Author results

5XGC
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CRYSTAL STRUCTURE OF SMGGDS-558
Descriptor:Rap1 GTPase-GDP dissociation stimulator 1
Authors:Shimizu, H., Toma-Fukai, S., Shimizu, T.
Deposit date:2017-04-13
Release date:2017-06-28
Last modified:2017-08-23
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structure-based analysis of the guanine nucleotide exchange factor SmgGDS reveals armadillo-repeat motifs and key regions for activity and GTPase binding
J. Biol. Chem., 292, 2017
5ZHX
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CRYSTAL STRUCTURE OF SMGGDS-558 AND FARNESYLATED RHOA COMPLEX
Descriptor:Rap1 GTPase-GDP dissociation stimulator 1, Transforming protein RhoA, FARNESYL
Authors:Shimizu, H., Toma-Fukai, S., Shimizu, T.
Deposit date:2018-03-13
Release date:2018-09-05
Last modified:2018-10-03
Method:X-RAY DIFFRACTION (3.5 Å)
Cite:GEF mechanism revealed by the structure of SmgGDS-558 and farnesylated RhoA complex and its implication for a chaperone mechanism.
Proc. Natl. Acad. Sci. U.S.A., 115, 2018
1JFB
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X-RAY STRUCTURE OF NITRIC OXIDE REDUCTASE (CYTOCHROME P450NOR) IN THE FERRIC RESTING STATE AT ATOMIC RESOLUTION
Descriptor:nitric-oxide reductase cytochrome P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, GLYCEROL
Authors:Shimizu, H., Adachi, S., Park, S.Y., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-06-20
Release date:2001-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1 Å)
Cite:X-ray structure of nitric oxide reductase (cytochrome P450nor) at atomic resolution.
Acta Crystallogr.,Sect.D, 58, 2002
1JFC
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X-RAY STRUCTURE OF NITRIC OXIDE REDUCTASE (CYTOCHROME P450NOR) IN THE FERROUS CO STATE AT ATOMIC RESOLUTION
Descriptor:nitric-oxide reductase Cytochrome P450 55A1, PROTOPORPHYRIN IX CONTAINING FE, CARBON MONOXIDE, ...
Authors:Shimizu, H., Adachi, S., Park, S.Y., Shiro, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2001-06-20
Release date:2001-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:X-ray structure of nitric oxide reductase (cytochrome P450nor) at atomic resolution.
Acta Crystallogr.,Sect.D, 58, 2002
1EHE
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CRYSTAL STRUCTURES OF CYTOCHROME P450NOR AND ITS MUTANTS (SER286 VAL, THR) IN THE FERRIC RESTING STATE AT CRYOGENIC TEMPERATURE: A COMPARATIVE ANALYSIS WITH MONOOXYGENASE CYTOCHROME P450S
Descriptor:CYTOCHROME P450NOR, PROTOPORPHYRIN IX CONTAINING FE
Authors:Shimizu, H., Park, S.
Deposit date:2000-02-21
Release date:2000-08-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structures of cytochrome P450nor and its mutants (Ser286-->Val, Thr) in the ferric resting state at cryogenic temperature: a comparative analysis with monooxygenase cytochrome P450s.
J.Inorg.Biochem., 81, 2000
1EHF
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CRYSTAL STRUCTURES OF CYTOCHROME P450NOR AND ITS MUTANTS (SER286 VAL, THR) IN THE FERRIC RESTING STATE AT CRYOGENIC TEMPERATURE: A COMPARATIVE ANALYSIS WITH MONOOXYGENASE CYTOCHROME P450S
Descriptor:CYTOCHROME P450NOR, PROTOPORPHYRIN IX CONTAINING FE
Authors:Shimizu, H., Park, S.
Deposit date:2000-02-21
Release date:2000-08-21
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structures of cytochrome P450nor and its mutants (Ser286-->Val, Thr) in the ferric resting state at cryogenic temperature: a comparative analysis with monooxygenase cytochrome P450s.
J.Inorg.Biochem., 81, 2000
1EHG
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CRYSTAL STRUCTURES OF CYTOCHROME P450NOR AND ITS MUTANTS (SER286 VAL, THR) IN THE FERRIC RESTING STATE AT CRYOGENIC TEMPERATURE: A COMPARATIVE ANALYSIS WITH MONOOXYGENASE CYTOCHROME P450S
Descriptor:CYTOCHROME P450NOR, PROTOPORPHYRIN IX CONTAINING FE
Authors:Shimizu, H., Park, S.
Deposit date:2000-02-21
Release date:2000-08-21
Last modified:2018-01-24
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structures of cytochrome P450nor and its mutants (Ser286-->Val, Thr) in the ferric resting state at cryogenic temperature: a comparative analysis with monooxygenase cytochrome P450s.
J.Inorg.Biochem., 81, 2000
5Z06
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CRYSTAL STRUCTURE OF BETA-1,2-GLUCANASE FROM PARABACTEROIDES DISTASONIS
Descriptor:BDI_3064 protein, CALCIUM ION, GLYCEROL
Authors:Shimizu, H., Nakajima, M., Miyanaga, A., Takahashi, Y., Tanaka, N., Kobayashi, K., Sugimoto, N., Nakai, H., Taguchi, H.
Deposit date:2017-12-18
Release date:2018-05-30
Last modified:2018-07-18
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Characterization and Structural Analysis of a Novel exo-Type Enzyme Acting on beta-1,2-Glucooligosaccharides from Parabacteroides distasonis
Biochemistry, 57, 2018
1IQC
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CRYSTAL STRUCTURE OF DI-HEME PEROXIDASE FROM NITROSOMONAS EUROPAEA
Descriptor:di-heme peroxidase, CALCIUM ION, MAGNESIUM ION, ...
Authors:Shimizu, H.
Deposit date:2001-07-20
Release date:2002-01-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Crystal structure of Nitrosomonas europaea cytochrome c peroxidase and the structural basis for ligand switching in bacterial di-heme peroxidases
Biochemistry, 40, 2001
5AYQ
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STRUCTURE-BASED SITE-DIRECTED PHOTO-CROSSLINKING ANALYSES OF MULTIMERIC CELL-ADHESIVE INTERACTIONS OF VGSC BETA SUBUNITS
Descriptor:Sodium channel subunit beta-4
Authors:Shimizu, H.
Deposit date:2015-09-01
Release date:2016-06-08
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure-based site-directed photo-crosslinking analyses of multimeric cell-adhesive interactions of voltage-gated sodium channel beta subunits
Sci Rep, 6, 2016
5XAW
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PARALLEL HOMODIMER STRUCTURES OF VOLTAGE-GATED SODIUM CHANNEL BETA4 FOR CELL-CELL ADHESION
Descriptor:Sodium channel subunit beta-4, 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL, TETRAETHYLENE GLYCOL, ...
Authors:Shimizu, H., Yokoyama, S.
Deposit date:2017-03-15
Release date:2017-07-05
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2.101 Å)
Cite:Parallel homodimer structures of the extracellular domains of the voltage-gated sodium channel beta 4 subunit explain its role in cell-cell adhesion
J. Biol. Chem., 292, 2017
5XAX
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PARALLEL HOMODIMER STRUCTURES OF THE EXTRACELLULAR DOMAINS OF THE VOLTAGE-GATED SODIUM CHANNEL BETA4 SUBUNIT EXPLAIN ITS ROLE IN CELL-CELL ADHESION
Descriptor:Sodium channel subunit beta-4, GLYCEROL
Authors:Shimizu, H., Yokoyama, S.
Deposit date:2017-03-15
Release date:2017-07-05
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2.903 Å)
Cite:Parallel homodimer structures of the extracellular domains of the voltage-gated sodium channel beta 4 subunit explain its role in cell-cell adhesion
J. Biol. Chem., 292, 2017
2ZHR
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CRYSTAL STRUCTURE OF BACE1 IN COMPLEX WITH OM99-2 AT PH 5.0
Descriptor:Beta-secretase 1, inhibitor OM99-2
Authors:Shimizu, H., Nukina, N.
Deposit date:2008-02-08
Release date:2008-04-22
Last modified:2012-12-12
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Crystal structure of an active form of BACE1, an enzyme responsible for amyloid beta protein production
Mol.Cell.Biol., 28, 2008
2ZHS
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CRYSTAL STRUCTURE OF BACE1 AT PH 4.0
Descriptor:Beta-secretase 1
Authors:Shimizu, H., Nukina, N.
Deposit date:2008-02-08
Release date:2008-04-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Crystal structure of an active form of BACE1, an enzyme responsible for amyloid beta protein production
Mol.Cell.Biol., 28, 2008
2ZHT
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CRYSTAL STRUCTURE OF BACE1 AT PH 4.5
Descriptor:Beta-secretase 1
Authors:Shimizu, H., Nukina, N.
Deposit date:2008-02-08
Release date:2008-04-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Crystal structure of an active form of BACE1, an enzyme responsible for amyloid beta protein production
Mol.Cell.Biol., 28, 2008
2ZHU
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CRYSTAL STRUCTURE OF BACE1 AT PH 5.0
Descriptor:Beta-secretase 1
Authors:Shimizu, H., Nukina, N.
Deposit date:2008-02-08
Release date:2008-04-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of an active form of BACE1, an enzyme responsible for amyloid beta protein production
Mol.Cell.Biol., 28, 2008
2ZHV
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CRYSTAL STRUCTURE OF BACE1 AT PH 7.0
Descriptor:Beta-secretase 1
Authors:Shimizu, H., Nukina, N.
Deposit date:2008-02-08
Release date:2008-04-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Crystal structure of an active form of BACE1, an enzyme responsible for amyloid beta protein production
Mol.Cell.Biol., 28, 2008
3VR8
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MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARASITIC NEMATODE ASCARIS SUUM
Descriptor:Flavoprotein subunit of complex II, Iron-sulfur subunit of succinate dehydrogenase, Cytochrome b-large subunit, ...
Authors:Shimizu, H., Shiba, T., Inaoka, D.K., Osanai, A., Kita, K., Sakamoto, K., Harada, S.
Deposit date:2012-04-07
Release date:2012-07-11
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.81 Å)
Cite:Crystal structure of mitochondrial quinol-fumarate reductase from the parasitic nematode Ascaris suum
J.Biochem., 151, 2012
3VR9
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MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARASITIC NEMATODE ASCARIS SUUM WITH THE SPECIFIC INHIBITOR FLUTOLANIL
Descriptor:Flavoprotein subunit of complex II, Iron-sulfur subunit of succinate dehydrogenase, Cytochrome b-large subunit, ...
Authors:Shimizu, H., Shiba, T., Inaoka, D.K., Osanai, A., Kita, K., Sakamoto, K., Harada, S.
Deposit date:2012-04-07
Release date:2013-04-10
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (3.01 Å)
Cite:Crystal structure of mitochondrial quinol-fumarate reductase from parasitic nematode Ascaris suum
To be Published
3VRA
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MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARASITIC NEMATODE ASCARIS SUUM WITH THE SPECIFIC INHIBITOR ATPENIN A5
Descriptor:Flavoprotein subunit of complex II, Iron-sulfur subunit of succinate dehydrogenase, Cytochrome b-large subunit, ...
Authors:Shimizu, H., Shiba, T., Inaoka, D.K., Osanai, A., Kita, K., Sakamoto, K., Harada, S.
Deposit date:2012-04-07
Release date:2013-04-10
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (3.44 Å)
Cite:Crystal structure of mitochondrial quinol-fumarate reductase from parasitic nematode Ascaris suum
To be Published
3VRB
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MITOCHONDRIAL RHODOQUINOL-FUMARATE REDUCTASE FROM THE PARASITIC NEMATODE ASCARIS SUUM WITH THE SPECIFIC INHIBITOR FLUTOLANIL AND SUBSTRATE FUMARATE
Descriptor:Flavoprotein subunit of complex II, Iron-sulfur subunit of succinate dehydrogenase, Cytochrome b-large subunit, ...
Authors:Shimizu, H., Shiba, T., Inaoka, D.K., Osanai, A., Kita, K., Sakamoto, K., Harada, S.
Deposit date:2012-04-07
Release date:2012-07-11
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.91 Å)
Cite:Crystal structure of mitochondrial quinol-fumarate reductase from the parasitic nematode Ascaris suum
J.Biochem., 151, 2012
1F24
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CRYSTAL STRUCTURE OF NO COMPLEX OF THR243ALA MUTANTS OF CYTOCHROME P450NOR
Descriptor:NITRIC OXIDE REDUCTASE, PROTOPORPHYRIN IX CONTAINING FE, NITRIC OXIDE, ...
Authors:Shimizu, H., Park, S.-Y.
Deposit date:2000-05-23
Release date:2000-11-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Mutation effects of a conserved threonine (Thr243) of cytochrome P450nor on its structure and function.
J.Inorg.Biochem., 82, 2000
1F25
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CRYSTAL STRUCTURE OF NO COMPLEX OF THR243ASN MUTANTS OF CYTOCHROME P450NOR
Descriptor:NITRIC OXIDE REDUCTASE, PROTOPORPHYRIN IX CONTAINING FE, NITRIC OXIDE, ...
Authors:Shimizu, H., Park, S.-Y.
Deposit date:2000-05-23
Release date:2000-11-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Mutation effects of a conserved threonine (Thr243) of cytochrome P450nor on its structure and function.
J.Inorg.Biochem., 82, 2000
1F26
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CRYSTAL STRUCTURE OF NO COMPLEX OF THR243VAL MUTANTS OF CYTOCHROME P450NOR
Descriptor:NITRIC OXIDE REDUCTASE, PROTOPORPHYRIN IX CONTAINING FE, NITRIC OXIDE, ...
Authors:Shimizu, H., Park, S.-Y.
Deposit date:2000-05-23
Release date:2000-11-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Mutation effects of a conserved threonine (Thr243) of cytochrome P450nor on its structure and function.
J.Inorg.Biochem., 82, 2000
2DDC
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UNIQUE BEHAVIOR OF A HISTIDINE RESPONSIBLE FOR AN ENGINEERED GREEN-TO-RED PHOTOCONVERSION PROCESS
Descriptor:photoconvertible fluorescent protein, MAGNESIUM ION, SODIUM ION
Authors:Shimizu, H., Tsutsui, H., Nukina, N., Miyawaki, A.
Deposit date:2006-01-27
Release date:2006-03-07
Last modified:2014-01-15
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:The E1 mechanism in photo-induced beta-elimination reactions for green-to-red conversion of fluorescent proteins.
Chem.Biol., 16, 2009