2DN2
 
 | | 1.25A resolution crystal structure of human hemoglobin in the deoxy form | | Descriptor: | Hemoglobin alpha subunit, Hemoglobin beta subunit, PROTOPORPHYRIN IX CONTAINING FE | | Authors: | Park, S.-Y, Yokoyama, T, Shibayama, N, Shiro, Y, Tame, J.R. | | Deposit date: | 2006-04-25 | | Release date: | 2006-05-09 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.25 Å) | | Cite: | 1.25 a resolution crystal structures of human haemoglobin in the oxy, deoxy and carbonmonoxy forms.
J.Mol.Biol., 360, 2006
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5XHL
 | | Crystal Structure of HasAp with Gallium Phthalocyanine | | Descriptor: | Heme acquisition protein HasAp, Phthalocyanine containing GA | | Authors: | Shoji, O, Shisaka, Y, Iwai, Y, Sugimoto, H, Shiro, Y, Watanabe, Y. | | Deposit date: | 2017-04-21 | | Release date: | 2017-12-06 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Crystal Structure of HasAp with Gallium Phthalocyanine
to be published
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2EKT
 | | Crystal structure of myoglobin reconstituted with 6-methyl-6-depropionatehemin | | Descriptor: | 6-METHY-6-DEPROPIONATEHEMIN, Myoglobin, SULFATE ION | | Authors: | Harada, K, Makino, M, Sugimoto, H, Hirota, S, Matsuo, T, Shiro, Y, Hisaeda, Y, Hayashi, T. | | Deposit date: | 2007-03-25 | | Release date: | 2007-08-14 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.1 Å) | | Cite: | Structure and ligand binding properties of myoglobins reconstituted with monodepropionated heme: functional role of each heme propionate side chain
Biochemistry, 46, 2007
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5Y5M
 | | SFX structure of cytochrome P450nor: a complete dark data without pump laser (resting state) | | Descriptor: | NADP nitrous oxide-forming nitric oxide reductase, PROTOPORPHYRIN IX CONTAINING FE | | Authors: | Tosha, T, Nomura, T, Nishida, T, Saeki, N, Okubayashi, K, Yamagiwa, R, Sugahara, M, Nakane, T, Yamashita, K, Hirata, K, Ueno, G, Kimura, T, Hisano, T, Muramoto, K, Sawai, H, Takeda, H, Mizohata, E, Yamashita, A, Kanematsu, Y, Takano, Y, Nango, E, Tanaka, R, Nureki, O, Ikemoto, Y, Murakami, H, Owada, S, Tono, K, Yabashi, M, Yamamoto, M, Ago, H, Iwata, S, Sugimoto, H, Shiro, Y, Kubo, M. | | Deposit date: | 2017-08-09 | | Release date: | 2018-08-08 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Capturing an initial intermediate during the P450nor enzymatic reaction using time-resolved XFEL crystallography and caged-substrate.
Nat Commun, 8, 2017
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2EKU
 | | Crystal structure of myoglobin reconstituted with 7-methyl-7-depropionatehemin | | Descriptor: | 7-METHYL-7-DEPROPIONATEHEMIN, Myoglobin, SULFATE ION | | Authors: | Harada, K, Makino, M, Sugimoto, H, Hirota, S, Matsuo, T, Shiro, Y, Hisaeda, Y, Hayashi, T. | | Deposit date: | 2007-03-25 | | Release date: | 2007-08-14 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | Structure and ligand binding properties of myoglobins reconstituted with monodepropionated heme: functional role of each heme propionate side chain
Biochemistry, 46, 2007
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2DN1
 | | 1.25A resolution crystal structure of human hemoglobin in the oxy form | | Descriptor: | Hemoglobin alpha subunit, Hemoglobin beta subunit, OXYGEN MOLECULE, ... | | Authors: | Park, S.-Y, Yokoyama, T, Shibayama, N, Shiro, Y, Tame, J.R. | | Deposit date: | 2006-04-25 | | Release date: | 2006-05-09 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.25 Å) | | Cite: | 1.25 a resolution crystal structures of human haemoglobin in the oxy, deoxy and carbonmonoxy forms.
J.Mol.Biol., 360, 2006
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3VNR
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2DN3
 | | 1.25A resolution crystal structure of human hemoglobin in the carbonmonoxy form | | Descriptor: | CARBON MONOXIDE, Hemoglobin alpha subunit, Hemoglobin beta subunit, ... | | Authors: | Park, S.-Y, Yokoyama, T, Shibayama, N, Shiro, Y, Tame, J.R. | | Deposit date: | 2006-04-25 | | Release date: | 2006-05-09 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.25 Å) | | Cite: | 1.25 a resolution crystal structures of human haemoglobin in the oxy, deoxy and carbonmonoxy forms.
J.Mol.Biol., 360, 2006
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3VNS
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3VNQ
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2CW1
 | | Solution structure of the de novo-designed lambda Cro fold protein | | Descriptor: | SN4m | | Authors: | Isogai, Y, Ito, Y, Ikeya, T, Shiro, Y, Ota, M. | | Deposit date: | 2005-06-15 | | Release date: | 2005-12-13 | | Last modified: | 2024-05-29 | | Method: | SOLUTION NMR | | Cite: | Design of lambda Cro fold: solution structure of a monomeric variant of the de novo protein.
J.Mol.Biol., 354, 2005
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2FK5
 | | Crystal structure of l-fuculose-1-phosphate aldolase from Thermus thermophilus HB8 | | Descriptor: | CHLORIDE ION, SULFATE ION, fuculose-1-phosphate aldolase | | Authors: | Jeyakanthan, J, Shiro, Y, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2006-01-04 | | Release date: | 2007-01-04 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Purification, crystallization and preliminary X-ray crystallographic study of the L-fuculose-1-phosphate aldolase (FucA) from Thermus thermophilus HB8
Acta Crystallogr.,Sect.F, 61, 2005
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3A0R
 | | Crystal structure of histidine kinase ThkA (TM1359) in complex with response regulator protein TrrA (TM1360) | | Descriptor: | MERCURY (II) ION, Response regulator, Sensor protein | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-24 | | Release date: | 2009-10-20 | | Last modified: | 2021-11-10 | | Method: | X-RAY DIFFRACTION (3.8 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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2Z3U
 | | Crystal Structure of Chromopyrrolic Acid Bound Cytochrome P450 StaP (CYP245A1) | | Descriptor: | 1,2-ETHANEDIOL, 3,4-DI-1H-INDOL-3-YL-1H-PYRROLE-2,5-DICARBOXYLIC ACID, Cytochrome P450, ... | | Authors: | Makino, M, Sugimoto, H, Shiro, Y, Asamizu, S, Onaka, H, Nagano, S. | | Deposit date: | 2007-06-06 | | Release date: | 2007-07-03 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal structures and catalytic mechanism of cytochrome P450 StaP that produces the indolocarbazole skeleton
Proc.Natl.Acad.Sci.Usa, 104, 2007
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2Z1O
 | | Crystal structure of a photoswitchable GFP-like protein Dronpa in the bright-state | | Descriptor: | Fluorescent protein Dronpa | | Authors: | Kikuchi, A, Jeyakanthan, J, Taka, J, Shiro, Y, Mizuno, H, Miyawaki, A. | | Deposit date: | 2007-05-10 | | Release date: | 2008-05-13 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Light-dependent regulation of structural flexibility in a photochromic fluorescent protein
Proc.Natl.Acad.Sci.Usa, 105, 2008
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2ZF4
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3A0V
 | | PAS domain of histidine kinase ThkA (TM1359) (SeMet, F486M/F489M) | | Descriptor: | ETHANOL, Sensor protein | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-24 | | Release date: | 2009-10-20 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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3AG0
 | | Crystal structure of carbonmonoxy human cytoglobin | | Descriptor: | CARBON MONOXIDE, Cytoglobin, PROTOPORPHYRIN IX CONTAINING FE | | Authors: | Makino, M, Sawai, H, Shiro, Y, Sugimoto, H. | | Deposit date: | 2010-03-17 | | Release date: | 2011-02-02 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal structure of the carbon monoxide complex of human cytoglobin
Proteins, 79, 2011
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2ZZA
 | | Moritella profunda Dihydrofolate reductase complex with NADP+ and Folate | | Descriptor: | Dihydrofolate reductase, FOLIC ACID, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... | | Authors: | Hata, K, Tanaka, T, Murakami, C, Ohmae, E, Gekko, K, Shiro, Y, Akasaka, K. | | Deposit date: | 2009-02-06 | | Release date: | 2010-02-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Moritella profunda Dihydrofolate reductase complex with NADP+ and Folate
To be Published
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3A0S
 | | PAS domain of histidine kinase ThkA (TM1359) | | Descriptor: | DI(HYDROXYETHYL)ETHER, Sensor protein, TETRAETHYLENE GLYCOL, ... | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-24 | | Release date: | 2009-10-20 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.47 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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3A0Y
 | | Catalytic domain of histidine kinase ThkA (TM1359) (nucleotide free form 3: 1,2-propanediol, orthorombic) | | Descriptor: | Sensor protein | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-25 | | Release date: | 2009-10-20 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.57 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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3A0W
 | | Catalytic domain of histidine kinase ThkA (TM1359) for MAD phasing (nucleotide free form 2, orthorombic) | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-(ETHYLMERCURI-THIO)-BENZOIC ACID, ETHYL MERCURY ION, ... | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-24 | | Release date: | 2009-10-20 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.69 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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3A0X
 | | Catalytic domain of histidine kinase ThkA (TM1359) (nucleotide free form 1: ammomium phosphate, monoclinic) | | Descriptor: | Sensor protein | | Authors: | Yamada, S, Sugimoto, H, Kobayashi, M, Ohno, A, Nakamura, H, Shiro, Y. | | Deposit date: | 2009-03-25 | | Release date: | 2009-10-20 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.89 Å) | | Cite: | Structure of PAS-linked histidine kinase and the response regulator complex
Structure, 17, 2009
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2ZF3
 | | Crystal Structure of VioE | | Descriptor: | Hypothetical protein VioE | | Authors: | Hirano, S, Shiro, Y, Nagano, S. | | Deposit date: | 2007-12-20 | | Release date: | 2008-01-01 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structure of VioE, a key player in the construction of the molecular skeleton of violacein
To be Published
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2Z6Z
 | | Crystal structure of a photoswitchable GFP-like protein Dronpa in the bright-state | | Descriptor: | Fluorescent protein Dronpa | | Authors: | Kikuchi, A, Jeyakanthan, J, Taka, J, Shiro, Y, Mizuno, H, Miyawaki, A. | | Deposit date: | 2007-08-09 | | Release date: | 2008-07-22 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Light-dependent regulation of structural flexibility in a photochromic fluorescent protein.
Proc.Natl.Acad.Sci.Usa, 105, 2008
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