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2KZB
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BU of 2kzb by Molmil
Solution structure of alpha-mannosidase binding domain of Atg19
Descriptor: Autophagy-related protein 19
Authors:Watanabe, Y, Noda, N, Kumeta, H, Suzuki, K, Ohsumi, Y, Inagaki, F.
Deposit date:2010-06-15
Release date:2010-07-21
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:Selective transport of alpha-mannosidase by autophagic pathways: structural basis for cargo recognition by Atg19 and Atg34.
J.Biol.Chem., 285, 2010
2KZK
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BU of 2kzk by Molmil
Solution structure of alpha-mannosidase binding domain of Atg34
Descriptor: Uncharacterized protein YOL083W
Authors:Watanabe, Y, Noda, N, Kumeta, H, Suzuki, K, Ohsumi, Y, Inagaki, F.
Deposit date:2010-06-18
Release date:2010-07-21
Last modified:2023-06-14
Method:SOLUTION NMR
Cite:Selective transport of alpha-mannosidase by autophagic pathways: structural basis for cargo recognition by Atg19 and Atg34.
J.Biol.Chem., 285, 2010
4YTV
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BU of 4ytv by Molmil
Crystal structure of Mdm35
Descriptor: COBALT (II) ION, GLYCEROL, Mitochondrial distribution and morphology protein 35
Authors:Watanabe, Y, Tamura, Y, Kawano, S, Endo, T.
Deposit date:2015-03-18
Release date:2015-08-12
Last modified:2020-02-05
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Structural and mechanistic insights into phospholipid transfer by Ups1-Mdm35 in mitochondria.
Nat Commun, 6, 2015
4YTW
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BU of 4ytw by Molmil
Crystal structure of Ups1-Mdm35 complex
Descriptor: Mitochondrial distribution and morphology protein 35, Protein UPS1, mitochondrial
Authors:Watanabe, Y, Tamura, Y, Kawano, S, Endo, T.
Deposit date:2015-03-18
Release date:2015-08-12
Last modified:2020-02-05
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Structural and mechanistic insights into phospholipid transfer by Ups1-Mdm35 in mitochondria.
Nat Commun, 6, 2015
4YTX
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BU of 4ytx by Molmil
Crystal structure of Ups1-Mdm35 complex with PA
Descriptor: 1,2-DILAUROYL-SN-GLYCERO-3-PHOSPHATE, Mitochondrial distribution and morphology protein 35, Protein UPS1, ...
Authors:Watanabe, Y, Tamura, Y, Kawano, S, Endo, T.
Deposit date:2015-03-18
Release date:2015-08-12
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structural and mechanistic insights into phospholipid transfer by Ups1-Mdm35 in mitochondria.
Nat Commun, 6, 2015
7BYU
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BU of 7byu by Molmil
Crystal structure of Acidovorax avenae L-fucose mutarotase (apo form)
Descriptor: 1,2-ETHANEDIOL, 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL, L-fucose mutarotase
Authors:Watanabe, Y, Fukui, Y, Watanabe, S.
Deposit date:2020-04-24
Release date:2020-05-27
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.206 Å)
Cite:Functional and structural characterization of a novel L-fucose mutarotase involved in non-phosphorylative pathway of L-fucose metabolism.
Biochem.Biophys.Res.Commun., 528, 2020
7BYW
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BU of 7byw by Molmil
Crystal structure of Acidovorax avenae L-fucose mutarotase (L-fucose-bound form)
Descriptor: 2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL, L-fucose mutarotase, alpha-L-fucopyranose
Authors:Watanabe, Y, Watanabe, S.
Deposit date:2020-04-24
Release date:2020-05-27
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Functional and structural characterization of a novel L-fucose mutarotase involved in non-phosphorylative pathway of L-fucose metabolism.
Biochem.Biophys.Res.Commun., 528, 2020
6J7C
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BU of 6j7c by Molmil
Crystal structure of proline racemase-like protein from Thermococcus litoralis in complex with proline
Descriptor: PROLINE, Proline racemase
Authors:Watanabe, Y, Watanabe, S, Itoh, Y, Watanabe, Y.
Deposit date:2019-01-17
Release date:2019-02-27
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of substrate-bound bifunctional proline racemase/hydroxyproline epimerase from a hyperthermophilic archaeon.
Biochem. Biophys. Res. Commun., 511, 2019
3VU4
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BU of 3vu4 by Molmil
Crystal structure of Kluyvelomyces marxianus Hsv2
Descriptor: KmHsv2, SULFATE ION
Authors:Watanabe, Y, Noda, N.N.
Deposit date:2012-06-15
Release date:2012-07-04
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structure-based analyses reveal distinct binding sites for Atg2 and phosphoinositides in Atg18.
J.Biol.Chem., 287, 2012
5AUJ
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BU of 5auj by Molmil
Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative
Descriptor: DNA polymerase sliding clamp
Authors:Watanabe, Y, Oyama, T.
Deposit date:2015-04-21
Release date:2016-04-27
Last modified:2020-02-19
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative
To Be Published
7YPD
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BU of 7ypd by Molmil
Discovery and characterization of a new carbonyl reductase from Rhodotorula toluroides reducing fluoroketones, and X-ray analysis of the variant by rational engineering
Descriptor: Carbonyl reductase, MAGNESIUM ION
Authors:Watanabe, Y, Asano, Y, Hibi, M.
Deposit date:2022-08-03
Release date:2024-02-07
Method:X-RAY DIFFRACTION (1.27 Å)
Cite:Discovery and characterization of a new carbonyl reductase from Rhodotorula toluroides reducing fluoroketones, and X-ray analysis of the variant by rational engineering
To Be Published
6JNJ
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BU of 6jnj by Molmil
Crystal structure of Azospirillum brasilense L-arabinose 1-dehydrogenase (apo-form)
Descriptor: L-arabinose 1-dehydrogenase (NAD(P)(+)), PHOSPHATE ION
Authors:Watanabe, Y, Iga, C, Watanabe, S.
Deposit date:2019-03-16
Release date:2019-05-15
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Structural insights into the catalytic and substrate recognition mechanisms of bacterial l-arabinose 1-dehydrogenase.
Febs Lett., 593, 2019
6JNK
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BU of 6jnk by Molmil
Crystal structure of Azospirillum brasilense L-arabinose 1-dehydrogenase (NADP-bound form)
Descriptor: L-arabinose 1-dehydrogenase (NAD(P)(+)), NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Authors:Watanabe, Y, Iga, C, Watanabe, S.
Deposit date:2019-03-16
Release date:2019-05-15
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural insights into the catalytic and substrate recognition mechanisms of bacterial l-arabinose 1-dehydrogenase.
Febs Lett., 593, 2019
6L06
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BU of 6l06 by Molmil
Crystal structure of Escherichia coli phosphatidylserine decarboxylase (apo-form)
Descriptor: Phosphatidylserine decarboxylase alpha chain, Phosphatidylserine decarboxylase beta chain
Authors:Watanabe, Y, Watanabe, S.
Deposit date:2019-09-26
Release date:2020-04-15
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural Basis for Phosphatidylethanolamine Biosynthesis by Bacterial Phosphatidylserine Decarboxylase.
Structure, 28, 2020
6L07
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BU of 6l07 by Molmil
Crystal structure of Escherichia coli phosphatidylserine decarboxylase (PE-bound form)
Descriptor: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine, Phosphatidylserine decarboxylase alpha chain, Phosphatidylserine decarboxylase beta chain
Authors:Watanabe, Y, Watanabe, S.
Deposit date:2019-09-26
Release date:2020-04-15
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (3.6 Å)
Cite:Structural Basis for Phosphatidylethanolamine Biosynthesis by Bacterial Phosphatidylserine Decarboxylase.
Structure, 28, 2020
6K9Y
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BU of 6k9y by Molmil
Crystal structure of human VAT-1
Descriptor: NITRATE ION, Synaptic vesicle membrane protein VAT-1 homolog
Authors:Watanabe, Y, Endo, T.
Deposit date:2019-06-19
Release date:2020-02-12
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structural basis for interorganelle phospholipid transport mediated by VAT-1.
J.Biol.Chem., 295, 2020
5JGE
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BU of 5jge by Molmil
Crystal structure of Atg19 coiled-coil complexed with Ape1 propeptide
Descriptor: Ape1 propeptide, Autophagy-related protein 19
Authors:Watanabe, Y, Noda, N.N.
Deposit date:2016-04-20
Release date:2016-06-29
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.91 Å)
Cite:Structural Basis for Receptor-Mediated Selective Autophagy of Aminopeptidase I Aggregates
Cell Rep, 16, 2016
5AZH
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BU of 5azh by Molmil
Crystal structure of LGG-2 fused with an EEEWEEL peptide
Descriptor: EEEWEEL peptide,Protein lgg-2, MAGNESIUM ION
Authors:Watanabe, Y, Fujioka, Y, Noda, N.N.
Deposit date:2015-10-05
Release date:2015-12-30
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural Basis of the Differential Function of the Two C. elegans Atg8 Homologs, LGG-1 and LGG-2, in Autophagy.
Mol.Cell, 60, 2015
5AZG
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BU of 5azg by Molmil
Crystal structure of LGG-1 complexed with a UNC-51 peptide
Descriptor: CADMIUM ION, Protein lgg-1, Serine/threonine-protein kinase unc-51
Authors:Watanabe, Y, Fujioka, Y, Noda, N.N.
Deposit date:2015-10-05
Release date:2015-12-30
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.81 Å)
Cite:Structural Basis of the Differential Function of the Two C. elegans Atg8 Homologs, LGG-1 and LGG-2, in Autophagy.
Mol.Cell, 60, 2015
5AON
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BU of 5aon by Molmil
Crystal structure of the conserved N-terminal domain of Pex14 from Trypanosoma brucei
Descriptor: PEROXIN 14, SULFATE ION
Authors:Obita, T, Sugawara, Y, Mizuguchi, M, Watanabe, Y, Kawaguchi, K, Imanaka, T.
Deposit date:2015-09-11
Release date:2015-12-23
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.646 Å)
Cite:Characterization of the Interaction between Trypanosoma Brucei Pex5P and its Receptor Pex14P.
FEBS Lett., 590, 2016
5AZF
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BU of 5azf by Molmil
Crystal structure of LGG-1 complexed with a WEEL peptide
Descriptor: CADMIUM ION, Protein lgg-1, SULFATE ION, ...
Authors:Watanabe, Y, Noda, N.N.
Deposit date:2015-10-05
Release date:2015-12-30
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Structural Basis of the Differential Function of the Two C. elegans Atg8 Homologs, LGG-1 and LGG-2, in Autophagy.
Mol.Cell, 60, 2015
7C0D
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BU of 7c0d by Molmil
Crystal structure of Azospirillum brasilense L-2-keto-3-deoxyarabonate dehydratase (Hydroxypyruvate-bound form)
Descriptor: L-2-keto-3-deoxyarabonate dehydratase
Authors:Watanabe, Y, Watanabe, S.
Deposit date:2020-05-01
Release date:2020-08-05
Last modified:2020-09-02
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily.
Biochemistry, 59, 2020
7C0E
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BU of 7c0e by Molmil
Crystal structure of Azospirillum brasilense L-2-keto-3-deoxyarabonate dehydratase (2-oxobutyrate-bound form)
Descriptor: L-2-keto-3-deoxyarabonate dehydratase
Authors:Watanabe, Y, Ono, A, Watanabe, S.
Deposit date:2020-05-01
Release date:2020-08-05
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.204 Å)
Cite:Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily.
Biochemistry, 59, 2020
7C0C
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BU of 7c0c by Molmil
Crystal structure of Azospirillum brasilense L-2-keto-3-deoxyarabonate dehydratase (apo form)
Descriptor: L-2-keto-3-deoxyarabonate dehydratase
Authors:Watanabe, Y, Nobuchi, R, Watanabe, S.
Deposit date:2020-05-01
Release date:2020-08-05
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Biochemical and Structural Characterization of l-2-Keto-3-deoxyarabinonate Dehydratase: A Unique Catalytic Mechanism in the Class I Aldolase Protein Superfamily.
Biochemistry, 59, 2020
2E2Y
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BU of 2e2y by Molmil
Crystal Structure of F43W/H64D/V68I Myoglobin
Descriptor: GLYCEROL, Myoglobin, PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Ohki, T, Ueno, T, Hikage, T, Suzuki, A, Yamane, T, Watanabe, Y.
Deposit date:2006-11-18
Release date:2007-10-23
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Reactivities of oxo and peroxo intermediates studied by hemoprotein mutants
Acc.Chem.Res., 40, 2007

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