理工学部 物質生命理工学科

Kondo Jiro

  (近藤 次郎)

Profile Information

Affiliation
Professor, Faculty of Science and Technology, Department of Materials and Life Sciences, Sophia University
Degree
学士(工学)(Mar, 1999, 立命館大学)
修士(理学)(Mar, 2001, 東京工業大学)
博士(理学)(Mar, 2004, 東京工業大学)

Researcher number
10546576
J-GLOBAL ID
200901072722483790
researchmap Member ID
6000003115

External link

2001-2004: Tokyo Institute of Technology (Ph.D course)
"Structural studies of repetitive DNA sequences in the human genome"

2004-2010: Universite de Strasbourg (Postdoctoral researcher)
"Structural studies of the ribosomal RNA molecular switches"

2010-Present: Sophia University (Assistant Professor)
"Motion picture crystallography of DNA/RNA molecular switches"

(Subject of research)
Structural studies on antibiotic-resistance mechanisms and their application to drug design
DNAを利用する重金属イオン除去膜、導電性ワイヤーの開発研究―構造、物性、応用
分子・励起分子・イオンの電子構造と反応・ダイナミックスの解明
ナンセンス突然変異型遺伝病に対するリードスルー治療薬のStructure-Based Design
「顧みられない熱帯病(NTDs)」治療を目的とした新規アミノグリコシド系抗原虫薬のStructure-Based Design
ナンセンス変異型遺伝性疾患への抗生物質の薬理メカニズムの解明と新規治療薬の開発
「顧みられない熱帯病」をターゲットとした新規フッ素化アミノグリコシド薬剤のStructure-Base Design
DNA-金属ハイブリッドナノワイヤー・ナノケージのStructure-Base Design
孵化酵素-基質複合体の3次元構造の解明
インフルエンザウイルスゲノムRNAの構造学的研究と新規インフルエンザ治療薬の開発
DNA二重鎖中で無限に金属イオンが連続する超分子錯体:精密合成・結晶構造・物性
DNAものづくりプラットフォームによるDNA医薬品の開発
放射光X線結晶解析とクライオ電子顕微鏡を融合した構造生物模倣科学の開拓
貴金属とDNAを融合させたバイオ・ナノデバイスのStructure-Based Design


Papers

 106
  • Vanessa Rück, Vlad A. Neacșu, Mikkel B. Liisberg, Christian B. Mollerup, Park Hee Ju, Tom Vosch, Jiro Kondo, Cecilia Cerretani
    Advanced Optical Materials, 12(7) 2301928, Mar 5, 2024  Peer-reviewedCorresponding author
    Abstract The combination of mass spectrometry and single crystal X‐ray diffraction of HPLC‐purified DNA‐stabilized silver nanoclusters (DNA‐AgNCs) is a powerful tool to determine the charge and structure of the encapsulated AgNC. Such information is not only relevant to design new DNA‐AgNCs with tailored properties, but it is also important for bio‐conjugation experiments and is essential for electronic structure calculations. Here, the efforts to determine the structure of a HPLC‐purified green emissive DNA‐AgNC are presented. Unfortunately, the original DNA‐AgNC, known to have four valence electrons, could not be crystallized. By modifying the stabilizing DNA sequence, while maintaining the original spectroscopic properties, several mutants could be successfully crystallized, and for one of them, single crystal X‐ray diffraction data provided insight into the silver positions. While the DNA conformation is not resolved, the described approach provides valuable insight into the class of green and dual emissive DNA‐AgNCs with four valence electrons. These results constitute a roadmap on how to improve crystallization and crystal quality for X‐ray diffraction measurements.
  • 近藤次郎
    実験医学増刊号, 42(2) 129-135, 2024  InvitedLead authorCorresponding author
  • Anna Gonzàlez-Rosell, Sami Malola, Rweetuparna Guha, Nery R. Arevalos, María Francisca Matus, Meghen E. Goule, Esa Haapaniemi, Benjamin B. Katz, Tom Vosch, Jiro Kondo, Hannu Häkkinen, Stacy M. Cop
    Journal of the American Chemical Society, May, 2023  Peer-reviewed
  • Hidetaka Torigoe, Jiro Kondo, Fumihiro Arakawa
    Journal of Inorganic Biochemistry, 241 112125-112125, Apr, 2023  Peer-reviewed
  • Jiro Kondo, Shota Nakamura
    Journal of Chemical Education, 100(2) 946-954, Jan 26, 2023  Peer-reviewedLead authorCorresponding author

Misc.

 8

Books and Other Publications

 10

Presentations

 135

Research Projects

 30

Social Activities

 4