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1A7V
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CYTOCHROME C' FROM RHODOPSEUDOMONAS PALUSTRIS
Descriptor:CYTOCHROME C', PROTOPORPHYRIN IX CONTAINING FE
Authors:Shibata, N., Iba, S., Misaki, S., Meyer, T.E., Bartsch, R.G., Cusanovich, M.A., Higuchi, Y., Yasuoka, N.
Deposit date:1998-03-18
Release date:1998-06-17
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Basis for monomer stabilization in Rhodopseudomonas palustris cytochrome c' derived from the crystal structure.
J.Mol.Biol., 284, 1998
1DIO
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DIOL DEHYDRATASE-CYANOCOBALAMIN COMPLEX FROM KLEBSIELLA OXYTOCA
Descriptor:PROTEIN (DIOL DEHYDRATASE), POTASSIUM ION, S-1,2-PROPANEDIOL, ...
Authors:Shibata, N., Masuda, J., Tobimatsu, T., Toraya, T., Suto, K., Morimoto, Y., Yasuoka, N.
Deposit date:1999-01-27
Release date:2000-01-30
Last modified:2012-10-24
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:A new mode of B12 binding and the direct participation of a potassium ion in enzyme catalysis: X-ray structure of diol dehydratase.
Structure Fold.Des., 7, 1999
1IWB
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CRYSTAL STRUCTURE OF DIOL DEHYDRATASE
Descriptor:DIOL DEHYDRATASE alpha chain, DIOL DEHYDRATASE beta chain, DIOL DEHYDRATASE gamma chain, ...
Authors:Shibata, N., Masuda, J., Morimoto, Y., Yasuoka, N., Toraya, T.
Deposit date:2002-05-01
Release date:2003-05-01
Last modified:2012-10-24
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Substrate-induced conformational change of a coenzyme B12-dependent enzyme: crystal structure of the substrate-free form of diol dehydratase
Biochemistry, 41, 2002
1UC4
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STRUCTURE OF DIOL DEHYDRATASE COMPLEXED WITH (S)-1,2-PROPANEDIOL
Descriptor:diol dehydrase alpha subunit, diol dehydrase beta subunit, diol dehydrase gamma subunit, ...
Authors:Shibata, N., Nakanishi, Y., Fukuoka, M., Yamanishi, M., Yasuoka, N., Toraya, T.
Deposit date:2003-04-08
Release date:2003-07-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase
J.BIOL.CHEM., 278, 2003
1UC5
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STRUCTURE OF DIOL DEHYDRATASE COMPLEXED WITH (R)-1,2-PROPANEDIOL
Descriptor:diol dehydrase alpha subunit, diol dehydrase beta subunit, diol dehydrase gamma subunit, ...
Authors:Shibata, N., Nakanishi, Y., Fukuoka, M., Yamanishi, M., Yasuoka, N., Toraya, T.
Deposit date:2003-04-08
Release date:2003-07-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural rationalization for the lack of stereospecificity in coenzyme B12-dependent diol dehydratase
J.Biol.Chem., 278, 2003
2D0O
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STRCUTURE OF DIOL DEHYDRATASE-REACTIVATING FACTOR COMPLEXED WITH ADP AND MG2+
Descriptor:diol dehydratase-reactivating factor large subunit, diol dehydratase-reactivating factor small subunit, SULFATE ION, ...
Authors:Shibata, N., Mori, K., Hieda, N., Higuchi, Y., Yamanishi, M., Toraya, T.
Deposit date:2005-08-05
Release date:2006-02-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
2D0P
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STRCUTURE OF DIOL DEHYDRATASE-REACTIVATING FACTOR IN NUCLEOTIDE FREE FORM
Descriptor:diol dehydratase-reactivating factor large subunit, diol dehydratase-reactivating factor small subunit, SULFATE ION, ...
Authors:Shibata, N., Mori, K., Hieda, N., Higuchi, Y., Yamanishi, M., Toraya, T.
Deposit date:2005-08-05
Release date:2006-02-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3 Å)
Cite:Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
3ABO
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH CN-CBL AND ETHANOLAMINE
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, ETHANOLAMINE, ...
Authors:Shibata, N.
Deposit date:2009-12-21
Release date:2010-06-02
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
3ABQ
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH CN-CBL AND 2-AMINO-1-PROPANOL
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, (2S)-2-aminopropan-1-ol, ...
Authors:Shibata, N.
Deposit date:2009-12-21
Release date:2010-06-02
Last modified:2014-02-19
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
3ABR
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH CN-CBL (SUBSTRATE-FREE FORM)
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, GLYCEROL, ...
Authors:Shibata, N.
Deposit date:2009-12-21
Release date:2010-06-02
Last modified:2014-02-19
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
3ABS
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH ADENINYLPENTYLCOBALAMIN AND ETHANOLAMINE
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, CO-(ADENIN-9-YL-PENTYL)-COBALAMIN, ...
Authors:Shibata, N.
Deposit date:2009-12-21
Release date:2010-06-02
Last modified:2014-02-19
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Crystal structures of ethanolamine ammonia-lyase complexed with coenzyme B12 analogs and substrates.
J.Biol.Chem., 285, 2010
1IUZ
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PLASTOCYANIN
Descriptor:PLASTOCYANIN, COPPER (II) ION, SULFATE ION
Authors:Shibata, N.
Deposit date:1996-10-06
Release date:1997-08-20
Last modified:2011-11-16
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Novel insight into the copper-ligand geometry in the crystal structure of Ulva pertusa plastocyanin at 1.6-A resolution. Structural basis for regulation of the copper site by residue 88.
J.Biol.Chem., 274, 1999
1WSP
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CRYSTAL STRUCTURE OF AXIN DIX DOMAIN
Descriptor:Axin 1 protein, MERCURY (II) ION, BENZOIC ACID
Authors:Shibata, N., Hanamura, T., Yamamoto, R., Ueda, Y., Yamamoto, H., Kikuchi, A., Higuchi, Y.
Deposit date:2004-11-08
Release date:2006-02-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.9 Å)
Cite:Crystal structure of axin dix domain
to be published
2D5G
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STRUCTURE OF UBIQUITIN FOLD PROTEIN R767E MUTANT
Descriptor:Axin-1, MERCURY (II) ION
Authors:Shibata, N., Higuchi, Y.
Deposit date:2005-11-01
Release date:2006-11-01
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.2 Å)
Cite:Structure of ubiquitin fold protein R767E mutant
to be published
2E83
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T31V MUTANT OF FMN-BINDING PROTEIN FROM DESULFOVIBRIO VULGARIS (MIYAZAKI F)
Descriptor:FMN-binding protein, FLAVIN MONONUCLEOTIDE
Authors:Shibata, N., Higuchi, Y.
Deposit date:2007-01-17
Release date:2008-01-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.52 Å)
Cite:Structure of T31V mutant of FMN-binding protein from Desulfovibrio vulgaris Miyazaki F
To be Published
3ANY
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH CN-CBL AND (R)-2-AMINO-1-PROPANOL
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, (2R)-2-aminopropan-1-ol, ...
Authors:Shibata, N.
Deposit date:2010-09-16
Release date:2011-08-03
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization.
Biochemistry, 50, 2011
3AO0
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CRYSTAL STRUCTURE OF ETHANOLAMINE AMMONIA-LYASE FROM ESCHERICHIA COLI COMPLEXED WITH CN-CBL AND (S)-2-AMINO-1-PROPANOL
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, (2S)-2-aminopropan-1-ol, ...
Authors:Shibata, N.
Deposit date:2010-09-16
Release date:2011-08-03
Last modified:2012-10-24
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:How coenzyme B12-dependent ethanolamine ammonia-lyase deals with both enantiomers of 2-amino-1-propanol as substrates: structure-based rationalization.
Biochemistry, 50, 2011
5YRT
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DIOL DEHYDRATASE, ADOCBL/SUBSTRATE-FREE, ANAEROBICALLY-PREPARED CRYSTAL
Descriptor:Diol dehydrase alpha subunit, Diol dehydrase beta subunit, Diol dehydrase gamma subunit, ...
Authors:Shibata, N.
Deposit date:2017-11-10
Release date:2018-09-19
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YRV
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DIOL DEHYDRATASE, ADOCBL/1,2-PROPANEDIOL, ANAEROBICALLY-PREPARED CRYSTAL
Descriptor:Diol dehydrase alpha subunit, Diol dehydrase beta subunit, Diol dehydrase gamma subunit, ...
Authors:Shibata, N.
Deposit date:2017-11-10
Release date:2018-09-19
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSH
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DIOL DEHYDRATASE - ALPHA/T172A MUTANT COMPLEXED WITH ADOCBL, AEROBICALLY-PREPARED CRYSTAL
Descriptor:Diol dehydrase alpha subunit, Diol dehydrase beta subunit, Diol dehydrase gamma subunit, ...
Authors:Shibata, N.
Deposit date:2017-11-14
Release date:2018-09-19
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSN
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ETHANOLAMINE AMMONIA-LYASE, ADOCBL/SUBSTRATE-FREE
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, 5'-DEOXYADENOSINE, ...
Authors:Shibata, N.
Deposit date:2017-11-14
Release date:2018-09-19
Method:X-RAY DIFFRACTION (2.001 Å)
Cite:Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
5YSR
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ETHANOLAMINE AMMONIA-LYASE, ADOCBL/2-AMINO-1-PROPANOL
Descriptor:Ethanolamine ammonia-lyase heavy chain, Ethanolamine ammonia-lyase light chain, 5'-DEOXYADENOSINE, ...
Authors:Shibata, N.
Deposit date:2017-11-14
Release date:2018-09-19
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Direct Participation of a Peripheral Side Chain of a Corrin Ring in Coenzyme B12Catalysis.
Angew. Chem. Int. Ed. Engl., 57, 2018
1EEX
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CRYSTAL STRUCTURE OF THE DIOL DEHYDRATASE-ADENINYLPENTYLCOBALAMIN COMPLEX FROM KLEBSIELLA OXYTOCA
Descriptor:PROPANEDIOL DEHYDRATASE, POTASSIUM ION, CO-(ADENIN-9-YL-PENTYL)-COBALAMIN, ...
Authors:Shibata, N., Masuda, J., Toraya, T., Morimoto, Y., Yasuoka, N.
Deposit date:2000-02-04
Release date:2001-02-07
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:How a protein generates a catalytic radical from coenzyme B(12): X-ray structure of a diol-dehydratase-adeninylpentylcobalamin complex.
Structure Fold.Des., 8, 2000
1WLI
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L122Y MUTANT OF FMN-BINDING PROTEIN FROM DESULFOVIBRIO VULGARIS (MIYAZAKI F)
Descriptor:FMN-binding protein, FLAVIN MONONUCLEOTIDE
Authors:Shibata, N., Higuchi, Y.
Deposit date:2004-06-28
Release date:2005-07-19
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Determination of the role of the Carboxyl-terminal leucine-122 in FMN-binding protein by mutational and structural analysis.
J.Biochem., 141, 2007
1WLK
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L122E MUTANT OF FMN-BINDING PROTEIN FROM DESULFOVIBRIO VULGARIS (MIYAZAKI F)
Descriptor:FMN-binding protein, FLAVIN MONONUCLEOTIDE
Authors:Shibata, N., Higuchi, Y.
Deposit date:2004-06-28
Release date:2005-07-19
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Determination of the role of the Carboxyl-terminal leucine-122 in FMN-binding protein by mutational and structural analysis.
J.Biochem., 141, 2007