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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Tamura, T."

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Search Summary

This query matches 55 Structures.

Refinements

Structure Determination Methodology

experimental (55)

Scientific Name of Source Organism

	Pseudomonas putida (10)
	Pseudonocardia autotrophica (8)
	Burkholderia thailandensis E264 (5)
	Priestia megaterium (5)
	Streptomyces sp. 590 KI-2014 (5)
	Thermoplasma acidophilum (5)
	Streptomyces coelicolor A3(2) (4)
	Burkholderia stabilis (2)
	Pyrococcus horikoshii (2)
	Acidithiobacillus thiooxidans (1)

More...

Taxonomy

	Bacteria (46)
	Archaea (9)

Experimental Method

X-RAY DIFFRACTION (55)

Polymer Entity Type

Protein (55)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (18)
	2.0 - 2.5 (26)
	2.5 - 3.0 (8)
	3.0 - 3.5 (1)

Release Date

	2000 - 2004 (4)
	2005 - 2009 (17)
	2010 - 2014 (21)
	2015 - 2019 (2)
	2020 - 2024 (11)

Enzyme Classification Name

	Lyases (15)
	Oxidoreductases (21)
	Transferases (8)
	Ligases (1)

Membrane Protein Annotation

OPM (2)

Symmetry Type

	Asymmetric (16)
	Cyclic (23)
	Dihedral (17)

SCOP Classification

	Alpha and beta proteins (a/b) (29)
	All alpha proteins (11)
	Artifacts (13)
	Alpha and beta proteins (a+b) (2)

AllSelected

1 to 25 of 55 Structures

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1GC0 \| pdb_00001gc0	Download File View File

CRYSTAL STRUCTURE OF THE PYRIDOXAL-5'-PHOSPHATE DEPENDENT L-METHIONINE GAMMA-LYASE FROM PSEUDOMONAS PUTIDA

Motoshima, H., Inagaki, K., Kumasaka, T., Furuichi, M., Inoue, H., Tamura, T., Esaki, N., Soda, K., Tanaka, N., Yamamoto, M., Tanaka, H.

(2000) J Biochem 128: 349-354

Released	2002-05-08
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Pseudomonas putida
Macromolecule	METHIONINE GAMMA-LYASE (protein)

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1GC2 \| pdb_00001gc2	Download File View File

CRYSTAL STRUCTURE OF THE PYRIDOXAL-5'-PHOSPHATE DEPENDENT L-METHIONINE GAMMA-LYASE FROM PSEUDOMONAS PUTIDA

Motoshima, H., Inagaki, K., Kumasaka, T., Furuichi, M., Inoue, H., Tamura, T., Esaki, N., Soda, K., Tanaka, N., Yamamoto, M., Tanaka, H.

(2000) J Biochem 128: 349-354

Released	2002-05-08
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pseudomonas putida
Macromolecule	METHIONINE GAMMA-LYASE (protein)

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1IXK \| pdb_00001ixk	Download File View File

Crystal Structure Analysis of Methyltransferase Homolog Protein from Pyrococcus Horikoshii

Ishikawa, I., Sakai, N., Yao, M., Watanabe, N., Tamura, T., Tanaka, I.

(2004) Proteins 54: 814-816

Released	2003-09-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Methyltransferase (protein)

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1UKJ \| pdb_00001ukj	Download File View File

Detailed structure of L-Methionine-Lyase from Pseudomonas putida

Misaki, S., Takimoto, A., Takakura, T., Yoshioka, T., Yamashita, M., Tamura, T., Tanaka, H., Inagaki, K.

To be published

Released	2004-10-19
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Pseudomonas putida
Macromolecule	Methionine gamma-lyase (protein)
Unique Ligands	SO4

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1VAJ \| pdb_00001vaj	Download File View File

Crystal Structure of Uncharacterized Protein PH0010 From Pyrococcus horikoshii

Tajika, Y., Sakai, N., Tamura, T., Yao, M., Watanabe, N., Tanaka, I.

(2005) Proteins 58: 501-503

Released	2005-01-25
Method	X-RAY DIFFRACTION 1.82 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Hypothetical protein PH0010 (protein)

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1WS6 \| pdb_00001ws6	Download File View File

The Structure of Thermus thermphillus HB8 hypothetical protein TTHA0928

Sasaki, C., Sugiura, I., Sugio, S., Tamura, T., Inagaki, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-02-07
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermus thermophilus HB8
Macromolecule	methyltransferase (protein)

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1WU7 \| pdb_00001wu7	Download File View File

Crystal structure of histidyl-tRNA synthetase from Thermoplasma acidophilum

Tanaka, Y., Sakai, N., Yao, M., Watanabe, N., Tamura, T., Tanaka, I.

To be published

Released	2005-12-06
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermoplasma acidophilum
Macromolecule	Histidyl-tRNA synthetase (protein)

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2D4V \| pdb_00002d4v	Download File View File

Crystal structure of NAD dependent isocitrate dehydrogenase from Acidithiobacillus thiooxidans

Imada, K., Tamura, T., Namba, K., Inagaki, K.

(2008) Proteins 70: 63-71

Released	2006-11-14
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Acidithiobacillus thiooxidans
Macromolecule	isocitrate dehydrogenase (protein)
Unique Ligands	FLC, NAD

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2D4W \| pdb_00002d4w	Download File View File

Crystal structure of glycerol kinase from Cellulomonas sp. NT3060

Imada, K., Tamura, T., Namba, K., Inagaki, K.

To be published

Released	2006-11-14
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Cellulomonas sp.
Macromolecule	glycerol kinase (protein)
Unique Ligands	MPD

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2D6Y \| pdb_00002d6y	Download File View File

Crystal Structure of transcriptional factor SCO4008 from Streptomyces coelicolor A3(2)

Hayashi, T., Tanaka, Y., Sakai, N., Yao, M., Tamura, T., Tanaka, I.

(2013) J Mol Biology 425: 3289-3300

Released	2006-10-31
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Streptomyces coelicolor A3(2)
Macromolecule	putative tetR family regulatory protein (protein)
Unique Ligands	TLA

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2DG6 \| pdb_00002dg6	Download File View File

Crystal structure of the putative transcriptional regulator SCO5550 from Streptomyces coelicolor A3(2)

Hayashi, T., Tanaka, Y., Sakai, N., Yao, M., Tamura, T., Tanaka, I.

(2013) Biochem Biophys Res Commun 435: 28-33

Released	2007-03-13
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Streptomyces coelicolor A3(2)
Macromolecule	putative transcriptional regulator (protein)

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2DG7 \| pdb_00002dg7	Download File View File

Crystal structure of the putative transcriptional regulator SCO0337 from Streptomyces coelicolor A3(2)

Hayashi, T., Tanaka, Y., Sakai, N., Yao, M., Tamura, T., Tanaka, I.

To be published

Released	2007-03-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Streptomyces coelicolor A3(2)
Macromolecule	putative transcriptional regulator (protein)

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2DG8 \| pdb_00002dg8	Download File View File

Crystal structure of the putative trasncriptional regulator SCO7518 from Streptomyces coelicolor A3(2)

Hayashi, T., Watanabe, N., Sakai, N., Tamura, T., Yao, M., Tanaka, I.

To be published

Released	2007-03-13
Method	X-RAY DIFFRACTION 2.21 Å
Organisms	Streptomyces coelicolor A3(2)
Macromolecule	putative tetR-family transcriptional regulatory protein (protein)

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2DTD \| pdb_00002dtd	Download File View File

Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in ligand-free form

Yasutake, Y., Nishiya, Y., Tamura, N., Tamura, T.

(2007) J Mol Biology 367: 1034-1046

Released	2007-03-27
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Thermoplasma acidophilum
Macromolecule	Glucose 1-dehydrogenase related protein (protein)
Unique Ligands	SO4

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2DTE \| pdb_00002dte	Download File View File

Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in complex with NADH

Yasutake, Y., Nishiya, Y., Tamura, N., Tamura, T.

(2007) J Mol Biology 367: 1034-1046

Released	2007-03-27
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Thermoplasma acidophilum
Macromolecule	Glucose 1-dehydrogenase related protein (protein)
Unique Ligands	NAI

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2DTX \| pdb_00002dtx	Download File View File

Structure of Thermoplasma acidophilum aldohexose dehydrogenase (AldT) in complex with D-mannose

Yasutake, Y., Nishiya, Y., Tamura, N., Tamura, T.

(2007) J Mol Biology 367: 1034-1046

Released	2007-03-27
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Thermoplasma acidophilum
Macromolecule	Glucose 1-dehydrogenase related protein (protein)
Unique Ligands	BMA, SO4

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2E1M \| pdb_00002e1m	Download File View File

Crystal Structure of L-Glutamate Oxidase from Streptomyces sp. X-119-6

Sasaki, C., Kashima, A., Sakaguchi, C., Mizuno, H., Arima, J., Kusakabe, H., Tamura, T., Sugio, S., Inagaki, K.

(2009) FEBS J 276: 4318-4327

Released	2007-11-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Streptomyces sp. X-119-6
Macromolecule	L-glutamate oxidase (protein)
Unique Ligands	FAD, PO4

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2GOP \| pdb_00002gop	Download File View File

The beta-propeller domain of the Trilobed protease from Pyrococcus furiosus reveals an open velcro topology

Bosch, J., Tamura, T., Tamura, N., Baumeister, W., Essen, L.-O.

(2007) Acta Crystallogr D Biol Crystallogr 63: 179-187

Released	2007-01-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus furiosus
Macromolecule	Trilobed Protease (protein)

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2O7C \| pdb_00002o7c	Download File View File

Crystal structure of L-methionine-lyase from Pseudomonas

Misaki, S., Takimoto, A., Takakura, T., Yoshioka, T., Yamashita, M., Tamura, T., Tanaka, H., Inagaki, K.

(2007) J Biochem 141: 535-544

Released	2007-12-11
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Pseudomonas putida
Macromolecule	Methionine gamma-lyase (protein)
Unique Ligands	SO4

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2Z36 \| pdb_00002z36	Download File View File

Crystal structure of cytochrome P450 MoxA from Nonomuraea recticatena (CYP105)

Yasutake, Y., Fujii, Y., Fujii, T., Arisawa, A., Tamura, T.

(2007) Biochem Biophys Res Commun 361: 876-882

Released	2007-08-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Nonomuraea recticatena
Macromolecule	Cytochrome P450 type compactin 3'',4''-hydroxylase (protein)
Unique Ligands	FE, HEM, MES

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2ZK7 \| pdb_00002zk7	Download File View File

Structure of a C-terminal deletion mutant of Thermoplasma acidophilum aldohexose dehydrogenase (AldT)

Nishioka, T., Yasutake, Y., Nishiya, Y., Tamura, N., Tamura, T.

(2009) Proteins 74: 801-807

Released	2009-01-13
Method	X-RAY DIFFRACTION 2.71 Å
Organisms	Thermoplasma acidophilum
Macromolecule	Glucose 1-dehydrogenase related protein (protein)

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3A4G \| pdb_00003a4g	Download File View File

Structure of cytochrome P450 vdh from Pseudonocardia autotrophica (trigonal crystal form)

Yasutake, Y., Fujii, Y., Cheon, W.K., Arisawa, A., Tamura, T.

(2010) J Biological Chem 285: 31193-31201

Released	2010-07-14
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Pseudonocardia autotrophica
Macromolecule	Vitamin D hydroxylase (protein)
Unique Ligands	HEM, PG0

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3A4H \| pdb_00003a4h	Download File View File

Structure of cytochrome P450 vdh from Pseudonocardia autotrophica (orthorhombic crystal form)

Yasutake, Y., Fujii, Y., Cheon, W.K., Arisawa, A., Tamura, T.

(2010) J Biological Chem 285: 31193-31201

Released	2010-07-14
Method	X-RAY DIFFRACTION 3.06 Å
Organisms	Pseudonocardia autotrophica
Macromolecule	Vitamin D hydroxylase (protein)
Unique Ligands	CA, HEM

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3A4Z \| pdb_00003a4z	Download File View File

Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution

Yasutake, Y., Fujii, Y., Cheon, W.K., Arisawa, A., Tamura, T.

(2010) J Biological Chem 285: 31193-31201

Released	2010-07-28
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Pseudonocardia autotrophica
Macromolecule	Vitamin D hydroxylase (protein)
Unique Ligands	ACT, CA, GOL, HEM

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3A50 \| pdb_00003a50	Download File View File

Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution with bound vitamin D3

Yasutake, Y., Fujii, Y., Cheon, W.K., Arisawa, A., Tamura, T.

(2010) J Biological Chem 285: 31193-31201

Released	2010-07-28
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Pseudonocardia autotrophica
Macromolecule	Vitamin D hydroxylase (protein)
Unique Ligands	ACT, CA, GOL, HEM, VD3

1 to 25 of 55 Structures

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1GC0 | pdb_00001gc0

1GC2 | pdb_00001gc2

1IXK | pdb_00001ixk

1UKJ | pdb_00001ukj

1VAJ | pdb_00001vaj

1WS6 | pdb_00001ws6

1WU7 | pdb_00001wu7

2D4V | pdb_00002d4v

2D4W | pdb_00002d4w

2D6Y | pdb_00002d6y

2DG6 | pdb_00002dg6

2DG7 | pdb_00002dg7

2DG8 | pdb_00002dg8

2DTD | pdb_00002dtd

2DTE | pdb_00002dte

2DTX | pdb_00002dtx

2E1M | pdb_00002e1m

2GOP | pdb_00002gop

2O7C | pdb_00002o7c

2Z36 | pdb_00002z36

2ZK7 | pdb_00002zk7

3A4G | pdb_00003a4g

3A4H | pdb_00003a4h

3A4Z | pdb_00003a4z

3A50 | pdb_00003a50