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Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: Dark state structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, RETINAL, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2020-05-28
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.3 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7E6Z

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 50 microsecond structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2021-02-24
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7E6Y

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 microsecond structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2021-02-24
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7E6X

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 4 ms structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2021-02-24
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7E71

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 1 ms structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2021-02-24
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7E70

Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin: 250 microsecond structure
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, Archaeal-type opsin 1,Archaeal-type opsin 2, ...
著者	Oda, K, Nomura, T, Nakane, T, Yamashita, K, Inoue, K, Ito, S, Vierock, J, Hirata, K, Maturana, A.D, Katayama, K, Ikuta, T, Ishigami, I, Izume, T, Umeda, R, Eguma, R, Oishi, S, Kasuya, G, Kato, T, Kusakizako, T, Shihoya, W, Shimada, H, Takatsuji, T, Takemoto, M, Taniguchi, R, Tomita, A, Nakamura, R, Fukuda, M, Miyauchi, H, Lee, Y, Nango, E, Tanaka, R, Tanaka, T, Sugahara, M, Kimura, T, Shimamura, T, Fujiwara, T, Yamanaka, Y, Owada, S, Joti, Y, Tono, K, Ishitani, R, Hayashi, S, Kandori, H, Hegemann, P, Iwata, S, Kubo, M, Nishizawa, T, Nureki, O.
登録日	2021-02-24
公開日	2021-04-07
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Time-resolved serial femtosecond crystallography reveals early structural changes in channelrhodopsin. Elife, 10, 2021

7CCS

Consensus mutated xCT-CD98hc complex
分子名称:	4F2 cell-surface antigen heavy chain, Consensus mutated Anionic Amino Acid Transporter Light Chain, Xc- System
著者	Oda, K, Lee, Y, Takemoto, M, Yamashita, K, Nishizawa, T, Nureki, O.
登録日	2020-06-17
公開日	2020-12-09
最終更新日	2020-12-16
実験手法	ELECTRON MICROSCOPY (6.2 Å)
主引用文献	Consensus mutagenesis approach improves the thermal stability of system x c - transporter, xCT, and enables cryo-EM analyses. Protein Sci., 29, 2020

8IUS

Crystal structure of Manganese-free N(omega)-hydroxy-L-arginine hydrolase with reduced Cys86
分子名称:	MAGNESIUM ION, MANGANESE (II) ION, N(omega)-hydroxy-L-arginine amidinohydrolase
著者	Oda, K, Matoba, Y.
登録日	2023-03-25
公開日	2024-03-27
実験手法	X-RAY DIFFRACTION (2.14 Å)
主引用文献	Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd To Be Published

8IUW

Crystal structure of Copper-bound N(omega)-hydroxy-L-arginine hydrolase with oxidized Cys86
分子名称:	COPPER (I) ION, COPPER (II) ION, MAGNESIUM ION, ...
著者	Oda, K, Matoba, Y.
登録日	2023-03-25
公開日	2024-03-27
実験手法	X-RAY DIFFRACTION (1.5 Å)
主引用文献	Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd To Be Published

8IUT

Crystal structure of Copper-bound N(omega)-hydroxy-L-arginine hydrolase with reduced Cys86
分子名称:	COPPER (I) ION, COPPER (II) ION, MAGNESIUM ION, ...
著者	Oda, K, Matoba, Y.
登録日	2023-03-25
公開日	2024-03-27
実験手法	X-RAY DIFFRACTION (1.58 Å)
主引用文献	Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd To Be Published

8IUU

Crystal structure of Manganese-rebound N(omega)-hydroxy-L-arginine hydrolase with oxidized Cys86
分子名称:	MAGNESIUM ION, MANGANESE (II) ION, N(omega)-hydroxy-L-arginine amidinohydrolase
著者	Oda, K, Matoba, Y.
登録日	2023-03-25
公開日	2024-03-27
実験手法	X-RAY DIFFRACTION (1.26 Å)
主引用文献	Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd To Be Published

8IUV

Crystal structure of Manganese-free N(omega)-hydroxy-L-arginine hydrolase with oxidized Cys86
分子名称:	MAGNESIUM ION, MANGANESE (II) ION, N(omega)-hydroxy-L-arginine amidinohydrolase
著者	Oda, K, Matoba, Y.
登録日	2023-03-25
公開日	2024-03-27
実験手法	X-RAY DIFFRACTION (1.75 Å)
主引用文献	Copper inactivates DcsB by oxidation of the Cys86 to cysteine sulfinic aicd To Be Published

7VDY

Crystal structure of O-ureidoserine racemase
分子名称:	O-ureido-serine racemase, SULFATE ION
著者	Oda, K, Matoba, Y.
登録日	2021-09-07
公開日	2021-12-15
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (2.12 Å)
主引用文献	Crystal structure of O-ureidoserine racemase found in the d-cycloserine biosynthetic pathway. Proteins, 90, 2022

5ZIH

Crystal structure of the red light-activated channelrhodopsin Chrimson.
分子名称:	(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Sensory opsin A,Chrimson
著者	Oda, K, Vierock, J, Oishi, S, Taniguchi, R, Yamashita, K, Nishizawa, T, Hegemann, P, Nureki, O.
登録日	2018-03-15
公開日	2018-11-21
最終更新日	2023-11-22
実験手法	X-RAY DIFFRACTION (2.6 Å)
主引用文献	Crystal structure of the red light-activated channelrhodopsin Chrimson. Nat Commun, 9, 2018

2ZW7

Crystal structure of bleomycin N-acetyltransferase complexed with bleomycin A2 and coenzyme A
分子名称:	BLEOMYCIN A2, Bleomycin acetyltransferase, COENZYME A
著者	Oda, K, Matoba, Y, Sugiyama, M.
登録日	2008-12-01
公開日	2009-11-03
最終更新日	2023-11-15
実験手法	X-RAY DIFFRACTION (2.8 Å)
主引用文献	Catalytic mechanism of bleomycin N-acetyltransferase proposed on the basis of its crystal structure. J.Biol.Chem., 285, 2010

2ZW5

Crystal structure of bleomycin N-acetyltransferase complexed with coenzyme A in the trigonal crystal
分子名称:	Bleomycin acetyltransferase, COENZYME A
著者	Oda, K, Matoba, Y, Sugiyama, M.
登録日	2008-12-01
公開日	2009-11-03
最終更新日	2023-11-01
実験手法	X-RAY DIFFRACTION (2.4 Å)
主引用文献	Catalytic mechanism of bleomycin N-acetyltransferase proposed on the basis of its crystal structure. J.Biol.Chem., 285, 2010

2ZW6

Crystal structure of bleomycin N-acetyltransferase from bleomycin-producing Streptomyces verticillus ATCC15003
分子名称:	Bleomycin acetyltransferase, SULFATE ION
著者	Oda, K, Matoba, Y, Sugiyama, M.
登録日	2008-12-01
公開日	2009-11-03
最終更新日	2023-11-01
実験手法	X-RAY DIFFRACTION (2.5 Å)
主引用文献	Catalytic mechanism of bleomycin N-acetyltransferase proposed on the basis of its crystal structure. J.Biol.Chem., 285, 2010

2ZW4

Crystal structure of bleomycin N-acetyltransferase complexed with coenzyme A in the orthorhombic crystal
分子名称:	Bleomycin acetyltransferase, COENZYME A, SULFATE ION
著者	Oda, K, Matoba, Y, Sugiyama, M.
登録日	2008-12-01
公開日	2009-11-03
最終更新日	2011-07-13
実験手法	X-RAY DIFFRACTION (2.7 Å)
主引用文献	Catalytic mechanism of bleomycin N-acetyltransferase proposed on the basis of its crystal structure. J.Biol.Chem., 285, 2010

7EUL

Crystal structure of C86H-H196S mutant of N(omega)-hydroxy-L-arginine hydrolase
分子名称:	MAGNESIUM ION, MANGANESE (II) ION, N(omega)-hydroxy-L-arginine amidinohydrolase
著者	Oda, K, Matoba, Y.
登録日	2021-05-18
公開日	2022-05-18
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (1.45 Å)
主引用文献	Catalytic mechanism of DcsB: Arginase framework used for hydrolyzing its inhibitor. Protein Sci., 31, 2022

7EUQ

Crystal structure of C86H-Y124N-G126H-H196S mutant of N(omega)-hydroxy-L-arginine hydrolase
分子名称:	MAGNESIUM ION, MANGANESE (II) ION, N(omega)-hydroxy-L-arginine amidinohydrolase
著者	Oda, K, Matoba, Y.
登録日	2021-05-18
公開日	2022-05-18
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (1.8 Å)
主引用文献	Catalytic mechanism of DcsB: Arginase framework used for hydrolyzing its inhibitor. Protein Sci., 31, 2022

7EUK

Crystal structure of N(omega)-hydroxy-L-arginine hydrolase in complex with L-Orn
分子名称:	L-ornithine, MAGNESIUM ION, MANGANESE (II) ION, ...
著者	Oda, K, Matoba, Y.
登録日	2021-05-18
公開日	2022-05-18
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (1.4 Å)
主引用文献	Catalytic mechanism of DcsB: Arginase framework used for hydrolyzing its inhibitor. Protein Sci., 31, 2022

7EUN

Crystal structure of N(omega)-hydroxy-L-arginine hydrolase in complex with ABH
分子名称:	2(S)-AMINO-6-BORONOHEXANOIC ACID, MAGNESIUM ION, MANGANESE (II) ION, ...
著者	Oda, K, Matoba, Y.
登録日	2021-05-18
公開日	2022-05-18
最終更新日	2023-11-29
実験手法	X-RAY DIFFRACTION (1.28 Å)
主引用文献	Catalytic mechanism of DcsB: Arginase framework used for hydrolyzing its inhibitor. Protein Sci., 31, 2022

3VVL

Crystal structure of L-serine-O-acetyltransferase found in D-cycloserine biosynthetic pathway
分子名称:	Homoserine O-acetyltransferase
著者	Oda, K, Matoba, Y, Kumagai, T, Noda, M, Sugiyama, M.
登録日	2012-07-26
公開日	2013-03-20
最終更新日	2023-11-08
実験手法	X-RAY DIFFRACTION (1.81 Å)
主引用文献	Crystallographic study to determine the substrate specificity of an L-serine-acetylating enzyme found in the D-cycloserine biosynthetic pathway J.Bacteriol., 195, 2013

3VVM

Crystal structure of G52A-P55G mutant of L-serine-O-acetyltransferase found in D-cycloserine biosynthetic pathway
分子名称:	Homoserine O-acetyltransferase
著者	Oda, K, Matoba, Y, Kumagai, T, Noda, M, Sugiyama, M.
登録日	2012-07-26
公開日	2013-03-20
最終更新日	2023-11-08
実験手法	X-RAY DIFFRACTION (1.7 Å)
主引用文献	Crystallographic study to determine the substrate specificity of an L-serine-acetylating enzyme found in the D-cycloserine biosynthetic pathway J.Bacteriol., 195, 2013

3WWT

Crystal Structure of the Y3:STAT1ND complex
分子名称:	C' protein, CALCIUM ION, Signal transducer and activator of transcription 1-alpha/beta
著者	Oda, K, Sakaguchi, T, Matoba, Y.
登録日	2014-06-27
公開日	2015-07-01
最終更新日	2023-11-08
実験手法	X-RAY DIFFRACTION (2 Å)
主引用文献	Structural Basis of the Inhibition of STAT1 Activity by Sendai Virus C Protein. J.Virol., 89, 2015

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