3W07
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3VX3
| Crystal structure of [NiFe] hydrogenase maturation protein HypB from Thermococcus kodakarensis KOD1 | Descriptor: | 1,2-ETHANEDIOL, ADENOSINE-5'-DIPHOSPHATE, ATPase involved in chromosome partitioning, ... | Authors: | Sasaki, D, Watanabe, S, Miki, K. | Deposit date: | 2012-09-09 | Release date: | 2013-02-27 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Identification and Structure of a Novel Archaeal HypB for [NiFe] Hydrogenase Maturation J.Mol.Biol., 425, 2013
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3WHB
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3W4S
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3WHC
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3WQP
| Crystal structure of Rubisco T289D mutant from Thermococcus kodakarensis | Descriptor: | 1,2-ETHANEDIOL, 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, ... | Authors: | Fujihashi, M, Nishitani, Y, Kiriyama, T, Miki, K. | Deposit date: | 2014-01-29 | Release date: | 2015-02-04 | Last modified: | 2023-12-06 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Mutation design of thermophilic Rubisco based on the three-dimensional structure enhances its activity at ambient temperature to be published
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2Z1E
| Crystal structure of HypE from Thermococcus kodakaraensis (outward form) | Descriptor: | Hydrogenase expression/formation protein HypE | Authors: | Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2007-05-08 | Release date: | 2007-07-17 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell, 27, 2007
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2Z1C
| Crystal structure of HypC from Thermococcus kodakaraensis KOD1 | Descriptor: | GLYCEROL, Hydrogenase expression/formation protein HypC, TETRAETHYLENE GLYCOL | Authors: | Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2007-05-08 | Release date: | 2007-07-17 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell, 27, 2007
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2Z9O
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2ZFO
| Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins | Descriptor: | Extracellular giant hemoglobin major globin subunit A1, Extracellular giant hemoglobin major globin subunit A2, Extracellular giant hemoglobin major globin subunit B1, ... | Authors: | Numoto, N, Nakagawa, T, Kita, A, Sasayama, Y, Fukumori, Y, Miki, K. | Deposit date: | 2008-01-08 | Release date: | 2008-04-22 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Structure of the partially unliganded met state of 400 kDa hemoglobin: insights into ligand-induced structural changes of giant hemoglobins Proteins, 73, 2008
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2ZSK
| Crystal structure of PH1733, an aspartate racemase homologue, from Pyrococcus horikoshii OT3 | Descriptor: | 226aa long hypothetical aspartate racemase | Authors: | Kita, A, Tasaki, S, Yohda, M, Miki, K. | Deposit date: | 2008-09-12 | Release date: | 2008-10-21 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | Crystal structure of PH1733, an aspartate racemase homologue, from pyrococcus horikoshii OT3 Proteins, 74, 2009
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2Z1F
| Crystal structure of HypE from Thermococcus kodakaraensis (inward form) | Descriptor: | Hydrogenase expression/formation protein HypE | Authors: | Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2007-05-08 | Release date: | 2007-07-17 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell, 27, 2007
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2ZS0
| Structural Basis for the Heterotropic and Homotropic Interactions of Invertebrate Giant Hemoglobin | Descriptor: | CALCIUM ION, CHLORIDE ION, Extracellular giant hemoglobin major globin subunit A1, ... | Authors: | Numoto, N, Nakagawa, T, Kita, A, Sasayama, Y, Fukumori, Y, Miki, K. | Deposit date: | 2008-09-02 | Release date: | 2008-10-21 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Structural Basis for the Heterotropic and Homotropic Interactions of Invertebrate Giant Hemoglobin Biochemistry, 47, 2008
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2Z1D
| Crystal structure of [NiFe] hydrogenase maturation protein, HypD from Thermococcus kodakaraensis | Descriptor: | Hydrogenase expression/formation protein hypD, IRON/SULFUR CLUSTER | Authors: | Watanabe, S, Matsumi, R, Arai, T, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2007-05-08 | Release date: | 2007-07-17 | Last modified: | 2014-11-12 | Method: | X-RAY DIFFRACTION (2.07 Å) | Cite: | Crystal Structures of [NiFe] Hydrogenase Maturation Proteins HypC, HypD, and HypE: Insights into Cyanation Reaction by Thiol Redox Signaling Mol.Cell, 27, 2007
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2ZS1
| Structural Basis for the Heterotropic and Homotropic Interactions of Invertebrate Giant Hemoglobin | Descriptor: | CHLORIDE ION, Extracellular giant hemoglobin major globin subunit A1, Extracellular giant hemoglobin major globin subunit A2, ... | Authors: | Numoto, N, Nakagawa, T, Kita, A, Sasayama, Y, Fukumori, Y, Miki, K. | Deposit date: | 2008-09-02 | Release date: | 2008-10-21 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural Basis for the Heterotropic and Homotropic Interactions of Invertebrate Giant Hemoglobin Biochemistry, 47, 2008
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2ZQM
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3A11
| Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakaraensis KOD1 | Descriptor: | DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, Translation initiation factor eIF-2B, ... | Authors: | Nakamura, A, Fujihashi, M, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2009-03-25 | Release date: | 2010-03-31 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1 J.Biol.Chem., 287, 2012
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3A43
| Crystal structure of HypA | Descriptor: | Hydrogenase nickel incorporation protein hypA, ZINC ION | Authors: | Watanabe, S, Arai, T, Matsumi, R, Aromi, H, Imanaka, T, Miki, K. | Deposit date: | 2009-06-30 | Release date: | 2009-10-06 | Last modified: | 2016-12-21 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal structure of HypA, a nickel-binding metallochaperone for [NiFe] hydrogenase maturation. J.Mol.Biol., 394, 2009
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3A13
| Crystal structure of Type III Rubisco SP4 mutant complexed with 2-CABP and activated with Ca | Descriptor: | 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, CALCIUM ION, MAGNESIUM ION, ... | Authors: | Nishitani, Y, Fujihashi, M, Doi, T, Yoshida, S, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2009-03-25 | Release date: | 2010-04-07 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.34 Å) | Cite: | Structure-based optimization of a Type III Rubisco from a hyperthermophile To be Published
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3A9F
| Crystal structure of the C-terminal domain of cytochrome cz from Chlorobium tepidum | Descriptor: | 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL, Cytochrome c, HEME C, ... | Authors: | Hirano, Y, Higuchi, M, Azai, C, Oh-oka, H, Miki, K, Wang, Z.-Y. | Deposit date: | 2009-10-25 | Release date: | 2010-03-02 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Crystal structure of the electron carrier domain of the reaction center cytochrome c(z) subunit from green photosynthetic bacterium Chlorobium tepidum J.Mol.Biol., 397, 2010
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3A44
| Crystal structure of HypA in the dimeric form | Descriptor: | Hydrogenase nickel incorporation protein hypA, ZINC ION | Authors: | Watanabe, S, Arai, T, Matsumi, R, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2009-06-30 | Release date: | 2009-10-06 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.31 Å) | Cite: | Crystal structure of HypA, a nickel-binding metallochaperone for [NiFe] hydrogenase maturation. J.Mol.Biol., 394, 2009
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3A9C
| Crystal structure of ribose-1,5-bisphosphate isomerase from Thermococcus kodakaraensis KOD1 in complex with ribulose-1,5-bisphosphate | Descriptor: | DI(HYDROXYETHYL)ETHER, MAGNESIUM ION, RIBULOSE-1,5-DIPHOSPHATE, ... | Authors: | Nakamura, A, Fujihashi, M, Nishiba, Y, Yoshida, S, Yano, A, Atomi, H, Imanaka, T, Miki, K. | Deposit date: | 2009-10-22 | Release date: | 2010-11-03 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1 J.Biol.Chem., 287, 2012
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3ABF
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3AJX
| Crystal Structure of 3-Hexulose-6-Phosphate Synthase | Descriptor: | 3-hexulose-6-phosphate synthase, CHLORIDE ION, MAGNESIUM ION, ... | Authors: | Kita, A, Orita, I, Yurimoto, H, Kato, N, Sakai, Y, Miki, K. | Deposit date: | 2010-06-24 | Release date: | 2010-11-03 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystal structure of 3-hexulose-6-phosphate synthase, a member of the orotidine 5'-monophosphate decarboxylase suprafamily Proteins, 78, 2010
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3AQB
| M. luteus B-P 26 heterodimeric hexaprenyl diphosphate synthase in complex with magnesium | Descriptor: | CHLORIDE ION, Component A of hexaprenyl diphosphate synthase, Component B of hexaprenyl diphosphate synthase, ... | Authors: | Sasaki, D, Fujihashi, M, Okuyama, N, Kobayashi, Y, Noike, M, Koyama, T, Miki, K. | Deposit date: | 2010-10-28 | Release date: | 2010-11-10 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystal structure of heterodimeric hexaprenyl diphosphate synthase from Micrococcus luteus B-P 26 reveals that the small subunit is directly involved in the product chain length regulation. J.Biol.Chem., 286, 2011
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