New NMR data analysis and signal processing methods for in-cell NMR
Project/Area Number |
24770101
|
Research Category |
Grant-in-Aid for Young Scientists (B)
|
Allocation Type | Multi-year Fund |
Research Field |
Structural biochemistry
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Research Institution | Tokyo Metropolitan University |
Principal Investigator |
IKEYA Teppei 首都大学東京, 理工学研究科, 助教 (30457840)
|
Co-Investigator(Renkei-kenkyūsha) |
ITO Yutaka 首都大学東京, 理工学研究科, 教授 (80261147)
GUENTERT Peter 首都大学東京, 理工学研究科, 客員教授 (20392110)
|
Project Period (FY) |
2012-04-01 – 2015-03-31
|
Project Status |
Completed (Fiscal Year 2014)
|
Budget Amount *help |
¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2014: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2013: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2012: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
|
Keywords | In-cell NMR / 蛋白質立体構造計算 / pseudocontact shift / Maximum Entropy / in-cell NMR / proteins / structure calculation |
Outline of Final Research Achievements |
In this project, we developed new NMR protein structure calculation and signal processing methods specifically for in-cell NMR. In the signal processing, Quantitative Maximum Entropy (QME) that we recently developed dramatically improved in-cell NMR spectra, and achieved recording the first 3D NOESY spectra in an Eukaryotic cell (Sf9 cell). In the NMR structure calculation, we succeeded to implement a new structure calculation method based on Bayesian inference, which notably improved in-cell NMR structures. Furthermore, we succeeded to implement into CYANA a function to iteratively analyse PseudoContact Shift (PCS) data with structure calculation. These new methods will contribute to extend in-cell NMR structure determination to generalized technique.
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Report
(4 results)
Research Products
(57 results)
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[Journal Article] Evaluation of the reliability of the maximum entropy method for reconstructing 3D and 4D NOESY-type NMR spectra of proteins.2015
Author(s)
Shigemitsu, Y., Ikeya, T., Yamamoto, A., Tsuchie, Y., Mishima, M., Smith, B. O., Guentert, P. & Ito, Y.
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Journal Title
Biochem. Biophys. Res. Commun.
Volume: 457
Issue: 2
Pages: 200-205
DOI
Related Report
Peer Reviewed / Acknowledgement Compliant
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[Journal Article] Automated resonance assignment of the 21 kDa stereo-array isotope labeled thioldisulfide oxidoreductase DsbA.2014
Author(s)
Schmidt, E., Ikeya, T., Takeda, M., Loehr, F., Buchner, L., Ito, Y., Kainosho, M., Guentert, P.
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Journal Title
J. Magn. Reson.
Volume: 249
Pages: 88-93
DOI
Related Report
Peer Reviewed / Acknowledgement Compliant
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[Journal Article] An in-cell NMR study of monitoring stress-induced increase of cytosolic Ca2+ concentration in HeLa cells2013
Author(s)
Dambarudhar Shiba Sankar Hembrama, Takahiro Haremakia, Jumpei Hamatsua, Jin Inouea, Hajime Kamoshidaa, Teppei Ikeyaa, Masaki Mishimaa, Tsutomu Mikawab, Nobuhiro Hayashic, Masahiro Shirakawad, Yutaka Ito
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Journal Title
Biochem Biophys Res Commun
Volume: 438
Issue: 4
Pages: 653-659
DOI
Related Report
Peer Reviewed / Open Access / Acknowledgement Compliant
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[Journal Article] High-resolution heteronuclear multidimensional NMR of proteins living insect cells using a baculovirus protein expression system ≪2013
Author(s)
Jumpei Hamatsu, Daniel O'Donovan, Takashi Tanaka, Takahiro Shirai, Yuichiro Hourai, Tsutomu Mikawa, Teppei Ikeya, Masaki Mishima, Wayne Boucher, Brian O. Smith, Ernest D. Laue, Masahiro Shirakawa, Yutaka Ito 4
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Journal Title
Journal of the American Chemical Society
Volume: 135
Issue: 5
Pages: 1688-1691
DOI
Related Report
Peer Reviewed
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