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1X0K
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BU of 1x0k by Molmil
Crystal Structure of Bacteriorhodopsin at pH 10
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, Bacteriorhodopsin, ...
Authors:Okumura, H, Murakami, M, Kouyama, T.
Deposit date:2005-03-23
Release date:2005-08-02
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structures of Acid Blue and Alkaline Purple Forms of Bacteriorhodopsin
J.Mol.Biol., 351, 2005
1X0I
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BU of 1x0i by Molmil
Crystal Structure of the Acid Blue Form of Bacteriorhodopsin
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, Bacteriorhodopsin, ...
Authors:Okumura, H, Murakami, M, Kouyama, T.
Deposit date:2005-03-23
Release date:2005-08-02
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal Structures of Acid Blue and Alkaline Purple Forms of Bacteriorhodopsin
J.Mol.Biol., 351, 2005
3ACL
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BU of 3acl by Molmil
Crystal Structure of Human Pirin in complex with Triphenyl Compound
Descriptor: FE (II) ION, N-{[4-(benzyloxy)phenyl](methyl)-lambda~4~-sulfanylidene}-4-methylbenzenesulfonamide, Pirin
Authors:Okumura, H, Miyazaki, I, Simizu, S, Osada, H.
Deposit date:2010-01-05
Release date:2010-08-18
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:A small-molecule inhibitor shows that pirin regulates migration of melanoma cells
Nat.Chem.Biol., 6, 2010
2ZA0
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BU of 2za0 by Molmil
Crystal structure of mouse glyoxalase I complexed with methyl-gerfelin
Descriptor: Glyoxalase I, ZINC ION, methyl 4-(2,3-dihydroxy-5-methylphenoxy)-2-hydroxy-6-methylbenzoate
Authors:Okumura, H, Kawatani, M, Osada, H.
Deposit date:2007-09-26
Release date:2008-08-12
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:The identification of an osteoclastogenesis inhibitor through the inhibition of glyoxalase I
Proc.Natl.Acad.Sci.Usa, 105, 2008
2ZHP
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BU of 2zhp by Molmil
Crystal structure of bleomycin-binding protein from Streptoalloteichus hindustanus complexed with bleomycin derivative
Descriptor: Bleomycin resistance protein, CHLORIDE ION, COPPER (II) ION, ...
Authors:Okumura, H, Miyazaki, I, Simizu, S, Osada, H.
Deposit date:2008-02-06
Release date:2009-02-17
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structure-Affinity Relationship Study of Bleomycins and Shble protein Using a Chemical Array
To be Published
3VNS
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BU of 3vns by Molmil
Co-crystal structure of NRPS adenylation protein CytC1 with D-valine and AMP from streptomyces
Descriptor: ADENOSINE MONOPHOSPHATE, D-VALINE, NRPS adenylation protein CytC1
Authors:Okumura, H, Ueki, M, Shiro, Y, Osada, H.
Deposit date:2012-01-17
Release date:2013-01-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.001 Å)
Cite:Substrate recognition mechanism of NRPS adenylation protein from Streptomyces
to be published
3VNQ
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BU of 3vnq by Molmil
Co-crystal structure of NRPS adenylation protein CytC1 with ATP from streptomyces
Descriptor: ADENOSINE-5'-TRIPHOSPHATE, NRPS adenylation protein CytC1
Authors:Okumura, H, Ueki, M, Shiro, Y, Osada, H.
Deposit date:2012-01-17
Release date:2013-01-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Substrate recognition mechanism of NRPS adenylation protein from Streptomyces
To be Published
3VNR
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BU of 3vnr by Molmil
Co-crystal structure of NRPS adenylation protein CytC1 with aminobutyric acid and AMP from streptomyces
Descriptor: ADENOSINE MONOPHOSPHATE, ALPHA-AMINOBUTYRIC ACID, NRPS adenylation protein CytC1
Authors:Okumura, H, Ueki, M, Shiro, Y, Osada, H.
Deposit date:2012-01-17
Release date:2013-01-23
Last modified:2023-12-06
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Substrate recognition mechanism of NRPS adenylation protein from Streptomyces
To be Published
7WA0
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BU of 7wa0 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with Benzamidine at Room Temperature
Descriptor: BENZAMIDINE, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-11
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.77 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WB6
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BU of 7wb6 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with 4-Bromobenzamidine at Room Temperature
Descriptor: 4-bromanylbenzenecarboximidamide, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.48 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WBA
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BU of 7wba by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with Tryptamine at Room Temperature
Descriptor: 2-(1H-INDOL-3-YL)ETHANAMINE, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WB8
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BU of 7wb8 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with 5-Methoxytryptamine at Room Temperature
Descriptor: 2-(5-methoxy-1H-indol-3-yl)ethanamine, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.38 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WB9
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BU of 7wb9 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with 5-Chlorotryptamine at Room Temperature
Descriptor: 2-(5-chloranyl-1~{H}-indol-3-yl)ethanamine, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.56 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WB7
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BU of 7wb7 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with Serotonin at Room Temperature
Descriptor: CALCIUM ION, Cationic trypsin, DIMETHYL SULFOXIDE, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-15
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
7WA2
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BU of 7wa2 by Molmil
Crystal structure of Bovine Pancreatic Trypsin in complex with 4-Methoxybenzamidine at Room Temperature
Descriptor: 4-methoxybenzenecarboximidamide, CALCIUM ION, Cationic trypsin, ...
Authors:Sakai, N, Okumura, H, Yamamoto, M, Kumasaka, T.
Deposit date:2021-12-11
Release date:2022-06-15
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:In situ crystal data-collection and ligand-screening system at SPring-8.
Acta Crystallogr.,Sect.F, 78, 2022
1DZE
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BU of 1dze by Molmil
Structure of the M Intermediate of Bacteriorhodopsin trapped at 100K
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, 3-PHOSPHORYL-[1,2-DI-PHYTANYL]GLYCEROL, ...
Authors:Takeda, K, Matsui, Y, Sato, H, Hino, T, Kanamori, E, Okumura, H, Yamane, T, Iizuka, T, Kamiya, N, Adachi, S, Kouyama, T.
Deposit date:2000-02-25
Release date:2000-08-16
Last modified:2023-12-06
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal Structure of the M Intermediate of Bacteriorhodopsin: Allosteric Structural Changes Mediated by Sliding Movement of a Transmembrane Helix
J.Mol.Biol., 341, 2004
7QXK
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BU of 7qxk by Molmil
As isolated MSOX movie series dataset 1 (0.4 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)
Descriptor: COPPER (II) ION, Copper-containing nitrite reductase, GLYCEROL, ...
Authors:Rose, S.L, Baba, S, Okumura, H, Antonyuk, S.V, Sasaki, D, Tosha, T, Kumasaka, T, Eady, R.R, Yamamoto, M, Hasnain, S.S.
Deposit date:2022-01-26
Release date:2022-08-03
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (1.35 Å)
Cite:Single crystal spectroscopy and multiple structures from one crystal (MSOX) define catalysis in copper nitrite reductases.
Proc.Natl.Acad.Sci.USA, 119, 2022
7QYC
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BU of 7qyc by Molmil
As isolated MSOX movie series dataset 20 (8 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)
Descriptor: COPPER (II) ION, Copper-containing nitrite reductase, GLYCEROL, ...
Authors:Rose, S.L, Baba, S, Okumura, H, Antonyuk, S.V, Sasaki, D, Tosha, T, Kumasaka, T, Eady, R.R, Yamamoto, M, Hasnain, S.S.
Deposit date:2022-01-27
Release date:2022-08-03
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (1.35 Å)
Cite:Single crystal spectroscopy and multiple structures from one crystal (MSOX) define catalysis in copper nitrite reductases.
Proc.Natl.Acad.Sci.USA, 119, 2022
7QY4
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BU of 7qy4 by Molmil
As isolated MSOX movie series dataset 5 (2 MGy) of the copper nitrite reductase from Bradyrhizobium sp. ORS 375 (two-domain)
Descriptor: COPPER (II) ION, Copper-containing nitrite reductase, GLYCEROL, ...
Authors:Rose, S.L, Baba, S, Okumura, H, Antonyuk, S.V, Sasaki, D, Tosha, T, Kumasaka, T, Eady, R.R, Yamamoto, M, Hasnain, S.S.
Deposit date:2022-01-27
Release date:2022-08-03
Last modified:2024-01-31
Method:X-RAY DIFFRACTION (1.35 Å)
Cite:Single crystal spectroscopy and multiple structures from one crystal (MSOX) define catalysis in copper nitrite reductases.
Proc.Natl.Acad.Sci.USA, 119, 2022
2CYM
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BU of 2cym by Molmil
EFFECTS OF AMINO ACID SUBSTITUTION ON THREE-DIMENSIONAL STRUCTURE: AN X-RAY ANALYSIS OF CYTOCHROME C3 FROM DESULFOVIBRIO VULGARIS HILDENBOROUGH AT 2 ANGSTROMS RESOLUTION
Descriptor: CYTOCHROME C3, PROTOPORPHYRIN IX CONTAINING FE
Authors:Morimoto, Y, Tani, T, Okumura, H, Higuchi, Y, Yasuoka, N.
Deposit date:1993-09-29
Release date:1994-04-30
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:Effects of amino acid substitution on three-dimensional structure: an X-ray analysis of cytochrome c3 from Desulfovibrio vulgaris Hildenborough at 2 A resolution.
J.Biochem.(Tokyo), 110, 1991
1IW9
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BU of 1iw9 by Molmil
Crystal Structure of the M Intermediate of Bacteriorhodopsin
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, RETINAL, ...
Authors:Takeda, K, Matsui, Y, Kamiya, N, Adachi, S, Okumura, H, Kouyama, T, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-04-25
Release date:2003-12-23
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of the M intermediate of bacteriorhodopsin: allosteric structural changes mediated by sliding movement of a transmembrane helix
J.Mol.Biol., 341, 2004
1UCQ
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BU of 1ucq by Molmil
Crystal structure of the L intermediate of bacteriorhodopsin
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, RETINAL, ...
Authors:Kouyama, T, Nishikawa, T, Tokuhisa, T, Okumura, H.
Deposit date:2003-04-17
Release date:2003-12-30
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal Structure of the L Intermediate of Bacteriorhodopsin: Evidence for Vertical Translocation of a Water Molecule during the Proton Pumping Cycle.
J.Mol.Biol., 335, 2004
1VGO
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BU of 1vgo by Molmil
Crystal Structure of Archaerhodopsin-2
Descriptor: Archaerhodopsin 2, RETINAL, SULFATE ION, ...
Authors:Yoshimura, K, Enami, N, Murakami, M, Okumura, H, Ihara, K, Kouyama, T.
Deposit date:2004-04-28
Release date:2005-10-04
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structures of archaerhodopsin-1 and -2: Common structural motif in archaeal light-driven proton pumps
J.Mol.Biol., 358, 2006
1WRB
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BU of 1wrb by Molmil
Crystal structure of the N-terminal RecA-like domain of DjVLGB, a pranarian Vasa-like RNA helicase
Descriptor: DjVLGB, SULFATE ION
Authors:Kurimoto, K, Muto, Y, Obayashi, N, Terada, T, Shirouzu, M, Yabuki, T, Aoki, M, Seki, E, Matsuda, T, Kigawa, T, Okumura, H, Tanaka, A, Shibata, N, Kashikawa, M, Agata, K, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2004-10-14
Release date:2005-04-12
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of the N-terminal RecA-like domain of a DEAD-box RNA helicase, the Dugesia japonica vasa-like gene B protein
J.Struct.Biol., 150, 2005
1IW6
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BU of 1iw6 by Molmil
Crystal Structure of the Ground State of Bacteriorhodopsin
Descriptor: 2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE, 2,3-DI-PHYTANYL-GLYCEROL, RETINAL, ...
Authors:Kouyama, T, Okumura, H, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2002-04-22
Release date:2002-12-11
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Specific Damage Induced by X-ray Radiation and Structural Changes in the Primary Photoreaction of Bacteriorhodopsin.
J.Mol.Biol., 324, 2002

 

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