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PDB: 102 results

8K5S
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BU of 8k5s by Molmil
The structure of EntE with 3-(prop-2-yn-1-yloxy)benzoic acid sulfamoyl adenosine
Descriptor: Enterobactin synthase component E, [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-(3-prop-2-ynoxyphenyl)carbonylsulfamate
Authors:Miyanaga, A, Ishikawa, F.
Deposit date:2023-07-24
Release date:2024-07-31
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:Reprogrammed aryl acid adenylation domain with an enlarged substrate binding pocket
To be published
8K5T
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BU of 8k5t by Molmil
The structure of EntE with2-methyl-3-chloro-benzoic acid sulfamoyl adenosine
Descriptor: Enterobactin synthase component E, [(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-(3-chloranyl-2-methyl-phenyl)carbonylsulfamate
Authors:Miyanaga, A, Ishikawa, F.
Deposit date:2023-07-24
Release date:2024-07-31
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Reprogrammed aryl acid adenylation domain with an enlarged substrate binding pocket
To be published
8K4R
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BU of 8k4r by Molmil
Structure of VinM-VinL complex
Descriptor: Acyl-carrier-protein, Non-ribosomal peptide synthetase, SODIUM ION, ...
Authors:Miyanaga, A, Nagata, K, Nakajima, J, Chisuga, T, Kudo, F, Eguchi, T.
Deposit date:2023-07-20
Release date:2023-11-01
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural Basis of Amide-Forming Adenylation Enzyme VinM in Vicenistatin Biosynthesis.
Acs Chem.Biol., 18, 2023
6M01
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BU of 6m01 by Molmil
The structure of HitB-HitD complex
Descriptor: ADENOSINE-5'-DIPHOSPHATE, GLYCEROL, N-[2-(acetylamino)ethyl]-N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alaninamide, ...
Authors:Miyanaga, A, Kurihara, S, Kudo, F, Eguchi, T.
Deposit date:2020-02-19
Release date:2020-07-08
Last modified:2024-10-23
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural Characterization of Complex of Adenylation Domain and Carrier Protein by Using Pantetheine Cross-Linking Probe.
Acs Chem.Biol., 15, 2020
1IRE
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BU of 1ire by Molmil
Crystal Structure of Co-type nitrile hydratase from Pseudonocardia thermophila
Descriptor: COBALT (II) ION, Nitrile Hydratase
Authors:Miyanaga, A, Fushinobu, S, Ito, K, Wakagi, T.
Deposit date:2001-10-01
Release date:2002-10-01
Last modified:2024-11-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of cobalt-containing nitrile hydratase.
Biochem.Biophys.Res.Commun., 288, 2001
5Y1I
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BU of 5y1i by Molmil
The crystal structure of GfsF
Descriptor: Cytochrome P450, DI(HYDROXYETHYL)ETHER, PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Miyanaga, A, Kudo, F, Eguchi, T.
Deposit date:2017-07-20
Release date:2017-09-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Substrate Recognition by a Dual-Function P450 Monooxygenase GfsF Involved in FD-891 Biosynthesis
Chembiochem, 18, 2017
1WD3
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BU of 1wd3 by Molmil
Crystal structure of arabinofuranosidase
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-L-arabinofuranosidase B
Authors:Miyanaga, A, Koseki, T, Matsuzawa, H, Wakagi, T, Shoun, H, Fushinobu, S.
Deposit date:2004-05-11
Release date:2004-09-14
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of a family 54 alpha-L-arabinofuranosidase reveals a novel carbohydrate-binding module that can bind arabinose
J.Biol.Chem., 279, 2004
1WD4
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BU of 1wd4 by Molmil
Crystal structure of arabinofuranosidase complexed with arabinose
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-L-arabinofuranose, alpha-L-arabinofuranosidase B
Authors:Miyanaga, A, Koseki, T, Matsuzawa, H, Wakagi, T, Shoun, H, Fushinobu, S.
Deposit date:2004-05-11
Release date:2004-09-14
Last modified:2024-11-20
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Crystal structure of a family 54 alpha-L-arabinofuranosidase reveals a novel carbohydrate-binding module that can bind arabinose
J.Biol.Chem., 279, 2004
2D43
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BU of 2d43 by Molmil
Crystal structure of arabinofuranosidase complexed with arabinotriose
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-L-arabinofuranose-(1-5)-alpha-L-arabinofuranose, alpha-L-arabinofuranosidase B
Authors:Miyanaga, A, Koseki, T, Miwa, Y, Matsuzawa, H, Wakagi, T, Shoun, H, Fushinobu, S.
Deposit date:2005-10-07
Release date:2006-09-19
Last modified:2024-10-16
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:The family 42 carbohydrate-binding module of family 54 alpha-L-arabinofuranosidase specifically binds the arabinofuranose side chain of hemicellulose
Biochem.J., 399, 2006
2D44
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BU of 2d44 by Molmil
Crystal structure of arabinofuranosidase complexed with arabinofuranosyl-alpha-1,2-xylobiose
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, alpha-L-arabinofuranose-(1-2)-alpha-D-xylopyranose-(1-4)-alpha-D-xylopyranose, alpha-L-arabinofuranosidase B
Authors:Miyanaga, A, Koseki, T, Miwa, Y, Matsuzawa, H, Wakagi, T, Shoun, H, Fushinobu, S.
Deposit date:2005-10-07
Release date:2006-09-19
Last modified:2024-11-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:The family 42 carbohydrate-binding module of family 54 alpha-L-arabinofuranosidase specifically binds the arabinofuranose side chain of hemicellulose
Biochem.J., 399, 2006
1UGS
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BU of 1ugs by Molmil
Crystal structure of aY114T mutant of Co-type nitrile hydratase
Descriptor: COBALT (II) ION, Nitrile Hydratase alpha subunit, Nitrile Hydratase beta subunit
Authors:Miyanaga, A, Fushinobu, S, Ito, K, Shoun, H, Wakagi, T.
Deposit date:2003-06-17
Release date:2004-06-17
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (2 Å)
Cite:Mutational and structural analysis of cobalt-containing nitrile hydratase on substrate and metal binding
Eur.J.Biochem., 271, 2004
1UGQ
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BU of 1ugq by Molmil
Crystal structure of apoenzyme of Co-type nitrile hydratase
Descriptor: Nitrile Hydratase alpha subunit, Nitrile Hydratase beta subunit
Authors:Miyanaga, A, Fushinobu, S, Ito, K, Shoun, H, Wakagi, T.
Deposit date:2003-06-17
Release date:2004-06-17
Last modified:2024-10-30
Method:X-RAY DIFFRACTION (2 Å)
Cite:Mutational and structural analysis of cobalt-containing nitrile hydratase on substrate and metal binding
Eur.J.Biochem., 271, 2004
1UGR
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BU of 1ugr by Molmil
Crystal structure of aT109S mutant of Co-type nitrile hydratase
Descriptor: COBALT (II) ION, Nitrile Hydratase alpha subunit, Nitrile Hydratase beta subunit
Authors:Miyanaga, A, Fushinobu, S, Ito, K, Shoun, H, Wakagi, T.
Deposit date:2003-06-17
Release date:2004-06-17
Last modified:2024-11-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Mutational and structural analysis of cobalt-containing nitrile hydratase on substrate and metal binding
Eur.J.Biochem., 271, 2004
1UGP
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BU of 1ugp by Molmil
Crystal structure of Co-type nitrile hydratase complexed with n-butyric acid
Descriptor: COBALT (II) ION, Cobalt-containing nitrile hydratase subunit alpha, Cobalt-containing nitrile hydratase subunit beta, ...
Authors:Miyanaga, A, Fushinobu, S, Ito, K, Shoun, H, Wakagi, T.
Deposit date:2003-06-17
Release date:2004-06-17
Last modified:2022-12-21
Method:X-RAY DIFFRACTION (1.63 Å)
Cite:Mutational and structural analysis of cobalt-containing nitrile hydratase on substrate and metal binding
Eur.J.Biochem., 271, 2004
5CZD
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BU of 5czd by Molmil
The complex structure of VinK with VinL
Descriptor: 1,1'-ethane-1,2-diyldipyrrolidine-2,5-dione, 4'-PHOSPHOPANTETHEINE, Acyl-carrier-protein, ...
Authors:Miyanaga, A, Iwasawa, S, Shinohara, Y, Kudo, F, Eguchi, T.
Deposit date:2015-07-31
Release date:2016-02-03
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.34 Å)
Cite:Structure-based analysis of the molecular interactions between acyltransferase and acyl carrier protein in vicenistatin biosynthesis.
Proc.Natl.Acad.Sci.USA, 113, 2016
5CZC
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BU of 5czc by Molmil
The structure of VinK
Descriptor: CALCIUM ION, GLYCEROL, Malonyl-CoA-[acyl-carrier-protein] transacylase
Authors:Miyanaga, A, Iwasawa, S, Shinohara, Y, Kudo, F, Eguchi, T.
Deposit date:2015-07-31
Release date:2016-02-03
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structure-based analysis of the molecular interactions between acyltransferase and acyl carrier protein in vicenistatin biosynthesis.
Proc.Natl.Acad.Sci.USA, 113, 2016
7F2R
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BU of 7f2r by Molmil
Crystal structure of VinK-VinL covalent complex formed with a pantetheineamide cross-linking probe
Descriptor: Acyl-carrier-protein, Malonyl-CoA-[acyl-carrier-protein] transacylase, N-[2-(acetylamino)ethyl]-N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alaninamide
Authors:Miyanaga, A, Ouchi, R, Kudo, F, Eguchi, T.
Deposit date:2021-06-14
Release date:2021-09-01
Last modified:2024-11-06
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Complex structure of the acyltransferase VinK and the carrier protein VinL with a pantetheine cross-linking probe.
Acta Crystallogr.,Sect.F, 77, 2021
5ZK4
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BU of 5zk4 by Molmil
The structure of DSZS acyltransferase with carrier protein
Descriptor: DisA protein, DisD protein, N-[2-(acetylamino)ethyl]-N~3~-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alaninamide, ...
Authors:Miyanaga, A, Ouchi, R, Kudo, F, Eguchi, T.
Deposit date:2018-03-23
Release date:2018-06-13
Last modified:2024-11-13
Method:X-RAY DIFFRACTION (2.03 Å)
Cite:Structural basis of protein-protein interactions between a trans-acting acyltransferase and acyl carrier protein in polyketide disorazole biosynthesis
J. Am. Chem. Soc., 140, 2018
3WFI
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BU of 3wfi by Molmil
The crystal structure of D-mandelate dehydrogenase
Descriptor: 2-dehydropantoate 2-reductase
Authors:Miyanaga, A, Fujisawa, S, Furukawa, N, Arai, K, Nakajima, M, Taguchi, H.
Deposit date:2013-07-19
Release date:2014-07-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.997 Å)
Cite:The crystal structure of D-mandelate dehydrogenase reveals its distinct substrate and coenzyme recognition mechanisms from those of 2-ketopantoate reductase.
Biochem.Biophys.Res.Commun., 439, 2013
6IYL
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BU of 6iyl by Molmil
The structure of EntE with 3-cyanobenzoyl adenylate analog
Descriptor: 2,3-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex, 5'-O-[(3-cyanobenzene-1-carbonyl)sulfamoyl]adenosine
Authors:Miyanaga, A, Ishikawa, F.
Deposit date:2018-12-17
Release date:2019-04-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.56 Å)
Cite:An Engineered Aryl Acid Adenylation Domain with an Enlarged Substrate Binding Pocket.
Angew.Chem.Int.Ed.Engl., 58, 2019
6K96
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BU of 6k96 by Molmil
Crystal structure of Ari2
Descriptor: Five-membered-cyclitol-phosphate synthase, GLYCEROL, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ...
Authors:Miyanaga, A, Tsunoda, T, Kudo, F, Eguchi, T.
Deposit date:2019-06-14
Release date:2019-12-25
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Stereochemistry in the Reaction of themyo-Inositol Phosphate Synthase Ortholog Ari2 during Aristeromycin Biosynthesis.
Biochemistry, 58, 2019
3WFJ
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BU of 3wfj by Molmil
The complex structure of D-mandelate dehydrogenase with NADH
Descriptor: 2-dehydropantoate 2-reductase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE
Authors:Miyanaga, A, Fujisawa, S, Furukawa, N, Arai, K, Nakajima, M, Taguchi, H.
Deposit date:2013-07-19
Release date:2014-07-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:The crystal structure of D-mandelate dehydrogenase reveals its distinct substrate and coenzyme recognition mechanisms from those of 2-ketopantoate reductase.
Biochem.Biophys.Res.Commun., 439, 2013
6IYK
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BU of 6iyk by Molmil
The structure of EntE with 2-nitrobenzoyl adenylate analog
Descriptor: 2,3-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex, 5'-O-[(2-nitrobenzene-1-carbonyl)sulfamoyl]adenosine
Authors:Miyanaga, A, Ishikawa, F.
Deposit date:2018-12-17
Release date:2019-04-17
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:An Engineered Aryl Acid Adenylation Domain with an Enlarged Substrate Binding Pocket.
Angew.Chem.Int.Ed.Engl., 58, 2019
3WV5
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BU of 3wv5 by Molmil
Complex structure of VinN with 3-methylaspartate
Descriptor: (2S,3S)-3-methyl-aspartic acid, Non-ribosomal peptide synthetase
Authors:Miyanaga, A, Cieslak, J, Shinohara, Y, Kudo, F, Eguchi, T.
Deposit date:2014-05-15
Release date:2014-10-01
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:The crystal structure of the adenylation enzyme VinN reveals a unique beta-amino acid recognition mechanism
J.Biol.Chem., 289, 2014
3WV4
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BU of 3wv4 by Molmil
Crystal structure of VinN
Descriptor: Non-ribosomal peptide synthetase
Authors:Miyanaga, A, Cieslak, J, Shinohara, Y, Kudo, F, Eguchi, T.
Deposit date:2014-05-15
Release date:2014-10-01
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:The crystal structure of the adenylation enzyme VinN reveals a unique beta-amino acid recognition mechanism
J.Biol.Chem., 289, 2014

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