論文
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Kenji Usui, Tetsunori Ojima, Kin-Ya Tomizaki, Hisakazu Mihara
Nanobiotechnology 1 ( 2 ) 191 - 199 2005年11月
For the realization of a practical high-throughput protein detection and analysis system, a novel peptide array has been constructed using a designed glycopeptide model library with an α-helical secondary structure. This study will contribute the increment of the diversity of such an array system and the application to focused proteomics and ligand screening by effective detection of sugar-binding proteins. Fluorescent glycopeptides with an α-helix, a β-strand, or a loop structure were designed initially to select a suitable scaffold for the detection of a model protein. After selection of the α-helical structure as the best scaffold, a small model library with various saccharides was constructed to have charge and hydrophobicity variations in the peptide sequences. When various sugar-binding proteins were added to the peptide library array, the fluorescent peptides showed different responses in fluorescence intensities depending on their sequences as well as saccharides. The patterns of these responses could be regarded as "protein fingerprints" (PFPs), which are able to establish the identities of the target proteins. The resulting PFPs reflected the recognition properties of the proteins. Furthermore, statistical data analysis from obtained PFPs was performed using a cluster analysis. The PFPs of sugar-binding proteins were clustered successfully depending on their families and binding properties. These studies demonstrate that arrays with glycopeptide libraries based on designed structures can be promising tools to detect and analyze the target proteins. Designed peptides with functional groups such as sugars will play roles as the capturing agents of high-throughput protein nano/micro arrays for focused proteomics and ligand screening studies. Copyright © 2005 Humana Press Inc. All rights of any nature whatsoever are reserved.
DOI： 10.1385/NBT:1:2:191
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Difference in self-assembling morphology of peptide nanorings 査読あり
H Okamoto, T Yamada, H Miyazaki, T Nakanishi, K Takeda, K Usui, Obataya, I, H Mihara, H Azehara, W Mizutani, K Hashimoto, H Yamaguchi, Y Hirayama
JAPANESE JOURNAL OF APPLIED PHYSICS PART 1-REGULAR PAPERS BRIEF COMMUNICATIONS & REVIEW PAPERS 44 ( 11 ) 8240 - 8248 2005年11月
出版者・発行元：JAPAN SOC APPLIED PHYSICS
We synthesized the peptide nanorings of cyclo[-(D-Ala-L-Gln)(3)], cyclo[-(D-CyS-L-Gln)(3)], CyC10[-D-Cys-L-HiS-D-Ala-L-Asn-Gly-L-Gln-1 and Cyc1o[-(L-Gln)(5)], and studied the way in which the difference in the type and/or number of component amino acid residues changes the self-assembling morphology of the nanorings on gold substrates by atomic force microscopy. The study revealed that CyClo[-(D-Ala-L-Gln)(3)] formed nanotube bundles through inter-ring hydrogen bonds, while the nanorings of CyC10[-(D-CyS-L-Gln)3] adhered to the gold surface directly due to the high affinity of thiol to gold. In contrast, a random amino acid sequence of cyclo[-D-CyS-L-HiS-D-Ala-L-Asn-GlY-L-Gln-] resulted in many isolated nanotubes, which were first observed in the present study. While the D,L-peptide nanotubes have very straight forms, the homo-L-peptide of cyclo[-(L-Gln)(5)] formed interesting randomly branching nanotubes that were entwined and grew on the substrate. Scanning tunneling microscopy was also performed and high-resolution images of both the peptide nanotubes and the nanotube bundles were obtained.
DOI： 10.1143/JJAP.44.8240
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IR study on stacking manner of peptide nanorings in peptide nanotubes 査読あり
Y Nagai, T Nakanishi, H Okamoto, K Takeda, Y Furukawa, K Usui, H Mihara
JAPANESE JOURNAL OF APPLIED PHYSICS PART 1-REGULAR PAPERS BRIEF COMMUNICATIONS & REVIEW PAPERS 44 ( 10 ) 7654 - 7661 2005年10月
出版者・発行元：JAPAN SOC APPLIED PHYSICS
We here report our theoretical as well as experimental studies on the stacking manner of peptide nanorings (PNRs) in peptide nanotubes (PNTs). We focus on the molecular vibrations of N-H and C=O stretching modes and discuss this subject via their infrared (IR) spectroscopy, because PNTs are formed by the inter-ring H bonds between the adjacent PNRs via -N-H(...)O=C-. Symmetry analysis based on group theory reveals that parallel stacking causes two IR active modes in these molecular vibrations while three modes are active in the antiparallel stacking. This difference in the number of IR active modes is determined only by the stacking manner and not by the number of amino acid residues composing the PNRs. By using two typical PNRs Of cyclo[-((L)-Gln-D-Ala)(3)] and cyclo[-((L)-Gln-(D)-Ala)(4)], we further studied the favorable stacking manners of PNRs via IR observation. Our IR experiments as well as the ab initio energetics show that the former PNRs create a PNT by stacking themselves in parallel while the latter PNRs do so by stacking themselves in an antiparallel manner.
DOI： 10.1143/JJAP.44.7654
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Specific recognition of the basic N peptide by an RNA（共著）
J. Kawakami, H. Tokitoh, Y. Tanabe, and N. Sugimoto
Nucleic Acids Symposium Series 49 353 - 354 2005年9月
共著
担当区分：筆頭著者
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Central dogma for a molecular design based on DNA: DNB (databasing/designable nanobio) -> ENB (engineering nanobio) -> FNB (functional nanobio) 査読あり
S. Nakano and N. Sugimoto
Chemistry Letters 34 1206 - 1211 2005年7月
単著
DOI： 10.1246/cl.2005.1206
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Protein-Detecting Microarrays: Current Accomplishments and Requirements 査読あり
Kin-ya Tomizaki, Kenji Usui, Hisakazu Mihara
ChemBioChem 6 ( 6 ) 782 - 799 2005年5月
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Studies on Fluorescent Dyes and Surface Chemistry focusing on Practical Peptide Array Preparation 査読あり
NOKIHARA Kiyoshi, USUI Kenji, YONEMURA Koichi, OHYAMA Takafumi, OKA Yasuo, TOMIZAKI Kin‐ya, MIHARA Hisakazu
Pept Sci 2004 145 - 148 2005年3月
共著
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Tyrosine phosphorylation of adaptor protein 3BP2 induces T cell receptor-mediated activation of transcription factor.
Qu X, Kawauchi-Kamata K, Miah SM, Hatani T, Yamamura H, Sada K
Biochemistry 44 ( 10 ) 3891 - 3898 2005年3月
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Thermodynamic analysis of duplex formation of the heterochiral DNA with L-deoxyadenosine（共著） 査読あり
J. Kawakami, K. Tsujita, and N. Sugimoto
Analytical Sciences 21 ( 2 ) 77 - 82 2005年2月
共著
担当区分：筆頭著者
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Site-selective RNA cleavage by DNA bearing a base pair-mimic nucleoside 査読あり
S. Nakano, Y. Uotani, K. Uenishi, M. Fujii, and N. Sugimoto
J. Am. Chem. Soc. 127 518 - 519 2005年1月
単著
DOI： 10.1021/ja045445s
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Nucleic acid with guanidinium modification exhibits efficient cellular uptake.
西方敬人
Angew. Chem. Int. Ed. Engl ( 44 ) 6682 - 6685 2005年
単著
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Site-Selective Deposition of Gold on Glass Substrates Using Monolayer-Protected Gold Nanoparticles
K. Akamatsu, H. Terahata, J. Hasegawa, H. Nawafune
J. Surf, Finish, Soc. Jpn 56 427 - 428 2005年
共著
（学術雑誌、2005）56, 427-428
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Fabrication and Structural Control of Fe/Ti Oxide Thin Films with Graded Compositional Profiles by Liquid Phase Deposition
S. Deki, S. Iizuka, K. Akamatsu, M. Mizuhata and A. Kajinami
J. Ame. Ceram. Soc. 88 731 - 736 2005年
共著
（学術雑誌、2005) 88, 731-736
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Selective Electroless Copper Deposition on Aluminum Nitride Substrate with Patterned Copper Seed Layer
H. Yanagimoto, S. Deki, K. Akamatsu, and K. Gotoh
Thin Solid Films 491 18 - 22 2005年
共著
（学術雑誌、2005) 491, 18-22
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A novel fabrication technique for interacting ferromagnetic-metal nanoparticle systems:fine-tuning of particle dimeter and interparticle spacing
S. Tomita, K. Akamatsu, H. Shinkai, S. Ikeda, H. Nawafune, C. Mitsumata, T. Kashiwagi, M. Hagiwara
Mater. Res. Soc. Proceedings 853E I5.10.1 - I5.10.6 2005年
共著
（学術雑誌、2005） 853E. I5.10.1-I5.10.6
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Site-Selective Deposition of Gold on Glass Substrates Using Monolayer-Protected Gold Nanoparticles
K. Akamatsu, H. Terahata, J. Hasegawa, H. Nawafune
J. Surf. Finish. Soc. Jpn 56 427 - 428 2005年
共著
（学術雑誌、2005）56. 427-428
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Band Gap Engineering of CdTe nanocrystals Through Chemical Surface Modification
K. Akamatsu, T. Tsuruoka, H. Nawafune
J. Am. Chem. Soc. 127 1634 - 1635 2005年
共著
（学術雑誌、2005） 127. 1634-1635
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Stereocontrolled Synthesis and Optical Properties of All-cis Poly(phenylene vinylene)s (PPVs): A Method for Direct Patterning of PPVs
H. Katayama, M. Nagao, T. Nishimura, Y. Matsui, K. Umeda, K. Akamatsu, T. Tsuruoka, H. Nawafune, F. Ozawa
J. Am. Chem. Soc. 127 4350 - 4353 2005年
共著
（学術雑誌、2005） 127. 4350-4353
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An SPR Sensor Chip for Sensitive Detection of Small Molecules Using Molecularly Imprinted Polymer with Embedded Gold Nanoparticle
J. Matsui, K. Akamatsu, N. Hara, D. Miyoshi, H. Nawafune, K. Tamaki, N. Sugimoto
Anal. Chem. 77 4282 - 4285 2005年
共著
（学術雑誌、2005） 77. 4282-4285
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Controlling Interparticle Spacing Among Metal Nanoparticles Through Metal-Catalyzed Decomposition of Surrounding Polymer Matrix
K. Akamatsu, H. Shinkai, S. Ikeda, S. Adachi, H. Nawafune, S. Tomita
J. Am. Chem. Soc. 127 7980 - 7981 2005年
共著
（学術雑誌、2005） 127. 7980-7981