameters are used to determine the stability of a given structure. We derived the nearest-neighbor parameters for RNAs containing inosine-cytosine pairs. For parameter derivation, we developed a method that combines UV adsorption measurement experiments with free-energy calculations using molecular dynamics simulations. The method provides fast drop-in parameters for modified bases. Derived parameters were compared and found to be consist...
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#1Yutaka Saito (AIST: National Institute of Advanced Industrial Science and Technology)H-Index: 7
#2Misaki Oikawa (Tohoku University)H-Index: 1
Last.Mitsuo Umetsu (Tohoku University)H-Index: 28
view all 7 authors...
Molecular evolution based on mutagenesis is widely used in protein engineering. However, optimal proteins are often difficult to obtain due to a large sequence space. Here, we propose a novel approach that combines molecular evolution with machine learning. In this approach, we conduct two rounds of mutagenesis where an initial library of protein variants is used to train a machine-learning model to guide mutagenesis for the second-round library. This enables us to prepare a small library suited...
7 CitationsSource
#1Yuka Kobayashi (Kyoto University)H-Index: 2
#2Masaru Hoshino (Kyoto University)H-Index: 16
Last.Shinya Oishi (Kyoto University)H-Index: 47
view all 8 authors...
Fe(II)-coordinating hexapeptides containing three 2,2′-bipyridine moieties as side chains were designed and synthesized. A cyclic hexapeptide having three [(2,2′-bipyridin)-5-yl]-d-alanine (d-Bpa5) residues, in which d-Bpa5 and Gly are alternately arranged with 3-fold rotational symmetry, coordinated with Fe(II) to form a 1:1 octahedral Fe(II)–peptide complex with a single facial-Λ configuration of the metal-centered chirality. NMR spectroscopy and molecular dynamics simulations revealed that th...
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