Author results

6J7C
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CRYSTAL STRUCTURE OF PROLINE RACEMASE-LIKE PROTEIN FROM THERMOCOCCUS LITORALIS IN COMPLEX WITH PROLINE
Descriptor:Proline racemase, PROLINE
Authors:Watanabe, Y., Watanabe, S., Itoh, Y., Watanabe, Y.
Deposit date:2019-01-17
Release date:2019-02-27
Last modified:2019-03-13
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
6JNJ
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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:2019-05-22
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., 2019
6JNK
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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:2019-05-22
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., 2019
2KZB
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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:2014-03-12
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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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:2014-03-12
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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CRYSTAL STRUCTURE OF MDM35
Descriptor:Mitochondrial distribution and morphology protein 35, GLYCEROL, COBALT (II) ION
Authors:Watanabe, Y., Tamura, Y., Kawano, S., Endo, T.
Deposit date:2015-03-18
Release date:2015-08-12
Last modified:2015-09-09
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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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:2015-09-09
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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CRYSTAL STRUCTURE OF UPS1-MDM35 COMPLEX WITH PA
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:2015-09-09
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structural and mechanistic insights into phospholipid transfer by Ups1-Mdm35 in mitochondria.
Nat Commun, 6, 2015
3VU4
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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
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal structure of Kluyveromyces marxianus Hsv2
To be Published
5AUJ
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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
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Pyrococcus furiosus proliferating cell nuclear antigen (PCNA) SeMet derivative
To Be Published
5AON
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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:2016-02-10
Method:X-RAY DIFFRACTION (1.646 Å)
Cite:Characterization of the Interaction between Trypanosoma Brucei Pex5P and its Receptor Pex14P.
FEBS Lett., 590, 2016
5AZG
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CRYSTAL STRUCTURE OF LGG-1 COMPLEXED WITH A UNC-51 PEPTIDE
Descriptor:Protein lgg-1, Serine/threonine-protein kinase unc-51, CADMIUM ION
Authors:Watanabe, Y., Fujioka, Y., Noda, N.N.
Deposit date:2015-10-05
Release date:2015-12-30
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
5AZH
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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
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
5AZF
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CRYSTAL STRUCTURE OF LGG-1 COMPLEXED WITH A WEEL PEPTIDE
Descriptor:Protein lgg-1, peptide from Autophagy-related protein 19, CADMIUM ION, ...
Authors:Watanabe, Y., Noda, N.N.
Deposit date:2015-10-05
Release date:2015-12-30
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
5JGE
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CRYSTAL STRUCTURE OF ATG19 COILED-COIL COMPLEXED WITH APE1 PROPEPTIDE
Descriptor:Autophagy-related protein 19, Ape1 propeptide
Authors:Watanabe, Y., Noda, N.N.
Deposit date:2016-04-20
Release date:2016-06-29
Last modified:2016-07-13
Method:X-RAY DIFFRACTION (1.91 Å)
Cite:Structural Basis for Receptor-Mediated Selective Autophagy of Aminopeptidase I Aggregates
Cell Rep, 16, 2016
2E2Y
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CRYSTAL STRUCTURE OF F43W/H64D/V68I MYOGLOBIN
Descriptor:Myoglobin, SULFATE ION, 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:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Reactivities of oxo and peroxo intermediates studied by hemoprotein mutants
Acc.Chem.Res., 40, 2007
3VM4
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CYTOCHROME P450SP ALPHA (CYP152B1) IN COMPLEX WITH (R)-IBUPROPHEN
Descriptor:Fatty acid alpha-hydroxylase, PROTOPORPHYRIN IX CONTAINING FE, (2R)-2-[4-(2-methylpropyl)phenyl]propanoic acid, ...
Authors:Fujishiro, T., Shoji, O., Nagano, S., Sugimoto, H., Shiro, Y., Watanabe, Y.
Deposit date:2011-12-08
Release date:2012-05-09
Last modified:2013-08-14
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Chiral-substrate-assisted stereoselective epoxidation catalyzed by H2O2-dependent cytochrome P450SP alpha
Chem Asian J, 7, 2012
5XHL
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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
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal Structure of HasAp with Gallium Phthalocyanine
to be published
1D8J
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SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA
Descriptor:GENERAL TRANSCRIPTION FACTOR TFIIE-BETA
Authors:Okuda, M., Watanabe, Y., Okamura, H., Hanaoka, F., Ohkuma, Y., Nishimura, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1999-10-25
Release date:2000-04-26
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
1D8K
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SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA
Descriptor:GENERAL TRANSCRIPTION FACTOR TFIIE-BETA
Authors:Okuda, M., Watanabe, Y., Okamura, H., Hanaoka, F., Ohkuma, Y., Nishimura, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:1999-10-25
Release date:2000-04-26
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structure of the central core domain of TFIIEbeta with a novel double-stranded DNA-binding surface.
EMBO J., 19, 2000
1J3F
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CRYSTAL STRUCTURE OF AN ARTIFICIAL METALLOPROTEIN:CR(III)(3,3'-ME2-SALOPHEN)/APO-A71G MYOGLOBIN
Descriptor:Myoglobin, CHROMIUM ION, PHOSPHATE ION, ...
Authors:Koshiyama, T., Kono, M., Ohashi, M., Ueno, T., Suzuki, A., Yamane, T., Watanabe, Y.
Deposit date:2003-01-24
Release date:2004-05-18
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:Coordinated Design of Cofactor and Active Site Structures in Development of New Protein Catalysts
J.Am.Chem.Soc., 127, 2005
1WSS
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HUMAN FACTOR VIIA-TISSUE FACTOR IN COMPLEX WITH PEPTIDE-MIMETIC INHIBITOR THAT HAS TWO CHARGED GROUPS IN P2 AND P4
Descriptor:Coagulation factor VII, Tissue factor, BETA-D-GLUCOSE, ...
Authors:Kadono, S., Sakamoto, A., Kikuchi, Y., Oh-Eda, M., Yabuta, N., Koga, T., Hattori, K., Shiraishi, T., Haramura, M., Kodama, H., Ono, Y., Esaki, T., Sato, H., Watanabe, Y., Itoh, S., Ohta, M., Kozono, T.
Deposit date:2004-11-10
Release date:2005-11-10
Last modified:2014-07-23
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structure of human factor VIIa/tissue factor in complex with a peptide-mimetic inhibitor: high selectivity against thrombin by introducing two charged groups in P2 and P4.
Acta Crystallogr.,Sect.F, 61, 2005
1WTG
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HUMAN FACTOR VIIA-TISSUE FACTOR COMPLEXED WITH ETHYLSULFONAMIDE-D-BIPHENYLALANINE-GLN-P-AMINOBENZAMIDINE
Descriptor:Coagulation factor VII, Tissue factor, BETA-D-GLUCOSE, ...
Authors:Kadono, S., Sakamoto, S., Kikuchi, Y., Oh-Eda, M., Yabuta, N., Kitazawa, K., Yoshihashi, T., Suzuki, T., Koga, T., Hattori, K., Shiraishi, T., Kodama, M., Haramura, H., Ono, Y., Esaki, T., Sato, H., Watanabe, Y., Itoh, S., Ohta, M., Kozono, T.
Deposit date:2004-11-23
Release date:2005-11-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Novel interactions of large P3 moiety and small P4 moiety in the binding of the peptide mimetic factor VIIa inhibitor
Biochem.Biophys.Res.Commun., 326, 2005
1WUN
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HUMAN FACTOR VIIA-TISSUE FACTOR COMPLEXED WITH ETHYLSULFONAMIDE-D-TRP-GLN-P-AMINOBENZAMIDINE
Descriptor:Coagulation factor VII, Tissue factor, BETA-D-GLUCOSE, ...
Authors:Kadono, S., Sakamoto, A., Kikuchi, Y., Oh-eda, M., Yabuta, N., Yoshihashi, K., Kitazawa, T., Suzuki, T., Koga, T., Hattori, K., Shiraishi, T., Haramura, M., Kodama, H., Ono, Y., Esaki, T., Sato, H., Watanabe, Y., Itoh, S., Ohta, M., Kozono, T.
Deposit date:2004-12-08
Release date:2005-12-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structure-based design of P3 moieties in the peptide mimetic factor VIIa inhibitor
Biochem.Biophys.Res.Commun., 327, 2005
1WV7
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HUMAN FACTOR VIIA-TISSUE FACTOR COMPLEXED WITH ETHYLSULFONAMIDE-D-5-PROPOXY-TRP-GLN-P-AMINOBENZAMIDINE
Descriptor:Coagulation factor VII, Tissue factor, BETA-D-GLUCOSE, ...
Authors:Kadono, S., Sakamoto, A., Kikuchi, Y., Oh-eda, M., Yabuta, N., Yoshihashi, K., Kitazawa, T., Suzuki, T., Koga, T., Hattori, K., Shiraishi, T., Haramura, M., Kodama, H., Ono, Y., Esaki, T., Sato, H., Watanabe, Y., Itoh, S., Ohta, M., Kozono, T.
Deposit date:2004-12-11
Release date:2005-12-11
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structure-based design of P3 moieties in the peptide mimetic factor VIIa inhibitor
Biochem.Biophys.Res.Commun., 327, 2005