1V7Y
 
 | | Crystal structure of tryptophan synthase alpha-subunit from Escherichia coli at room temperature | | Descriptor: | SULFATE ION, Tryptophan synthase alpha chain | | Authors: | Nishio, K, Morimoto, Y, Ishizuka, M, Ogasahara, K, Yutani, K, Tsukihara, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2003-12-25 | | Release date: | 2005-02-15 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Conformational Changes in the alpha-Subunit Coupled to Binding of the beta(2)-Subunit of Tryptophan Synthase from Escherichia coli: Crystal Structure of the Tryptophan Synthase alpha-Subunit Alon
Biochemistry, 44, 2005
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5B06
 | | Lysozyme (denatured by NaOD and refolded) | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, Lysozyme C, ... | | Authors: | Kita, A, Morimoto, Y. | | Deposit date: | 2015-10-28 | | Release date: | 2016-01-13 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | An Effective Deuterium Exchange Method for Neutron Crystal Structure Analysis with Unfolding-Refolding Processes
Mol Biotechnol., 58, 2016
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7X7O
 | | SARS-CoV-2 spike RBD in complex with neutralizing antibody UT28K | | Descriptor: | Spike protein S1, UT28K Fab, heavy chain, ... | | Authors: | Ozawa, T, Tani, H, Anraku, Y, Kita, S, Igarashi, E, Saga, Y, Inasaki, N, Kawasuji, H, Yamada, H, Sasaki, S, Somekawa, M, Sasaki, J, Hayakawa, Y, Yamamoto, Y, Morinaga, Y, Kurosawa, N, Isobe, M, Fukuhara, H, Maenaka, K, Hashiguchi, T, Kishi, H, Kitajima, I, Saito, S, Niimi, H. | | Deposit date: | 2022-03-10 | | Release date: | 2022-05-25 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.75 Å) | | Cite: | Novel super-neutralizing antibody UT28K is capable of protecting against infection from a wide variety of SARS-CoV-2 variants.
Mabs, 14, 2022
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5B05
 | | Lysozyme (control experiment) | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, Lysozyme C, ... | | Authors: | Kita, A, Morimoto, Y. | | Deposit date: | 2015-10-28 | | Release date: | 2016-01-13 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | An Effective Deuterium Exchange Method for Neutron Crystal Structure Analysis with Unfolding-Refolding Processes
Mol Biotechnol., 58, 2016
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5B07
 | | Lysozyme (denatured by DCl and refolded) | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, Lysozyme C, ... | | Authors: | Kita, A, Morimoto, Y. | | Deposit date: | 2015-10-28 | | Release date: | 2016-01-13 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | An Effective Deuterium Exchange Method for Neutron Crystal Structure Analysis with Unfolding-Refolding Processes
Mol Biotechnol., 58, 2016
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4J2R
 | | Middle domain of influenza A virus RNA-dependent polymerase PB2 | | Descriptor: | Polymerase basic protein 2 | | Authors: | Qiu, H, Tsurumura, T, Tsumori, Y, Hatakeyama, D, Kuzuhara, T, Tsuge, H. | | Deposit date: | 2013-02-05 | | Release date: | 2014-02-05 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.42 Å) | | Cite: | Crystallization and preliminary X-ray diffraction studies of a surface mutant of the middle domain of PB2 from human influenza A (H1N1) virus
ACTA CRYSTALLOGR.,SECT.F, 70, 2014
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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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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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2Z6V
 | | Crystal structure of sulfotransferase STF9 from Mycobacterium avium | | Descriptor: | PALMITIC ACID, Putative uncharacterized protein, SULFATE ION | | Authors: | Hassain, M.M, Moriizumi, Y, Tanaka, S, Kimura, M, Kakuta, Y. | | Deposit date: | 2007-08-09 | | Release date: | 2008-09-09 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal structure of sulfotransferase STF9 from Mycobacterium avium
To be Published
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3AJ9
 | | X-ray analysis of Crystal of Proteinase K Obtained from D2O Solution Using PEG 8000 | | Descriptor: | CALCIUM ION, GLYCEROL, Proteinase K | | Authors: | Chatake, T, Ishikawa, T, Morimoto, Y. | | Deposit date: | 2010-05-27 | | Release date: | 2011-06-22 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.1 Å) | | Cite: | High-resolution X-ray study of the effects of deuteration on crystal growth and the crystal structure of proteinase K
Acta Crystallogr.,Sect.F, 67, 2011
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3AJ8
 | | X-ray analysis of Crystal of Proteinase K Obtained from H2O Solution Using PEG 8000 | | Descriptor: | CALCIUM ION, GLYCEROL, Proteinase K | | Authors: | Chatake, T, Ishikawa, T, Morimoto, Y. | | Deposit date: | 2010-05-27 | | Release date: | 2011-06-22 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.1 Å) | | Cite: | High-resolution X-ray study of the effects of deuteration on crystal growth and the crystal structure of proteinase K
Acta Crystallogr.,Sect.F, 67, 2011
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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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3WCU
 | | The structure of a deoxygenated 400 kda hemoglobin provides a more accurate description of the cooperative mechanism of giant hemoglobins: Deoxygenated form | | Descriptor: | A1 globin chain of giant V2 hemoglobin, A2 globin chain of giant V2 hemoglobin, B1 globin chain of giant V2 hemoglobin, ... | | Authors: | Numoto, N, Nakagawa, T, Ohara, R, Hasegawa, T, Kita, A, Yoshida, T, Maruyama, T, Imai, K, Fukumori, Y, Miki, K. | | Deposit date: | 2013-06-01 | | Release date: | 2014-06-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | The structure of a deoxygenated 400 kDa haemoglobin reveals ternary- and quaternary-structural changes of giant haemoglobins
Acta Crystallogr.,Sect.D, 70, 2014
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3WMQ
 | | Crystal structure of the complex between SLL-2 and GalNAc. | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-acetamido-2-deoxy-alpha-D-galactopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Kita, A, Jimbo, M, Sakai, R, Morimoto, Y, Miki, K. | | Deposit date: | 2013-11-22 | | Release date: | 2015-01-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Crystal structure of a symbiosis-related lectin from octocoral.
Glycobiology, 25, 2015
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3WCV
 | | The structure of a deoxygenated 400 kda hemoglobin provides a more accurate description of the cooperative mechanism of giant hemoglobins: CA bound form | | Descriptor: | A1 globin chain of giant V2 hemoglobin, A2 globin chain of giant V2 hemoglobin, B1 globin chain of giant V2 hemoglobin, ... | | Authors: | Numoto, N, Nakagawa, T, Ohara, R, Hasegawa, T, Kita, A, Yoshida, T, Maruyama, T, Imai, K, Fukumori, Y, Miki, K. | | Deposit date: | 2013-06-01 | | Release date: | 2014-06-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | The structure of a deoxygenated 400 kDa haemoglobin reveals ternary- and quaternary-structural changes of giant haemoglobins
Acta Crystallogr.,Sect.D, 70, 2014
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3WCW
 | | The structure of a deoxygenated 400 kda hemoglobin provides a more accurate description of the cooperative mechanism of giant hemoglobins: MG bound form | | Descriptor: | A1 globin chain of giant V2 hemoglobin, A2 globin chain of giant V2 hemoglobin, B1 globin chain of giant V2 hemoglobin, ... | | Authors: | Numoto, N, Nakagawa, T, Ohara, R, Hasegawa, T, Kita, A, Yoshida, T, Maruyama, T, Imai, K, Fukumori, Y, Miki, K. | | Deposit date: | 2013-06-01 | | Release date: | 2014-06-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | The structure of a deoxygenated 400 kDa haemoglobin reveals ternary- and quaternary-structural changes of giant haemoglobins
Acta Crystallogr.,Sect.D, 70, 2014
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3WMP
 | | Crystal structure of SLL-2 | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-acetamido-2-deoxy-alpha-D-galactopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Kita, A, Jimbo, M, Sakai, R, Morimoto, Y, Miki, K. | | Deposit date: | 2013-11-22 | | Release date: | 2015-01-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structure of a symbiosis-related lectin from octocoral.
Glycobiology, 25, 2015
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3WCT
 | | The structure of a deoxygenated 400 kda hemoglobin provides a more accurate description of the cooperative mechanism of giant hemoglobins: Oxygenated form | | Descriptor: | A1 globin chain of giant V2 hemoglobin, A2 globin chain of giant V2 hemoglobin, B1 globin chain of giant V2 hemoglobin, ... | | Authors: | Numoto, N, Nakagawa, T, Ohara, R, Hasegawa, T, Kita, A, Yoshida, T, Maruyama, T, Imai, K, Fukumori, Y, Miki, K. | | Deposit date: | 2013-06-01 | | Release date: | 2014-06-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | The structure of a deoxygenated 400 kDa haemoglobin reveals ternary- and quaternary-structural changes of giant haemoglobins
Acta Crystallogr.,Sect.D, 70, 2014
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7VLD
 | | Oxy-deoxy intermediate of V2 hemoglobin at 69% oxygen saturation | | Descriptor: | CALCIUM ION, Extracellular A1 globin, Extracellular A2 globin, ... | | Authors: | Numoto, N, Onoda, S, Kawano, Y, Okumura, H, Baba, S, Fukumori, Y, Miki, K, Ito, N. | | Deposit date: | 2021-10-02 | | Release date: | 2022-05-18 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery.
Biophys Physicobio., 19, 2022
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7VLF
 | | Oxy-deoxy intermediate of V2 hemoglobin at 26% oxygen saturation | | Descriptor: | CALCIUM ION, Extracellular A1 globin, Extracellular A2 globin, ... | | Authors: | Numoto, N, Onoda, S, Kawano, Y, Okumura, H, Baba, S, Fukumori, Y, Miki, K, Ito, N. | | Deposit date: | 2021-10-02 | | Release date: | 2022-05-18 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery.
Biophys Physicobio., 19, 2022
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7VLC
 | | Oxy-deoxy intermediate of V2 hemoglobin at 78% oxygen saturation | | Descriptor: | CALCIUM ION, Extracellular A1 globin, Extracellular A2 globin, ... | | Authors: | Numoto, N, Onoda, S, Kawano, Y, Okumura, H, Baba, S, Fukumori, Y, Miki, K, Ito, N. | | Deposit date: | 2021-10-02 | | Release date: | 2022-05-18 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery.
Biophys Physicobio., 19, 2022
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7VLE
 | | Oxy-deoxy intermediate of V2 hemoglobin at 55% oxygen saturation | | Descriptor: | Extracellular A1 globin, Extracellular A2 globin, Extracellular B1 globin, ... | | Authors: | Numoto, N, Onoda, S, Kawano, Y, Okumura, H, Baba, S, Fukumori, Y, Miki, K, Ito, N. | | Deposit date: | 2021-10-02 | | Release date: | 2022-05-18 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structures of oxygen dissociation intermediates of 400 kDa V2 hemoglobin provide coarse snapshots of the protein allostery.
Biophys Physicobio., 19, 2022
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2D04
 | | Crystal structure of neoculin, a sweet protein with taste-modifying activity. | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Curculin, beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-3)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Shimizu-Ibuka, A, Morita, Y, Terada, T, Asakura, T, Nakajima, K, Iwata, S, Misaka, T, Sorimachi, H, Arai, S, Abe, K. | | Deposit date: | 2005-07-25 | | Release date: | 2006-06-20 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.76 Å) | | Cite: | Crystal structure of neoculin: insights into its sweetness and taste-modifying activity
J.Mol.Biol., 359, 2006
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2DH6
 | | Crystal structure of E. coli Apo-TrpB | | Descriptor: | SULFATE ION, tryptophan synthase beta subunit | | Authors: | Nishio, K, Morimoto, Y, Ogasahara, K, Yasuoka, N, Yutani, K, Tsukihara, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-03-23 | | Release date: | 2007-04-24 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Large conformational changes in the Escherichia coli tryptophan synthase beta(2) subunit upon pyridoxal 5'-phosphate binding
Febs J., 277, 2010
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2DH5
 | | Crystal structure of E. coli Holo-TrpB | | Descriptor: | GLYCEROL, PYRIDOXAL-5'-PHOSPHATE, SULFATE ION, ... | | Authors: | Nishio, K, Morimoto, Y, Ogasahara, K, Yutani, K, Tsukihara, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-03-23 | | Release date: | 2007-04-24 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Large conformational changes in the Escherichia coli tryptophan synthase beta(2) subunit upon pyridoxal 5'-phosphate binding
Febs J., 277, 2010
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