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1J3Q
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Crystal structure of Thermococcus litoralis phosphogrucose isomerase soaked with FeSO4
分子名称: FE (III) ION, Phosphoglucose Isomerase
著者Jeong, J.-J, Fushinobu, S, Ito, S, Hidaka, M, Shoun, H, Wakagi, T.
登録日2003-02-11
公開日2004-02-24
最終更新日2023-10-25
実験手法X-RAY DIFFRACTION (1.85 Å)
主引用文献Crystal structure of a novel cupin-type phosphoglucose isomerase
To be Published
4Y61
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BU of 4y61 by Molmil
Crystal structure of the complex between Slitrk2 LRR1 and PTP delta Ig1-Fn1
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, Receptor-type tyrosine-protein phosphatase delta, SLIT and NTRK-like protein 2
著者Yamgata, A, Sato, Y, Goto-Ito, S, Uemura, T, Maeda, A, Shiroshima, T, Yoshida, T, Fukai, S.
登録日2015-02-12
公開日2015-06-03
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (3.358 Å)
主引用文献Structure of Slitrk2-PTP delta complex reveals mechanisms for splicing-dependent trans-synaptic adhesion.
Sci Rep, 5, 2015
5GVC
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BU of 5gvc by Molmil
Human Topoisomerase IIIb topo domain
分子名称: DNA topoisomerase 3-beta-1, MAGNESIUM ION
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.436 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
5H1A
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BU of 5h1a by Molmil
Crystal structure of an IclR homolog from Microbacterium sp. strain HM58-2
分子名称: IclR transcription factor homolog, PHOSPHATE ION
著者Akiyama, T, Yamada, Y, Takaya, N, Ito, S, Sasaki, Y, Yajima, S.
登録日2016-10-08
公開日2017-01-18
最終更新日2024-03-20
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Crystal structure of an IclR homologue from Microbacterium sp. strain HM58-2.
Acta Crystallogr F Struct Biol Commun, 73, 2017
5GVD
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BU of 5gvd by Molmil
Human TDRD3 DUF1767-OB domains
分子名称: 1,2-ETHANEDIOL, MAGNESIUM ION, PHOSPHATE ION, ...
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.623 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
5GVE
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BU of 5gve by Molmil
Human TOP3B-TDRD3 complex
分子名称: DNA topoisomerase 3-beta-1, MAGNESIUM ION, Tudor domain-containing protein 3
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (3.606 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
1WMF
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BU of 1wmf by Molmil
Crystal Structure of alkaline serine protease KP-43 from Bacillus sp. KSM-KP43 (oxidized form, 1.73 angstrom)
分子名称: 1,4-DIETHYLENE DIOXIDE, CALCIUM ION, GLYCEROL, ...
著者Nonaka, T, Fujihashi, M, Kita, A, Saeki, K, Ito, S, Horikoshi, K, Miki, K.
登録日2004-07-08
公開日2004-09-14
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (1.73 Å)
主引用文献The Crystal Structure of an Oxidatively Stable Subtilisin-like Alkaline Serine Protease, KP-43, with a C-terminal {beta}-Barrel Domain
J.Biol.Chem., 279, 2004
1WME
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BU of 1wme by Molmil
Crystal Structure of alkaline serine protease KP-43 from Bacillus sp. KSM-KP43 (1.50 angstrom, 293 K)
分子名称: CALCIUM ION, protease
著者Nonaka, T, Fujihashi, M, Kita, A, Saeki, K, Ito, S, Horikoshi, K, Miki, K.
登録日2004-07-08
公開日2004-09-14
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.5 Å)
主引用文献The Crystal Structure of an Oxidatively Stable Subtilisin-like Alkaline Serine Protease, KP-43, with a C-terminal {beta}-Barrel Domain
J.Biol.Chem., 279, 2004
1WMD
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BU of 1wmd by Molmil
Crystal Structure of alkaline serine protease KP-43 from Bacillus sp. KSM-KP43 (1.30 angstrom, 100 K)
分子名称: 1,4-DIETHYLENE DIOXIDE, CALCIUM ION, GLYCEROL, ...
著者Nonaka, T, Fujihashi, M, Kita, A, Saeki, K, Ito, S, Horikoshi, K, Miki, K.
登録日2004-07-08
公開日2004-09-14
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (1.3 Å)
主引用文献The Crystal Structure of an Oxidatively Stable Subtilisin-like Alkaline Serine Protease, KP-43, with a C-terminal {beta}-Barrel Domain
J.Biol.Chem., 279, 2004
5ZQU
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BU of 5zqu by Molmil
Crystal structure of tetrameric RXRalpha-LBD complexed with partial agonist CBt-PMN
分子名称: 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid, BROMIDE ION, Retinoic acid receptor RXR-alpha
著者Miyashita, Y, Numoto, N, Arulmozhiraja, S, Nakano, S, Matsuo, N, Shimizu, K, Kakuta, H, Ito, S, Ikura, T, Ito, N, Tokiwa, H.
登録日2018-04-20
公開日2019-02-27
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.60038781 Å)
主引用文献Dual conformation of the ligand induces the partial agonistic activity of retinoid X receptor alpha (RXR alpha ).
FEBS Lett., 593, 2019
6L96
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BU of 6l96 by Molmil
Structure of PPARalpha-LBD/pemafibrate/SRC1 peptide
分子名称: (2~{R})-2-[3-[[1,3-benzoxazol-2-yl-[3-(4-methoxyphenoxy)propyl]amino]methyl]phenoxy]butanoic acid, Peroxisome proliferator-activated receptor alpha, SRC1 coactivator peptide
著者Kawasaki, M, Kambe, A, Yamamoto, Y, Arulmozhira, S, Ito, S, Nakagawa, Y, Tokiwa, H, Nakano, S, Shimano, H.
登録日2019-11-08
公開日2020-01-15
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (3.2 Å)
主引用文献Elucidation of Molecular Mechanism of a Selective PPAR alpha Modulator, Pemafibrate, through Combinational Approaches of X-ray Crystallography, Thermodynamic Analysis, and First-Principle Calculations.
Int J Mol Sci, 21, 2020
6M5W
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BU of 6m5w by Molmil
Co-crystal structure of human serine hydroxymethyltransferase 1 in complex with Pyridoxal 5'-phosphate (PLP) and glycodeoxycholic acid
分子名称: (3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID, GLYCINE, PYRIDOXAL-5'-PHOSPHATE, ...
著者Ota, T, Senoo, A, Ito, S, Ueno, G, Nagatoishi, S, Tsumoto, K, Sando, S.
登録日2020-03-11
公開日2021-01-20
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (3.1 Å)
主引用文献Structural basis for selective inhibition of human serine hydroxymethyltransferase by secondary bile acid conjugate.
Iscience, 24, 2021
6M5O
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BU of 6m5o by Molmil
Co-crystal structure of human serine hydroxymethyltransferase 2 in complex with Pyridoxal 5'-phosphate (PLP) and glycodeoxycholic acid
分子名称: (3ALPHA,5BETA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID, GLYCINE, Serine hydroxymethyltransferase, ...
著者Ota, T, Senoo, A, Ito, S, Ueno, G, Nagatoishi, S, Tsumoto, K, Sando, S.
登録日2020-03-11
公開日2021-01-20
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.30000663 Å)
主引用文献Structural basis for selective inhibition of human serine hydroxymethyltransferase by secondary bile acid conjugate.
Iscience, 24, 2021
7C86
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BU of 7c86 by Molmil
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
6JNO
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BU of 6jno by Molmil
RXRa structure complexed with CU-6PMN
分子名称: 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, Retinoic acid receptor RXR-alpha
著者Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S.
登録日2019-03-17
公開日2019-11-20
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.65 Å)
主引用文献Competitive Binding Assay with an Umbelliferone-Based Fluorescent Rexinoid for Retinoid X Receptor Ligand Screening.
J.Med.Chem., 62, 2019
6JNR
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BU of 6jnr by Molmil
RXRa structure complexed with CU-6PMN and SRC1 peptide.
分子名称: 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, HIS-LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN, Retinoic acid receptor RXR-alpha
著者Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S.
登録日2019-03-18
公開日2020-03-25
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.3 Å)
主引用文献RXRa structure complexed with CU-6PMN and SRC1 peptide.
To Be Published
6KTK
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Crystal structure of scyllo-inositol dehydrogenase R178A mutant, complexed with NADH and L-glucono-1,5-lactone, from Paracoccus laeviglucosivorans
分子名称: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE, L-glucono-1,5-lactone, Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity, ...
著者Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
登録日2019-08-28
公開日2019-12-25
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
6KTL
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BU of 6ktl by Molmil
Crystal structure of scyllo-inositol dehydrogenase R178A mutant, complexed with NAD and myo-inositol, from Paracoccus laeviglucosivorans
分子名称: 1,2,3,4,5,6-HEXAHYDROXY-CYCLOHEXANE, ACETATE ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ...
著者Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
登録日2019-08-28
公開日2019-12-25
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (1.65 Å)
主引用文献Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
6KTJ
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BU of 6ktj by Molmil
Crystal structure of scyllo-inositol dehydrogenase R178A mutant, apo-form, from Paracoccus laeviglucosivorans
分子名称: ACETATE ION, Scyllo-inositol dehydrogenase with L-glucose dehydrogenase activity
著者Suzuki, M, Koubara, K, Takenoya, M, Fukano, K, Ito, S, Sasaki, Y, Nakamura, A, Yajima, S.
登録日2019-08-28
公開日2019-12-25
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (2.1 Å)
主引用文献Single amino acid mutation altered substrate specificity for L-glucose and inositol inscyllo-inositol dehydrogenase isolated fromParacoccus laeviglucosivorans.
Biosci.Biotechnol.Biochem., 84, 2020
6LU2
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Crystal structure of a substrate binding protein from Microbacterium hydrocarbonoxydans
分子名称: Substrate binding protein
著者Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
登録日2020-01-25
公開日2020-03-25
最終更新日2020-04-22
実験手法X-RAY DIFFRACTION (1.75 Å)
主引用文献Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020
6LU3
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Crystal structure of a substrate binding protein from Microbacterium hydrocarbonoxydans complexed with 4-hydroxybenzoate hydrazide
分子名称: 4-oxidanylbenzohydrazide, Substrate binding protein
著者Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
登録日2020-01-25
公開日2020-03-25
最終更新日2020-04-22
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020
6LU4
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Crystal structure of the substrate binding protein from Microbacterium hydrocarbonoxydans complexed with propylparaben
分子名称: Substrate binding protein, propyl 4-hydroxybenzoate
著者Shimamura, K, Akiyama, T, Yokoyama, K, Takenoya, M, Ito, S, Sasaki, Y, Yajima, S.
登録日2020-01-25
公開日2020-03-25
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.8 Å)
主引用文献Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525, 2020
7BXS
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BU of 7bxs by Molmil
2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator glycine binding form
分子名称: 2-amino-3-ketobutyrate coenzyme A ligase, N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE]
著者Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S.
登録日2020-04-20
公開日2021-04-21
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.5 Å)
主引用文献Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
7BXQ
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2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator L-Threonine binding form
分子名称: 2-amino-3-ketobutyrate coenzyme A ligase, N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-allothreonine
著者Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S.
登録日2020-04-20
公開日2021-04-21
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (2.49 Å)
主引用文献Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
7BXP
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2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator
分子名称: 2-amino-3-ketobutyrate coenzyme A ligase
著者Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S.
登録日2020-04-20
公開日2021-04-21
最終更新日2023-11-29
実験手法X-RAY DIFFRACTION (1.8 Å)
主引用文献Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021

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