Author results

1XWF
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K185N MUTATED S-ADENOSYLHOMOCYSTEINE HYDROLASE
Descriptor:Adenosylhomocysteinase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ADENOSINE
Authors:Yamada, T., Takata, Y., Komoto, J., Gomi, T., Ogawa, H., Fujioka, M., Takusagawa, F.
Deposit date:2004-11-01
Release date:2005-09-20
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Catalytic mechanism of S-adenosylhomocysteine hydrolase: Roles of His 54, Asp130, Glu155, Lys185, and Aspl89.
Int.J.Biochem.Cell Biol., 37, 2005
2RKB
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SERINE DEHYDRATASE LIKE-1 FROM HUMAN CANCER CELLS
Descriptor:Serine dehydratase-like, POTASSIUM ION, PYRIDOXAL-5'-PHOSPHATE
Authors:Yamada, T., Komoto, J., Kasuya, T., Mori, H., Ogawa, H., Takusagawa, F.
Deposit date:2007-10-16
Release date:2008-04-01
Last modified:2017-10-25
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:A catalytic mechanism that explains a low catalytic activity of serine dehydratase like-1 from human cancer cells: Crystal structure and site-directed mutagenesis studies.
Biochim.Biophys.Acta, 1780, 2008
3VXE
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HUMAN ALPHA-THROMBIN-BIVALIRUDIN COMPLEX AT PD5.0
Descriptor:Thrombin light chain, Thrombin heavy chain, BIVALIRUDIN, ...
Authors:Yamada, T., Kurihara, K., Masumi, K., Tamada, T., Tomoyori, K., Ohnishi, Y., Tanaka, I., Kuroki, R., Niimura, N.
Deposit date:2012-09-12
Release date:2013-09-04
Method:X-RAY DIFFRACTION (1.25 Å)
Cite:Neutron and X-ray crystallographic analysis of the human alpha-thrombin-bivalirudin complex at pD 5.0: protonation states and hydration structure of the enzyme-product complex
Biochim.Biophys.Acta, 1834, 2013
3VXF
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X/N JOINT REFINEMENT OF HUMAN ALPHA-THROMBIN-BIVALIRUDIN COMPLEX PD5
Descriptor:Thrombin light chain, Thrombin heavy chain, BIVALIRUDIN, ...
Authors:Yamada, T., Kurihara, K., Masumi, K., Tamada, T., Tomoyori, K., Ohnishi, Y., Tanaka, I., Kuroki, R., Niimura, N.
Deposit date:2012-09-12
Release date:2013-09-04
Last modified:2018-11-28
Method:X-RAY DIFFRACTION (1.602 Å), NEUTRON DIFFRACTION
Cite:Neutron and X-ray crystallographic analysis of the human alpha-thrombin-bivalirudin complex at pD 5.0: protonation states and hydration structure of the enzyme-product complex
Biochim.Biophys.Acta, 1834, 2013
1PWE
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RAT LIVER L-SERINE DEHYDRATASE APO ENZYME
Descriptor:L-serine dehydratase
Authors:Yamada, T., Komoto, J., Takata, Y., Ogawa, H., Takusagawa, F.
Deposit date:2003-07-01
Release date:2003-12-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure of serine dehydratase from rat liver.
Biochemistry, 42, 2003
1PWH
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RAT LIVER L-SERINE DEHYDRATASE- COMPLEX WITH PYRIDOXYL-(O-METHYL-SERINE)-5-MONOPHOSPHATE
Descriptor:L-serine dehydratase, POTASSIUM ION, N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-O-METHYL-L-SERINE
Authors:Yamada, T., Komoto, J., Takata, Y., Ogawa, H., Takusagawa, F.
Deposit date:2003-07-01
Release date:2003-12-02
Last modified:2018-01-31
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal structure of serine dehydratase from rat liver.
Biochemistry, 42, 2003
1Z9H
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MICROSOMAL PROSTAGLANDIN E SYNTHASE TYPE-2
Descriptor:membrane-associated prostaglandin E synthase-2, ACETATE ION, INDOMETHACIN, ...
Authors:Yamada, T., Komoto, J., Watanabe, K., Ohmiya, Y., Takusagawa, F.
Deposit date:2005-04-02
Release date:2005-05-17
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal Structure and Possible Catalytic Mechanism of Microsomal Prostaglandin E Synthase Type 2 (mPGES-2).
J.Mol.Biol., 348, 2005
2F2F
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CRYSTAL STRUCTURE OF CYTOLETHAL DISTENDING TOXIN (CDT) FROM ACTINOBACILLUS ACTINOMYCETEMCOMITANS
Descriptor:Cytolethal distending toxin A, Cytolethal distending toxin B, cytolethal distending toxin C
Authors:Yamada, T., Komoto, J., Saiki, K., Konishi, K., Takusagawa, F.
Deposit date:2005-11-16
Release date:2006-03-28
Last modified:2017-10-18
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Variation of loop sequence alters stability of cytolethal distending toxin (CDT): crystal structure of CDT from Actinobacillus actinomycetemcomitans
Protein Sci., 15, 2006
2H5L
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S-ADENOSYLHOMOCYSTEINE HYDROLASE CONTAINING NAD AND 3-DEAZA-D-ERITADENINE
Descriptor:Adenosylhomocysteinase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, (2R,3R)-4-(4-AMINO-1H-IMIDAZO[4,5-C]PYRIDIN-1-YL)-2,3-DIHYDROXYBUTANOIC ACID
Authors:Yamada, T., Komoto, J., Takusagawa, F.
Deposit date:2006-05-26
Release date:2007-04-10
Last modified:2017-10-18
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structure and function of eritadenine and its 3-deaza analogues: Potent inhibitors of S-adenosylhomocysteine hydrolase and hypocholesterolemic agents.
Biochem.Pharm., 73, 2007
1LZ5
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STRUCTURAL AND FUNCTIONAL ANALYSES OF THE ARG-GLY-ASP SEQUENCE INTRODUCED INTO HUMAN LYSOZYME
Descriptor:HUMAN LYSOZYME, CHLORIDE ION
Authors:Matsushima, M., Inaka, K., Yamada, T., Sekiguchi, K., Kikuchi, M.
Deposit date:1993-02-03
Release date:1993-10-31
Last modified:2017-11-29
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural and functional analyses of the Arg-Gly-Asp sequence introduced into human lysozyme.
J.Biol.Chem., 268, 1993
1LZ6
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STRUCTURAL AND FUNCTIONAL ANALYSES OF THE ARG-GLY-ASP SEQUENCE INTRODUCED INTO HUMAN LYSOZYME
Descriptor:HUMAN LYSOZYME, CHLORIDE ION
Authors:Matsushima, M., Inaka, K., Yamada, T., Sekiguchi, K., Kikuchi, M.
Deposit date:1993-02-03
Release date:1993-10-31
Last modified:2017-11-29
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural and functional analyses of the Arg-Gly-Asp sequence introduced into human lysozyme.
J.Biol.Chem., 268, 1993
2PBJ
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GSH-HEME BOUND MICROSOMAL PROSTAGLANDIN E SYNTHASE
Descriptor:Prostaglandin E synthase 2, CHLORIDE ION, PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Takusagawa, F., Yamada, T.
Deposit date:2007-03-28
Release date:2008-02-12
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:PGH2 degradation pathway catalyzed by GSH-heme complex bound microsomal prostaglandin E2 synthase type 2: the first example of a dual-function enzyme.
Biochemistry, 46, 2007
1D7Y
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CRYSTAL STRUCTURE OF NADH-DEPENDENT FERREDOXIN REDUCTASE, BPHA4
Descriptor:FERREDOXIN REDUCTASE, FLAVIN-ADENINE DINUCLEOTIDE
Authors:Senda, T., Yamada, T., Sakurai, N., Kubota, M., Nishizaki, T., Masai, E., Fukuda, M., Mitsui, Y.
Deposit date:1999-10-21
Release date:2000-12-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of NADH-dependent ferredoxin reductase component in biphenyl dioxygenase.
J.Mol.Biol., 304, 2000
1F3P
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FERREDOXIN REDUCTASE (BPHA4)-NADH COMPLEX
Descriptor:FERREDOXIN REDUCTASE, FLAVIN-ADENINE DINUCLEOTIDE, NICOTINAMIDE-ADENINE-DINUCLEOTIDE
Authors:Senda, T., Yamada, T., Sakurai, N., Kubota, M., Nishizaki, T., Masai, E., Fukuda, M., Mitsuidagger, Y.
Deposit date:2000-06-06
Release date:2001-06-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of NADH-dependent ferredoxin reductase component in biphenyl dioxygenase.
J.Mol.Biol., 304, 2000
3U2I
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X-RAY CRYSTAL STRUCTURE OF HUMAN TRANSTHYRETIN AT ROOM TEMPERATURE
Descriptor:Transthyretin
Authors:Yokoyama, T., Mizuguchi, M., Nabeshima, Y., Kusaka, K., Yamada, T., Hosoya, T., Ohhara, T., Kurihara, K., Tomoyori, K., Tanaka, I., Niimura, N.
Deposit date:2011-10-03
Release date:2012-02-22
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Hydrogen-bond network and pH sensitivity in transthyretin: Neutron crystal structure of human transthyretin
J.Struct.Biol., 177, 2012
3U2J
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NEUTRON CRYSTAL STRUCTURE OF HUMAN TRANSTHYRETIN
Descriptor:Transthyretin
Authors:Yokoyama, T., Mizuguchi, M., Nabeshima, Y., Kusaka, K., Yamada, T., Hosoya, T., Ohhara, T., Kurihara, K., Tomoyori, K., Tanaka, I., Niimura, N.
Deposit date:2011-10-03
Release date:2012-02-22
Last modified:2018-03-07
Method:NEUTRON DIFFRACTION (2 Å)
Cite:Hydrogen-bond network and pH sensitivity in transthyretin: Neutron crystal structure of human transthyretin
J.Struct.Biol., 177, 2012
5XO2
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CRYSTAL STRUCTURE OF HUMAN PAIRED IMMUNOGLOBULIN-LIKE TYPE 2 RECEPTOR ALPHA WITH SYNTHESIZED GLYCOPEPTIDE II
Descriptor:Paired immunoglobulin-like type 2 receptor alpha, Peptide from Envelope glycoprotein B, O-SIALIC ACID, ...
Authors:Furukawa, A., Kakita, K., Yamada, T., Ishizuka, M., Sakamoto, J., Hatori, N., Maeda, N., Ohsaka, F., Saitoh, T., Nomura, T., Kuroki, K., Nambu, H., Arase, H., Matsunaga, S., Anada, M., Ose, T., Hashimoto, S., Maenaka, K.
Deposit date:2017-05-25
Release date:2017-10-25
Last modified:2018-01-24
Method:X-RAY DIFFRACTION (2.201 Å)
Cite:Structural and thermodynamic analyses reveal critical features of glycopeptide recognition by the human PILR alpha immune cell receptor.
J. Biol. Chem., 292, 2017
5XOF
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CRYSTAL STRUCTURE OF HUMAN PAIRED IMMUNOGLOBULIN-LIKE TYPE 2 RECEPTOR ALPHA WITH SYNTHESIZED GLYCOPEPTIDE I
Descriptor:Paired immunoglobulin-like type 2 receptor alpha, Peptide from Nitric oxide synthase, endothelial, ...
Authors:Furukawa, A., Kakita, K., Yamada, T., Ishizuka, M., Sakamoto, J., Hatori, N., Maeda, N., Ohsaka, F., Saitoh, T., Nomura, T., Kuroki, K., Nambu, H., Arase, H., Matsunaga, H., Anada, M., Ose, T., Hashimoto, S., Maenaka, K.
Deposit date:2017-05-28
Release date:2017-10-25
Last modified:2018-01-24
Method:X-RAY DIFFRACTION (1.963 Å)
Cite:Structural and thermodynamic analyses reveal critical features of glycopeptide recognition by the human PILR alpha immune cell receptor.
J. Biol. Chem., 292, 2017
3OTJ
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A CRYSTAL STRUCTURE OF TRYPSIN COMPLEXED WITH BPTI (BOVINE PANCREATIC TRYPSIN INHIBITOR) BY X-RAY/NEUTRON JOINT REFINEMENT
Descriptor:Cationic trypsin, Pancreatic trypsin inhibitor, CALCIUM ION, ...
Authors:Kawamura, K., Yamada, T., Kurihara, K., Tamada, T., Kuroki, R., Tanaka, I., Takahashi, H., Niimura, N.
Deposit date:2010-09-12
Release date:2011-01-26
Last modified:2017-11-08
Method:NEUTRON DIFFRACTION (2.15 Å), X-RAY DIFFRACTION
Cite:X-ray and neutron protein crystallographic analysis of the trypsin-BPTI complex.
Acta Crystallogr.,Sect.D, 67, 2011
3VM9
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DIMERIC HORSE MYOGLOBIN
Descriptor:Myoglobin, OXYGEN ATOM, PROTOPORPHYRIN IX CONTAINING FE
Authors:Nagao, S., Osuka, H., Yamada, T., Uni, T., Shomura, Y., Imai, K., Higuchi, Y., Hirota, S.
Deposit date:2011-12-09
Release date:2012-09-12
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:Structural and oxygen binding properties of dimeric horse myoglobin
Dalton Trans, 41, 2012
3X2O
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NEUTRON AND X-RAY JOINT REFINED STRUCTURE OF PCCEL45A APO FORM AT 298K.
Descriptor:Endoglucanase V-like protein
Authors:Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Tanaka, I., Niimura, N., Samejima, M., Igarashi, K.
Deposit date:2014-12-22
Release date:2015-10-07
Last modified:2018-05-16
Method:NEUTRON DIFFRACTION (1.5 Å), X-RAY DIFFRACTION
Cite:Newton s cradle proton relay with amide imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
SCI ADV, 1, 2015
3X2P
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NEUTRON AND X-RAY JOINT REFINED STRUCTURE OF PCCEL45A WITH CELLOPENTAOSE AT 298K.
Descriptor:Endoglucanase V-like protein, CELLOPENTAOSE
Authors:Nakamura, A., Ishida, T., Kusaka, K., Yamada, T., Tanaka, I., Niimura, N., Samejima, M., Igarashi, K.
Deposit date:2014-12-22
Release date:2015-10-14
Last modified:2018-05-16
Method:NEUTRON DIFFRACTION (1.518 Å), X-RAY DIFFRACTION
Cite:Newton s cradle proton relay with amide imidic acid tautomerization in inverting cellulase visualized by neutron crystallography
SCI ADV, 1, 2015
4GPG
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X/N JOINT REFINEMENT OF ACHROMOBACTER LYTICUS PROTEASE I FREE FORM AT PD8.0
Descriptor:Protease 1
Authors:Ohnishi, Y., Yamada, T., Kurihara, K., Tanaka, I., Sakiyama, F., Masaki, T., Niimura, N.
Deposit date:2012-08-21
Release date:2013-09-11
Last modified:2018-05-16
Method:X-RAY DIFFRACTION (1.895 Å), NEUTRON DIFFRACTION
Cite:Neutron and X-ray crystallographic analysis of Achromobacter protease I at pD 8.0: protonation states and hydration structure in the free-form.
Biochim.Biophys.Acta, 1834, 2013
6IHX
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CRYSTAL STRUCTURE ANALYSIS OF BOVINE HEMOGLOBIN MODIFIED BY SNP
Descriptor:Hemoglobin subunit alpha, Hemoglobin subunit beta, PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Kihira, K., Morita, Y., Yamada, T., Kureishi, M., Komatsu, T.
Deposit date:2018-10-03
Release date:2018-12-12
Last modified:2019-04-24
Method:X-RAY DIFFRACTION (1.46 Å)
Cite:Quaternary Structure Analysis of a Hemoglobin Core in Hemoglobin-Albumin Cluster.
J Phys Chem B, 122, 2018
6II1
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CRYSTAL STRUCTURE ANALYSIS OF CO FORM HEMOGLOBIN FROM BOS TAURUS
Descriptor:Hemoglobin subunit alpha, Hemoglobin subunit beta, PROTOPORPHYRIN IX CONTAINING FE, ...
Authors:Kihira, K., Morita, Y., Yamada, T., Kureishi, M., Komatsu, T.
Deposit date:2018-10-03
Release date:2018-12-12
Last modified:2019-04-24
Method:X-RAY DIFFRACTION (1.34 Å)
Cite:Quaternary Structure Analysis of a Hemoglobin Core in Hemoglobin-Albumin Cluster.
J Phys Chem B, 122, 2018