Author results

3WEU
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CRYSTAL STRUCTURE OF THE L-LYS EPSILON-OXIDASE FROM MARINOMONAS MEDITERRANEA
Descriptor:L-lysine 6-oxidase, SULFATE ION, 1,4-DIETHYLENE DIOXIDE, ...
Authors:Okazaki, S., Nakano, S., Matsui, D., Akaji, S., Inagaki, K., Asano, Y.
Deposit date:2013-07-12
Release date:2013-09-04
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:X-Ray crystallographic evidence for the presence of the cysteine tryptophylquinone cofactor in L-lysine {varepsilon}-oxidase from Marinomonas mediterranea
J.Biochem., 154, 2013
3WEV
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CRYSTAL STRUCTURE OF THE SCHIFF BASE INTERMEDIATE OF L-LYS EPSILON-OXIDASE FROM MARINOMONAS MEDITERRANEA WITH L-LYS
Descriptor:L-lysine 6-oxidase, LYSINE, SULFATE ION, ...
Authors:Okazaki, S., Nakano, S., Matsui, D., Akaji, S., Inagaki, K., Asano, Y.
Deposit date:2013-07-12
Release date:2013-09-04
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:X-Ray crystallographic evidence for the presence of the cysteine tryptophylquinone cofactor in L-lysine {varepsilon}-oxidase from Marinomonas mediterranea
J.Biochem., 154, 2013
2DCN
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CRYSTAL STRUCTURE OF 2-KETO-3-DEOXYGLUCONATE KINASE FROM SULFOLOBUS TOKODAII COMPLEXED WITH 2-KETO-6-PHOSPHOGLUCONATE (ALPHA-FURANOSE FORM)
Descriptor:hypothetical fructokinase, MAGNESIUM ION, POTASSIUM ION, ...
Authors:Okazaki, S., Onda, H., Suzuki, A., Kuramitsu, S., Masui, R., Yamane, T.
Deposit date:2006-01-10
Release date:2006-01-31
Last modified:2017-05-24
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate
To be Published
2DNS
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THE CRYSTAL STRUCTURE OF D-AMINO ACID AMIDASE FROM OCHROBACTRUM ANTHROPI SV3 COMPLEXED WITH D-PHENYLALANINE
Descriptor:D-amino acid amidase, BARIUM ION, D-PHENYLALANINE
Authors:Okazaki, S., Suzuki, A., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2006-04-26
Release date:2006-05-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal Structure and Functional Characterization of a D-Stereospecific Amino Acid Amidase from Ochrobactrum anthropi SV3, a New Member of the Penicillin-recognizing Proteins
J.Mol.Biol., 368, 2007
2DRW
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THE CRYSTAL STRUCTUTRE OF D-AMINO ACID AMIDASE FROM OCHROBACTRUM ANTHROPI SV3
Descriptor:D-Amino acid amidase, BARIUM ION
Authors:Okazaki, S., Suzuki, A., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2006-06-15
Release date:2006-07-04
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal Structure and Functional Characterization of a D-Stereospecific Amino Acid Amidase from Ochrobactrum anthropi SV3, a New Member of the Penicillin-recognizing Proteins
J.Mol.Biol., 368, 2007
3VIA
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CRYSTAL STRUCTURE OF THE PH DOMAIN OF EVECTIN-2 FROM HUMAN
Descriptor:Pleckstrin homology domain-containing family B member 2
Authors:Okazaki, S., Kato, R., Wakatsuki, S.
Deposit date:2011-09-26
Release date:2012-01-25
Last modified:2012-02-08
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Structural basis of the strict phospholipid binding specificity of the pleckstrin homology domain of human evectin-2
Acta Crystallogr.,Sect.D, 68, 2012
2EFU
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THE CRYSTAL STRUCTURE OF D-AMINO ACID AMIDASE FROM OCHROBACTRUM ANTHROPI SV3 COMPLEXED WITH L-PHENYLALANINE
Descriptor:D-Amino acid amidase, BARIUM ION, PHENYLALANINE
Authors:Okazaki, S., Suzuki, A., Mizushima, T., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2007-02-26
Release date:2007-03-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structures of D-amino-acid amidase complexed with L-phenylalanine and with L-phenylalanine amide: insight into the D-stereospecificity of D-amino-acid amidase from Ochrobactrum anthropi SV3.
Acta Crystallogr.,Sect.D, 64, 2008
2EFX
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THE CRYSTAL STRUCTURE OF D-AMINO ACID AMIDASE FROM OCHROBACTRUM ANTHROPI SV3 COMPLEXED WITH L-PHENYLALANINE AMIDE
Descriptor:D-amino acid amidase, BARIUM ION, PHENYLALANINE AMIDE
Authors:Okazaki, S., Suzuki, A., Mizushima, T., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2007-02-26
Release date:2007-03-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structures of D-amino-acid amidase complexed with L-phenylalanine and with L-phenylalanine amide: insight into the D-stereospecificity of D-amino-acid amidase from Ochrobactrum anthropi SV3.
Acta Crystallogr.,Sect.D, 64, 2008
2ZUK
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THE CRYSTAL STRUCTURE OF ALPHA-AMINO-EPSILON-CAPROLACTAM RACEMASE FROM ACHROMOBACTER OBAE COMPLEXED WITH EPSILON CAPROLACTAM (DIFFERENT BINDING MODE)
Descriptor:Alpha-amino-epsilon-caprolactam racemase, azepan-2-one, PYRIDOXAL-5'-PHOSPHATE
Authors:Okazaki, S., Suzuki, A., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2008-10-18
Release date:2009-02-17
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.41 Å)
Cite:The novel structure of a pyridoxal 5'-phosphate-dependent fold-type I racemase, alpha-amino-epsilon-caprolactam racemase from Achromobacter obae
Biochemistry, 48, 2009
3DXV
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THE CRYSTAL STRUCTURE OF ALPHA-AMINO-EPSILON-CAPROLACTAM RACEMASE FROM ACHROMOBACTER OBAE
Descriptor:Alpha-amino-epsilon-caprolactam racemase, PYRIDOXAL-5'-PHOSPHATE
Authors:Okazaki, S., Suzuki, A., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2008-07-25
Release date:2009-02-17
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:The novel structure of a pyridoxal 5'-phosphate-dependent fold-type I racemase, alpha-amino-epsilon-caprolactam racemase from Achromobacter obae
Biochemistry, 48, 2009
3DXW
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THE CRYSTAL STRUCTURE OF ALPHA-AMINO-EPSILON-CAPROLACTAM RACEMASE FROM ACHROMOBACTER OBAE COMPLEXED WITH EPSILON CAPROLACTAM
Descriptor:Alpha-amino-epsilon-caprolactam racemase, PYRIDOXAL-5'-PHOSPHATE, azepan-2-one
Authors:Okazaki, S., Suzuki, A., Komeda, H., Asano, Y., Yamane, T.
Deposit date:2008-07-25
Release date:2009-07-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.41 Å)
Cite:The novel structure of a pyridoxal 5'-phosphate-dependent fold-type I racemase, alpha-amino-epsilon-caprolactam racemase from Achromobacter obae
Biochemistry, 48, 2009
3AJ4
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CRYSTAL STRUCTURE OF THE PH DOMAIN OF EVECTIN-2 FROM HUMAN COMPLEXED WITH O-PHOSPHO-L-SERINE
Descriptor:Pleckstrin homology domain-containing family B member 2, PHOSPHOSERINE, 1,2-ETHANEDIOL
Authors:Okazaki, S., Kato, R., Wakatsuki, S.
Deposit date:2010-05-21
Release date:2011-05-25
Last modified:2011-10-05
Method:X-RAY DIFFRACTION (1 Å)
Cite:Intracellular phosphatidylserine is essential for retrograde membrane traffic through endosomes
Proc.Natl.Acad.Sci.USA, 108, 2011
2EB8
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CRYSTAL STRUCTURE OF CU(II)(SAL-PHE)/APO-MYOGLOBIN
Descriptor:Myoglobin, PHOSPHATE ION, (N-SALICYLIDEN-L-PHENYLALANATO)-COPPER(II)
Authors:Abe, S., Okazaki, S., Ueno, T., Hikage, T., Suzuki, A., Yamane, T., Watanabe, Y.
Deposit date:2007-02-07
Release date:2007-07-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Design and Structure Analysis of Artificial Metalloproteins: Selective Coordination of His64 to Copper Complexes with Square-Planar Structure in the apo-Myoglobin Scaffold
Inorg.Chem., 46, 2007
2EB9
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CRYSTAL STRUCTURE OF CU(II)(SAL-LEU)/APO-MYOGLOBIN
Descriptor:Myoglobin, PHOSPHATE ION, (N-SALICYLIDEN-L-LEUCINATO)-COPPER(II), ...
Authors:Abe, S., Okazaki, S., Ueno, T., Hikage, T., Suzuki, A., Yamane, T., Watanabe, Y.
Deposit date:2007-02-07
Release date:2007-07-03
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Design and Structure Analysis of Artificial Metalloproteins: Selective Coordination of His64 to Copper Complexes with Square-Planar Structure in the apo-Myoglobin Scaffold
Inorg.Chem., 46, 2007
2EF2
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CRYSTAL STRUCTURE OF AN ARTIFICIAL METALLOPROTEIN:RH(PHEBOX-PH)/APO-A71G MYOGLOBIN
Descriptor:Myoglobin, PHOSPHATE ION, [2,6-BIS(4-PHENYL)-1,3-OXAZOLIN-2-YL]RHODIUM(III)
Authors:Abe, S., Satake, Y., Okazaki, S., Ueno, T., Hikage, T., Suzuki, A., Yamane, T., Nakajima, H., Watanabe, Y.
Deposit date:2007-02-20
Release date:2007-10-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Incorporation of a Phebox Rhodium Complex into apo-Myoglobin Affords a Stable Organometallic Protein Showing Unprecedented Arrangement of the Complex in the Cavity
ORGANOMETALLICS, 26, 2007
3HJE
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CRYSTAL STRUCTURE OF SULFOLOBUS TOKODAII HYPOTHETICAL MALTOOLIGOSYL TREHALOSE SYNTHASE
Descriptor:704aa long hypothetical glycosyltransferase, GLYCEROL
Authors:Cielo, C.B.C., Okazaki, S., Suzuki, A., Mizushima, T., Masui, R., Kuramitsu, S., Yamane, T.
Deposit date:2009-05-21
Release date:2010-04-14
Last modified:2012-05-02
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structure of ST0929, a putative glycosyl transferase from Sulfolobus tokodaii
Acta Crystallogr.,Sect.F, 66, 2010
3WMW
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GALE-LIKE L-THREONINE DEHYDROGENASE FROM CUPRIAVIDUS NECATOR (APO FORM)
Descriptor:NAD dependent epimerase/dehydratase, CALCIUM ION
Authors:Nakano, S., Okazaki, S., Tokiwa, H., Asano, Y.
Deposit date:2013-11-29
Release date:2014-02-26
Last modified:2014-04-30
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Binding of NAD+ and L-Threonine Induces Stepwise Structural and Flexibility Changes in Cupriavidus necator L-Threonine Dehydrogenase
J.Biol.Chem., 289, 2014
3WMX
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GALE-LIKE L-THREONINE DEHYDROGENASE FROM CUPRIAVIDUS NECATOR (HOLO FORM)
Descriptor:NAD dependent epimerase/dehydratase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, THREONINE
Authors:Nakano, S., Okazaki, S., Tokiwa, H., Asano, Y.
Deposit date:2013-11-29
Release date:2014-02-26
Last modified:2014-04-30
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Binding of NAD+ and L-Threonine Induces Stepwise Structural and Flexibility Changes in Cupriavidus necator L-Threonine Dehydrogenase
J.Biol.Chem., 289, 2014
4Y7P
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STRUCTURE OF ALKALINE D-PEPTIDASE FROM BACILLUS CEREUS
Descriptor:Alkaline D-peptidase, THIOCYANATE ION
Authors:Nakano, S., Okazaki, S., Ishitsubo, E., Kawahara, N., Komeda, H., Tokiwa, H., Asano, Y.
Deposit date:2015-02-15
Release date:2015-10-14
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural and computational analysis of peptide recognition mechanism of class-C type penicillin binding protein, alkaline D-peptidase from Bacillus cereus DF4-B
Sci Rep, 5, 2015
3X3H
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CRYSTAL STRUCTURE OF THE MANIHOT ESCULENTA HYDROXYNITRILE LYASE (MEHNL) 3KP (K176P, K199P, K224P) TRIPLE MUTANT
Descriptor:(S)-hydroxynitrile lyase
Authors:Cielo, C.B.C., Yamane, T., Asano, Y., Dadashipour, M., Suzuki, A., Mizushima, T., Komeda, H., Okazaki, S.
Deposit date:2015-01-21
Release date:2016-03-02
Method:X-RAY DIFFRACTION (2.88 Å)
Cite:Crystallographic Studies of Manihot esculenta hydroxynitrile lyase Lysine-to-Proline mutants
TO BE PUBLISHED
5ZBC
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CRYSTAL STRUCTURE OF SE-MET TRYPTOPHAN OXIDASE (C395A MUTANT) FROM CHROMOBACTERIUM VIOLACEUM
Descriptor:Flavin-dependent L-tryptophan oxidase VioA, FLAVIN-ADENINE DINUCLEOTIDE
Authors:Yamaguchi, H., Tatsumi, M., Takahashi, K., Tagami, U., Sugiki, M., Kashiwagi, T., Okazaki, S., Mizukoshi, T., Asano, Y.
Deposit date:2018-02-11
Release date:2018-12-19
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Protein engineering for improving the thermostability of tryptophan oxidase and insights from structural analysis.
J. Biochem., 164, 2018
5ZBD
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CRYSTAL STRUCTURE OF TRYPTOPHAN OXIDASE (C395A MUTANT) FROM CHROMOBACTERIUM VIOLACEUM
Descriptor:Flavin-dependent L-tryptophan oxidase VioA, TRYPTOPHAN, FLAVIN-ADENINE DINUCLEOTIDE
Authors:Yamaguchi, H., Tatsumi, M., Takahashi, K., Tagami, U., Sugiki, M., Kashiwagi, T., Okazaki, S., Mizukoshi, T., Asano, Y.
Deposit date:2018-02-11
Release date:2018-12-19
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Protein engineering for improving the thermostability of tryptophan oxidase and insights from structural analysis.
J. Biochem., 164, 2018
5B0X
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CRYSTAL STRUCTURE OF THE CK2A/BENZOIC ACID DERIVATIVE COMPLEX
Descriptor:Casein kinase II subunit alpha, 4-[2-[(4-methoxyphenyl)carbonylamino]-1,3-thiazol-5-yl]benzoic acid
Authors:Kinoshita, T., Nakanishi, I.
Deposit date:2015-11-13
Release date:2016-03-30
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure-activity relationship study of 4-(thiazol-5-yl)benzoic acid derivatives as potent protein kinase CK2 inhibitors
Bioorg.Med.Chem., 24, 2016
6AI6
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CRYSTAL STRUCTURE OF SPCAS9-NG
Descriptor:CRISPR-associated endonuclease Cas9/Csn1, RNA (81-MER), DNA (28-MER), ...
Authors:Nishimasu, H., Hirano, S., Ishitani, R., Nureki, O.
Deposit date:2018-08-21
Release date:2018-10-31
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Engineered CRISPR-Cas9 nuclease with expanded targeting space
Science, 361, 2018
6IS6
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CRYSTAL STRUCTURE OF THERMOPLASMATALES ARCHAEON HELIORHODOPSIN
Descriptor:heliorhodopsin, (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, RETINAL
Authors:Shihoya, W., Yamashita, K., Nureki, O.
Deposit date:2018-11-15
Release date:2019-09-25
Last modified:2019-11-20
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of heliorhodopsin.
Nature, 574, 2019