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1IYN
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BU of 1iyn by Molmil
Crystal structure of chloroplastic ascorbate peroxidase from tobacco plants and structural insights for its instability
Descriptor: Chloroplastic ascorbate peroxidase, PROTOPORPHYRIN IX CONTAINING FE, SODIUM ION
Authors:Wada, K, Tada, T, Nakamura, Y.
Deposit date:2002-09-03
Release date:2003-09-03
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal structure of chloroplastic ascorbate peroxidase from tobacco plants and structural insights into its instability
J.BIOCHEM.(TOKYO), 134, 2003
3AJG
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BU of 3ajg by Molmil
Crystal structure of PcyA V225D-biliverdin IX alpha complex
Descriptor: BILIVERDINE IX ALPHA, Phycocyanobilin:ferredoxin oxidoreductase
Authors:Wada, K, Hagiwara, Y, Fukuyama, K.
Deposit date:2010-06-05
Release date:2011-03-16
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:One residue substitution in PcyA leads to unexpected changes in tetrapyrrole substrate binding.
Biochem.Biophys.Res.Commun., 402, 2010
3AJH
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BU of 3ajh by Molmil
Crystal structure of PcyA V225D-biliverdin XIII alpha complex
Descriptor: 3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(3-ethenyl-4-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-2-ylidene]methy l]-5-[(Z)-(3-ethenyl-4-methyl-5-oxo-pyrrol-2-ylidene)methyl]-4-methyl-1H-pyrrol-3-yl]propanoic acid, Phycocyanobilin:ferredoxin oxidoreductase
Authors:Wada, K, Hagiwara, Y, Fukuyama, K.
Deposit date:2010-06-05
Release date:2011-03-16
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:One residue substitution in PcyA leads to unexpected changes in tetrapyrrole substrate binding.
Biochem.Biophys.Res.Commun., 402, 2010
3A75
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BU of 3a75 by Molmil
Crystal structure of glutamate complex of halotolerant γ-glutamyltranspeptidase from Bacillus subtilis
Descriptor: GLUTAMIC ACID, Gamma-glutamyltranspeptidase large chain, Gamma-glutamyltranspeptidase small chain
Authors:Wada, K, Fukuyama, K.
Deposit date:2009-09-14
Release date:2010-03-09
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Crystal structure of the halotolerant gamma-glutamyltranspeptidase from Bacillus subtilis in complex with glutamate reveals a unique architecture of the solvent-exposed catalytic pocket
Febs J., 277, 2010
2ZU0
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BU of 2zu0 by Molmil
Crystal structure of SufC-SufD complex involved in the iron-sulfur cluster biosynthesis
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Probable ATP-dependent transporter sufC, Protein sufD
Authors:Wada, K.
Deposit date:2008-10-11
Release date:2009-03-10
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Molecular dynamism of Fe-S cluster biosynthesis implicated by the structure of SufC(2)-SufD(2) complex
J.Mol.Biol., 387, 2009
2Z8I
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BU of 2z8i by Molmil
Crystal Structure of Escherichia coli Gamma-Glutamyltranspeptidase in Complex with Azaserine
Descriptor: Gamma-glutamyltranspeptidase, O-DIAZOACETYL-L-SERINE
Authors:Wada, K, Irie, M, Fukuyama, K.
Deposit date:2007-09-05
Release date:2008-06-24
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Crystal structures of Escherichia coli gamma-glutamyltranspeptidase in complex with azaserine and acivicin: novel mechanistic implication for inhibition by glutamine antagonists
J.Mol.Biol., 380, 2008
2Z8K
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BU of 2z8k by Molmil
Crystal Structure of Escherichia coli gamma-Glutamyltranspeptidase in Complex with Acivicin
Descriptor: (2S)-AMINO[(5S)-3-CHLORO-4,5-DIHYDROISOXAZOL-5-YL]ACETIC ACID, Gamma-glutamyltranspeptidase
Authors:Wada, K, Irie, M, Fukuyama, K.
Deposit date:2007-09-05
Release date:2008-06-24
Last modified:2012-04-04
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Crystal structures of Escherichia coli gamma-glutamyltranspeptidase in complex with azaserine and acivicin: novel mechanistic implication for inhibition by glutamine antagonists
J.Mol.Biol., 380, 2008
2Z8J
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BU of 2z8j by Molmil
Crystal Structure of Escherichia coli gamma-Glutamyltranspeptidase in Complex with Azaserine prepared in the dark
Descriptor: Gamma-glutamyltranspeptidase, O-DIAZOACETYL-L-SERINE
Authors:Wada, K, Irie, M, Fukuyama, K.
Deposit date:2007-09-05
Release date:2008-06-24
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Crystal structures of Escherichia coli gamma-glutamyltranspeptidase in complex with azaserine and acivicin: novel mechanistic implication for inhibition by glutamine antagonists
J.Mol.Biol., 380, 2008
2D2A
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BU of 2d2a by Molmil
Crystal Structure of Escherichia coli SufA Involved in Biosynthesis of Iron-sulfur Clusters
Descriptor: SufA protein
Authors:Wada, K, Hasegawa, Y, Gong, Z, Minami, Y, Fukuyama, K, Takahashi, Y.
Deposit date:2005-09-05
Release date:2005-12-13
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of Escherichia coli SufA involved in biosynthesis of iron-sulfur clusters: Implications for a functional dimer
Febs Lett., 579, 2005
2E0N
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BU of 2e0n by Molmil
Crystal structure of CbiL in complex with S-adenosylhomocysteine, a methyltransferase involved in anaerobic vitamin B12 biosynthesis
Descriptor: Precorrin-2 C20-methyltransferase, S-ADENOSYL-L-HOMOCYSTEINE
Authors:Wada, K, Fukuyama, K.
Deposit date:2006-10-10
Release date:2007-01-16
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structures of CbiL, a methyltransferase involved in anaerobic vitamin B biosynthesis, and CbiL in complex with S-adenosylhomocysteine--implications for the reaction mechanism.
Febs J., 274, 2007
2E0K
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BU of 2e0k by Molmil
Crystal structure of CbiL, a methyltransferase involved in anaerobic vitamin B12 biosynthesis
Descriptor: Precorrin-2 C20-methyltransferase
Authors:Wada, K, Fukuyama, K.
Deposit date:2006-10-10
Release date:2007-01-16
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structures of CbiL, a methyltransferase involved in anaerobic vitamin B biosynthesis, and CbiL in complex with S-adenosylhomocysteine--implications for the reaction mechanism.
Febs J., 274, 2007
1UB2
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BU of 1ub2 by Molmil
Crystal structure of catalase-peroxidase from Synechococcus PCC 7942
Descriptor: Catalase-peroxidase, PROTOPORPHYRIN IX CONTAINING FE
Authors:Wada, K, Tada, T.
Deposit date:2003-03-28
Release date:2004-03-28
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of catalase-peroxidase from Synechococcus PCC 7942
To be Published
7YL8
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BU of 7yl8 by Molmil
Neutron structure of Bacillus thermoproteolyticus Ferredoxin at room temperature
Descriptor: Ferredoxin, IRON/SULFUR CLUSTER
Authors:Unno, M, Wada, K, Kobayashi, K.
Deposit date:2022-07-25
Release date:2024-02-07
Method:NEUTRON DIFFRACTION (1.45 Å), X-RAY DIFFRACTION
Cite:Protonation/deprotonation-driven switch for the redox stability of the low-potential [4Fe-4S] ferredoxin
To Be Published
1X1D
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BU of 1x1d by Molmil
Crystal structure of BchU complexed with S-adenosyl-L-homocysteine and Zn-bacteriopheophorbide d
Descriptor: CrtF-related protein, GLYCEROL, S-ADENOSYL-L-HOMOCYSTEINE, ...
Authors:Yamaguchi, H, Wada, K, Fukuyama, K.
Deposit date:2005-04-04
Release date:2006-07-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal Structures of BchU, a Methyltransferase Involved in Bacteriochlorophyll c Biosynthesis, and its Complex with S-adenosylhomocysteine: Implications for Reaction Mechanism.
J.Mol.Biol., 360, 2006
1X1B
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BU of 1x1b by Molmil
Crystal structure of BchU complexed with S-adenosyl-L-homocysteine
Descriptor: CrtF-related protein, GLYCEROL, S-ADENOSYL-L-HOMOCYSTEINE, ...
Authors:Yamaguchi, H, Wada, K, Fukuyama, K.
Deposit date:2005-04-03
Release date:2006-07-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structures of BchU, a Methyltransferase Involved in Bacteriochlorophyll c Biosynthesis, and its Complex with S-adenosylhomocysteine: Implications for Reaction Mechanism.
J.Mol.Biol., 360, 2006
1X19
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BU of 1x19 by Molmil
Crystal structure of BchU involved in bacteriochlorophyll c biosynthesis
Descriptor: CrtF-related protein, SULFATE ION
Authors:Yamaguchi, H, Wada, K, Fukuyama, K.
Deposit date:2005-04-02
Release date:2006-07-18
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.27 Å)
Cite:Crystal Structures of BchU, a Methyltransferase Involved in Bacteriochlorophyll c Biosynthesis, and its Complex with S-adenosylhomocysteine: Implications for Reaction Mechanism.
J.Mol.Biol., 360, 2006
1X1C
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BU of 1x1c by Molmil
Crystal structure of BchU complexed with S-adenosyl-L-homocysteine and Zn2+
Descriptor: CrtF-related protein, GLYCEROL, S-ADENOSYL-L-HOMOCYSTEINE, ...
Authors:Yamaguchi, H, Wada, K, Fukuyama, K.
Deposit date:2005-04-03
Release date:2006-07-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Crystal Structures of BchU, a Methyltransferase Involved in Bacteriochlorophyll c Biosynthesis, and its Complex with S-adenosylhomocysteine: Implications for Reaction Mechanism.
J.Mol.Biol., 360, 2006
1X1A
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BU of 1x1a by Molmil
Crystal structure of BchU complexed with S-adenosyl-L-methionine
Descriptor: CrtF-related protein, GLYCEROL, S-ADENOSYLMETHIONINE, ...
Authors:Yamaguchi, H, Wada, K, Fukuyama, K.
Deposit date:2005-04-03
Release date:2006-07-18
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structures of BchU, a Methyltransferase Involved in Bacteriochlorophyll c Biosynthesis, and its Complex with S-adenosylhomocysteine: Implications for Reaction Mechanism.
J.Mol.Biol., 360, 2006
5B5T
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BU of 5b5t by Molmil
Crystal Structure of Escherichia coli Gamma-Glutamyltranspeptidase in Complex with peptidyl phosphonate inhibitor 1b
Descriptor: (2~{S})-2-azanyl-4-[(2~{R})-1-(2-hydroxy-2-oxoethylamino)-1-oxidanylidene-butan-2-yl]oxyphosphonoyl-butanoic acid, CALCIUM ION, Gamma-glutamyltranspeptidase large chain, ...
Authors:Wada, K, Fukuyama, K.
Deposit date:2016-05-18
Release date:2016-09-28
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Phosphonate-based irreversible inhibitors of human gamma-glutamyl transpeptidase (GGT). GGsTop is a non-toxic and highly selective inhibitor with critical electrostatic interaction with an active-site residue Lys562 for enhanced inhibitory activity
Bioorg.Med.Chem., 24, 2016
3WHQ
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BU of 3whq by Molmil
Crystal structure of gamma-glutamyltranspeptidase from Bacillus subtilis (crystal soaked for 0 min. in acivicin soln. )
Descriptor: Gamma-glutamyltranspeptidase large chain, Gamma-glutamyltranspeptidase small chain
Authors:Wada, K, Fukuyama, K.
Deposit date:2013-08-30
Release date:2014-02-19
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Structure of Bacillus subtilis gamma-glutamyltranspeptidase in complex with acivicin: diversity of the binding mode of a classical and electrophilic active-site-directed glutamate analogue.
Acta Crystallogr.,Sect.D, 70, 2014
3WHS
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BU of 3whs by Molmil
Crystal structure of Bacillus subtilis gamma-glutamyltranspeptidase in complex with acivicin
Descriptor: (2S)-AMINO[(5S)-3-CHLORO-4,5-DIHYDROISOXAZOL-5-YL]ACETIC ACID, Gamma-glutamyltranspeptidase large chain, Gamma-glutamyltranspeptidase small chain
Authors:Wada, K, Fukuyama, K.
Deposit date:2013-08-30
Release date:2014-02-19
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structure of Bacillus subtilis gamma-glutamyltranspeptidase in complex with acivicin: diversity of the binding mode of a classical and electrophilic active-site-directed glutamate analogue.
Acta Crystallogr.,Sect.D, 70, 2014
3WXO
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BU of 3wxo by Molmil
Crystal structure of isoniazid bound KatG catalase peroxidase from Synechococcus elongatus PCC7942
Descriptor: Catalase-peroxidase, PROTOPORPHYRIN IX CONTAINING FE, SODIUM ION, ...
Authors:Wada, K, Tada, T, Kamachi, S.
Deposit date:2014-08-04
Release date:2015-01-21
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.12 Å)
Cite:The crystal structure of isoniazid-bound KatG catalase-peroxidase from Synechococcus elongatus PCC7942.
Febs J., 282, 2015
4QCD
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BU of 4qcd by Molmil
Neutron crystal structure of phycocyanobilin:ferredoxin oxidoreductase in complex with biliverdin IXalpha at room temperature.
Descriptor: BILIVERDINE IX ALPHA, Phycocyanobilin:ferredoxin oxidoreductase, trideuteriooxidanium
Authors:Unno, M, Ishikawa-Suto, K, Ishihara, M, Hagiwara, Y, Sugishima, M, Wada, K, Fukuyama, K.
Deposit date:2014-05-10
Release date:2015-04-29
Last modified:2024-03-20
Method:NEUTRON DIFFRACTION (1.932 Å), X-RAY DIFFRACTION
Cite:Insights into the Proton Transfer Mechanism of a Bilin Reductase PcyA Following Neutron Crystallography.
J. Am. Chem. Soc., 137, 2015
6KME
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BU of 6kme by Molmil
Crystal structure of phytochromobilin synthase from tomato in complex with biliverdin
Descriptor: BILIVERDINE IX ALPHA, CHLORIDE ION, MAGNESIUM ION, ...
Authors:Sugishima, M, Wada, K, Fukuyama, K.
Deposit date:2019-07-31
Release date:2019-12-18
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Crystal structure of phytochromobilin synthase in complex with biliverdin IX alpha , a key enzyme in the biosynthesis of phytochrome.
J.Biol.Chem., 295, 2020
6KMD
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BU of 6kmd by Molmil
Crystal structure of SeMet-phytochromobilin synthase from tomato in complex with biliverdin
Descriptor: BILIVERDINE IX ALPHA, CHLORIDE ION, MAGNESIUM ION, ...
Authors:Sugishima, M, Wada, K, Fukuyama, K.
Deposit date:2019-07-31
Release date:2019-12-18
Last modified:2020-01-29
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of phytochromobilin synthase in complex with biliverdin IX alpha , a key enzyme in the biosynthesis of phytochrome.
J.Biol.Chem., 295, 2020

 

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