3X34
 
 | | Crystal structure of the reduced form of the solubilized domain of porcine cytochrome b5 in form 1 crystal | | Descriptor: | CALCIUM ION, Cytochrome b5, PROTOPORPHYRIN IX CONTAINING FE | | Authors: | Hirano, Y, Kimura, S, Tamada, T. | | Deposit date: | 2015-01-14 | | Release date: | 2015-07-15 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (0.76 Å) | | Cite: | High-resolution crystal structures of the solubilized domain of porcine cytochrome b5.
Acta Crystallogr.,Sect.D, 71, 2015
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6L0W
 | | Structure of RLD2 BRX domain bound to LZY3 CCL motif | | Descriptor: | 1,2-ETHANEDIOL, CITRATE ANION, NGR2, ... | | Authors: | Hirano, Y, Futrutani, M, Nishimura, T, Taniguchi, M, Morita, M.T, Hakoshima, T. | | Deposit date: | 2019-09-27 | | Release date: | 2020-02-05 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.591 Å) | | Cite: | Polar recruitment of RLD by LAZY1-like protein during gravity signaling in root branch angle control.
Nat Commun, 11, 2020
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5Y6T
 | | Crystal structure of endo-1,4-beta-mannanase from Eisenia fetida | | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ISOPROPYL ALCOHOL, endo-1,4-beta-mannanase | | Authors: | Hirano, Y, Ueda, M, Tamada, T. | | Deposit date: | 2017-08-15 | | Release date: | 2018-06-27 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Gene cloning, expression, and X-ray crystallographic analysis of a beta-mannanase from Eisenia fetida.
Enzyme.Microb.Technol., 117, 2018
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6L0V
 | | Structure of RLD2 BRX domain bound to LZY3 CCL motif | | Descriptor: | 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, NGR2, ... | | Authors: | Hirano, Y, Futrutani, M, Nishimura, T, Taniguchi, M, Morita, M.T, Hakoshima, T. | | Deposit date: | 2019-09-27 | | Release date: | 2020-02-05 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (1.347 Å) | | Cite: | Polar recruitment of RLD by LAZY1-like protein during gravity signaling in root branch angle control.
Nat Commun, 11, 2020
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6IQE
 | | Human prohibitin 2 | | Descriptor: | Prohibitin-2 | | Authors: | Hirano, Y, Koshiba, T, Tamada, T. | | Deposit date: | 2018-11-07 | | Release date: | 2019-09-25 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.701 Å) | | Cite: | Structural Basis of Mitochondrial Scaffolds by Prohibitin Complexes: Insight into a Role of the Coiled-Coil Region.
Iscience, 19, 2019
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5WQR
 | | High resolution structure of high-potential iron-sulfur protein in the reduced state | | Descriptor: | GLYCEROL, High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, ... | | Authors: | Ohno, H, Takeda, K, Niwa, S, Tsujinaka, T, Hanazono, Y, Hirano, Y, Miki, K. | | Deposit date: | 2016-11-28 | | Release date: | 2017-06-07 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (0.8 Å) | | Cite: | Crystallographic characterization of the high-potential iron-sulfur protein in the oxidized state at 0.8 angstrom resolution
PLoS ONE, 12, 2017
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5WQQ
 | | High resolution structure of high-potential iron-sulfur protein in the oxidized state | | Descriptor: | GLYCEROL, High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, ... | | Authors: | Ohno, H, Takeda, K, Niwa, S, Tsujinaka, T, Hanazono, Y, Hirano, Y, Miki, K. | | Deposit date: | 2016-11-28 | | Release date: | 2017-06-07 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (0.8 Å) | | Cite: | Crystallographic characterization of the high-potential iron-sulfur protein in the oxidized state at 0.8 angstrom resolution
PLoS ONE, 12, 2017
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6L46
 | | High-resolution neutron and X-ray joint refined structure of copper-containing nitrite reductase from Geobacillus thermodenitrificans | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, COPPER (II) ION, ... | | Authors: | Fukuda, Y, Hirano, Y, Kusaka, K, Inoue, T, Tamada, T. | | Deposit date: | 2019-10-16 | | Release date: | 2020-02-12 | | Last modified: | 2024-04-03 | | Method: | NEUTRON DIFFRACTION (1.3 Å), X-RAY DIFFRACTION | | Cite: | High-resolution neutron crystallography visualizes an OH-bound resting state of a copper-containing nitrite reductase.
Proc.Natl.Acad.Sci.USA, 117, 2020
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4P9T
 | | Structure of the free form of the N-terminal VH1 domain of monomeric alpha-catenin | | Descriptor: | 1,2-ETHANEDIOL, Catenin alpha-2, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Shibahara, T, Hirano, Y, Hakoshima, T. | | Deposit date: | 2014-04-04 | | Release date: | 2015-04-29 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structure of the free form of the N-terminal VH1 domain of monomeric alpha-catenin.
Febs Lett., 589, 2015
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6M3D
 | | X-ray crystal structure of tandemly connected engrailed homeodomains (EHD) with R53A mutations and DNA complex | | Descriptor: | DNA (5'-D(*GP*GP*AP*TP*TP*AP*GP*GP*AP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*TP*CP*CP*TP*AP*AP*TP*CP*C)-3'), SODIUM ION, ... | | Authors: | Sunami, T, Hirano, Y, Tamada, T, Kono, H. | | Deposit date: | 2020-03-03 | | Release date: | 2020-09-16 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structural basis for designing an array of engrailed homeodomains.
Acta Crystallogr D Struct Biol, 76, 2020
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7VOS
 | | High-resolution neutron and X-ray joint refined structure of high-potential iron-sulfur protein in the oxidized state | | Descriptor: | AMMONIUM ION, GLYCEROL, High-potential iron-sulfur protein, ... | | Authors: | Hanazono, Y, Hirano, Y, Takeda, K, Kusaka, K, Tamada, T, Miki, K. | | Deposit date: | 2021-10-14 | | Release date: | 2022-06-01 | | Last modified: | 2024-04-03 | | Method: | NEUTRON DIFFRACTION (0.66 Å), X-RAY DIFFRACTION | | Cite: | Revisiting the concept of peptide bond planarity in an iron-sulfur protein by neutron structure analysis.
Sci Adv, 8, 2022
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8IHW
 | | X-ray crystal structure of D43R mutant of endo-1,4-beta glucanase from Eisenia fetida | | Descriptor: | CALCIUM ION, Endoglucanase, GLYCEROL, ... | | Authors: | Kuroki, C, Hirano, Y, Nakazawa, M, Sakamoto, T, Tamada, T, Ueda, M. | | Deposit date: | 2023-02-24 | | Release date: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | A single mutation Asp43Arg was increased 2.5-fold the catalytic activity and maintained the stability of cold-adapted endo-1,4-beta glucanase (Ef-EG2) from Eisenia fetida.
Curr Res Biotechnol, 5, 2023
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8IHX
 | | X-ray crystal structure of N372D mutant of endo-1,4-beta glucanase from Eisenia fetida | | Descriptor: | CALCIUM ION, Endoglucanase, GLYCEROL, ... | | Authors: | Kuroki, C, Hirano, Y, Nakazawa, M, Sakamoto, T, Tamada, T, Ueda, M. | | Deposit date: | 2023-02-24 | | Release date: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | A single mutation Asp43Arg was increased 2.5-fold the catalytic activity and maintained the stability of cold-adapted endo-1,4-beta glucanase (Ef-EG2) from Eisenia fetida.
Curr Res Biotechnol, 5, 2023
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8IHY
 | | X-ray crystal structure of Q387E mutant of endo-1,4-beta glucanase from Eisenia fetida | | Descriptor: | CALCIUM ION, Endoglucanase, GLYCEROL, ... | | Authors: | Kuroki, C, Hirano, Y, Nakazawa, M, Sakamoto, T, Tamada, T, Ueda, M. | | Deposit date: | 2023-02-24 | | Release date: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | A single mutation Asp43Arg was increased 2.5-fold the catalytic activity and maintained the stability of cold-adapted endo-1,4-beta glucanase (Ef-EG2) from Eisenia fetida.
Curr Res Biotechnol, 5, 2023
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7CQY
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3AAB
 | | Small heat shock protein hsp14.0 with the mutations of I120F and I122F in the form I crystal | | Descriptor: | GLYCEROL, ISOPROPYL ALCOHOL, Putative uncharacterized protein ST1653 | | Authors: | Takeda, K, Hayashi, T, Abe, T, Hirano, Y, Hanazono, Y, Yohda, M, Miki, K. | | Deposit date: | 2009-11-13 | | Release date: | 2010-11-17 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.851 Å) | | Cite: | Dimer structure and conformational variability in the N-terminal region of an archaeal small heat shock protein, StHsp14.0
J.Struct.Biol., 174, 2011
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3AAC
 | | Small heat shock protein hsp14.0 with the mutations of I120F and I122F in the form II crystal | | Descriptor: | Putative uncharacterized protein ST1653 | | Authors: | Takeda, K, Hayashi, T, Abe, T, Hirano, Y, Hanazono, Y, Yohda, M, Miki, K. | | Deposit date: | 2009-11-13 | | Release date: | 2010-11-17 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Dimer structure and conformational variability in the N-terminal region of an archaeal small heat shock protein, StHsp14.0
J.Struct.Biol., 174, 2011
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6L8A
 | | Tetrathionate hydrolase from Acidithiobacillus ferrooxidans | | Descriptor: | BETA-ALANINE, GLYCINE, SULFATE ION, ... | | Authors: | Tamada, T, Hirano, Y. | | Deposit date: | 2019-11-05 | | Release date: | 2020-11-11 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (1.95004809 Å) | | Cite: | Reaction mechanism of tetrathionate hydrolysis based on the crystal structure of tetrathionate hydrolase from Acidithiobacillus ferrooxidans.
Protein Sci., 30, 2020
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3W06
 | | Crystal structure of Arabidopsis thaliana DWARF14 Like (AtD14L) | | Descriptor: | 1,2-ETHANEDIOL, Hydrolase, alpha/beta fold family protein | | Authors: | Kagiyama, M, Hirano, Y, Mori, T, Kim, S.Y, Kyozuka, J, Seto, Y, Yamaguchi, S, Hakoshima, T. | | Deposit date: | 2012-10-19 | | Release date: | 2013-01-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.15 Å) | | Cite: | Structures of D14 and D14L in the strigolactone and karrikin signaling pathways
Genes Cells, 18, 2013
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3W04
 | | Crystal structure of Oryza sativa DWARF14 (D14) | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ... | | Authors: | Kagiyama, M, Hirano, Y, Mori, T, Kim, S.Y, Kyozuka, J, Seto, Y, Yamaguchi, S, Hakoshima, T. | | Deposit date: | 2012-10-19 | | Release date: | 2013-01-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structures of D14 and D14L in the strigolactone and karrikin signaling pathways
Genes Cells, 18, 2013
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3W05
 | | Crystal structure of Oryza sativa DWARF14 (D14) in complex with PMSF | | Descriptor: | 1,2-ETHANEDIOL, Dwarf 88 esterase, phenylmethanesulfonic acid | | Authors: | Kagiyama, M, Hirano, Y, Mori, T, Kim, S.Y, Kyozuka, J, Seto, Y, Yamaguchi, S, Hakoshima, T. | | Deposit date: | 2012-10-19 | | Release date: | 2013-01-23 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.58 Å) | | Cite: | Structures of D14 and D14L in the strigolactone and karrikin signaling pathways
Genes Cells, 18, 2013
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2ZSH
 | | Structural basis of gibberellin(GA3)-induced DELLA recognition by the gibberellin receptor | | Descriptor: | DELLA protein GAI, GIBBERELLIN A3, Probable gibberellin receptor GID1L1 | | Authors: | Murase, K, Hirano, Y, Sun, T.P, Hakoshima, T. | | Deposit date: | 2008-09-10 | | Release date: | 2008-11-25 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Gibberellin-induced DELLA recognition by the gibberellin receptor GID1
Nature, 456, 2008
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3A38
 | | Crystal structure of high-potential iron-sulfur protein from Thermochromatium tepidum at 0.7 angstrom resolution | | Descriptor: | GLYCEROL, High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, ... | | Authors: | Takeda, K, Kusumoto, K, Hirano, Y, Miki, K. | | Deposit date: | 2009-06-10 | | Release date: | 2010-01-26 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (0.7 Å) | | Cite: | Detailed assessment of X-ray induced structural perturbation in a crystalline state protein.
J.Struct.Biol., 169, 2010
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3A39
 | | Crystal Structure of High-Potential Iron-Sulfur Protein from Thermochromatium tepidum at 0.72 angstrom resolution | | Descriptor: | GLYCEROL, High-potential iron-sulfur protein, IRON/SULFUR CLUSTER, ... | | Authors: | Takeda, K, Kusumoto, K, Hirano, Y, Miki, K. | | Deposit date: | 2009-06-11 | | Release date: | 2009-10-27 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (0.72 Å) | | Cite: | Detailed assessment of X-ray induced structural perturbation in a crystalline state protein.
J.Struct.Biol., 169, 2010
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2Z5B
 | | Crystal Structure of a Novel Chaperone Complex for Yeast 20S Proteasome Assembly | | Descriptor: | Protein YPL144W, Uncharacterized protein YLR021W | | Authors: | Yashiroda, H, Mizushima, T, Okamoto, K, Kameyama, T, Hayashi, H, Kishimoto, T, Kasahara, M, Kurimoto, E, Sakata, E, Suzuki, A, Hirano, Y, Murata, S, Kato, K, Yamane, T, Tanaka, K. | | Deposit date: | 2007-07-03 | | Release date: | 2008-01-22 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.96 Å) | | Cite: | Crystal structure of a chaperone complex that contributes to the assembly of yeast 20S proteasomes
Nat.Struct.Mol.Biol., 15, 2008
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