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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Tanaka, I."

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Search Summary

This query matches 280 Structures.

Refinements

Structure Determination Methodology

experimental (280)

Scientific Name of Source Organism

	Bos taurus (49)
	Pyrococcus horikoshii (25)
	Pyrococcus horikoshii OT3 (22)
	Staphylococcus aureus subsp. aureus Mu50 (19)
	Homo sapiens (12)
	Staphylococcus aureus (11)
	Sulfurisphaera tokodaii (8)
	Momordica charantia (7)
	Pseudomonas aeruginosa PAO1 (7)
	Acetivibrio thermocellus (6)

More...

Taxonomy

	Bacteria (108)
	Eukaryota (101)
	Archaea (63)
	other sequences (4)
	Riboviria (3)
	Eukaryota (eukaryotes) (2)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (267)
	NEUTRON DIFFRACTION (20)

Polymer Entity Type

	Protein (275)
	RNA (11)
	DNA (9)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (17)
	1.5 - 2.0 (123)
	2.0 - 2.5 (84)
	2.5 - 3.0 (39)
	3.0 - 3.5 (16)
	3.5 - 4.0 (4)
	4.0 - 4.5 (1)

Release Date

	1990 - 1994 (1)
	1995 - 1999 (7)
	2000 - 2004 (52)
	2005 - 2009 (94)
	2010 - 2014 (106)
	2015 - 2019 (14)
	2020 - 2024 (6)

Enzyme Classification Name

	Hydrolases (113)
	Ligases (13)
	Transferases (18)
	Lyases (17)
	Isomerases (10)
	Oxidoreductases (11)
	Translocases (1)

Membrane Protein Annotation

	mpstruc (9)
	OPM (4)
	PDBTM (2)
	MemProtMD (1)

Symmetry Type

	Asymmetric (186)
	Cyclic (79)
	Dihedral (32)
	Tetrahedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (50)
	All beta proteins (62)
	Alpha and beta proteins (a+b) (59)
	All alpha proteins (36)
	Artifacts (21)
	Membrane and cell surface proteins and peptides (5)
	Small proteins (6)
	Peptides (1)

AllSelected

1 to 25 of 280 Structures

Page 1 of 12

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1BK7 \| pdb_00001bk7	Download File View File

RIBONUCLEASE MC1 FROM THE SEEDS OF BITTER GOURD

Nakagawa, A., Tanaka, I.

(1999) Biochim Biophys Acta 1433: 253-260

Released	1999-07-23
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Momordica charantia
Macromolecule	PROTEIN (RIBONUCLEASE MC1) (protein)

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1DPT \| pdb_00001dpt	Download File View File

D-DOPACHROME TAUTOMERASE

Sugimoto, H., Taniguchi, M., Nakagawa, A., Tanaka, I.

(1999) Biochemistry 38: 3268-3279

Released	1999-03-30
Method	X-RAY DIFFRACTION 1.54 Å
Organisms	Homo sapiens
Macromolecule	D-DOPACHROME TAUTOMERASE (protein)

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1EL1 \| pdb_00001el1	Download File View File

X-RAY CRYSTAL STRUCTURE ANALYSIS OF CANINE MILK LYSOZYME (HOLO-TYPE)

Koshiba, T., Yao, M., Tanaka, I., Nitta, K.

To be published

Released	2001-03-13
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Canis lupus familiaris
Macromolecule	LYSOZYME C (protein)
Unique Ligands	CA

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1F2D \| pdb_00001f2d	Download File View File

1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE

Yao, M., Ose, T., Sugimoto, H., Horiuchi, A., Nakagawa, A., Yokoi, D., Murakami, T., Honma, M., Wakatsuki, S., Tanaka, I.

(2000) J Biological Chem 275: 34557-34565

Released	2000-12-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Cyberlindnera saturnus
Macromolecule	1-AMINOCYCLOPROPANE-1-CARBOXYLATE DEAMINASE (protein)
Unique Ligands	PLP, SO4

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1FIM \| pdb_00001fim	Download File View File

MACROPHAGE MIGRATION INHIBITORY FACTOR

Suzuki, M., Sugimoto, H., Nakagawa, A., Tanaka, I.

(1996) Nat Struct Biol 3: 259-266

Released	1996-07-11
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Rattus norvegicus
Macromolecule	MACROPHAGE MIGRATION INHIBITORY FACTOR (protein)

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1GD6 \| pdb_00001gd6	Download File View File

STRUCTURE OF THE BOMBYX MORI LYSOZYME

Matsuura, A., Aizawa, T., Yao, M., Kawano, K., Tanaka, I., Nitta, K.

(2002) Biochemistry 41: 12086-12092

Released	2001-03-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Bombyx mori
Macromolecule	LYSOZYME (protein)

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1HUS \| pdb_00001hus	Download File View File

RIBOSOMAL PROTEIN S7

Hosaka, H., Nakagawa, A., Tanaka, I.

(1997) Structure 5: 1199-1208

Released	1998-01-28
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	RIBOSOMAL PROTEIN S7 (protein)

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1HUU \| pdb_00001huu	Download File View File

DNA-BINDING PROTEIN HU FROM BACILLUS STEAROTHERMOPHILUS

White, S.W., Tanaka, I., Appelt, K., Wilson, K.S.

(1989) Proteins 5: 281-288

Released	1999-01-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	PROTEIN HU (protein)

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1ION \| pdb_00001ion	Download File View File

THE SEPTUM SITE-DETERMINING PROTEIN MIND COMPLEXED WITH MG-ADP FROM PYROCOCCUS HORIKOSHII OT3

Sakai, N., Yao, M., Itou, H., Watanabe, N., Yumoto, F., Tanokura, M., Tanaka, I.

(2001) Structure 9: 817-826

Released	2001-09-26
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	PROBABLE CELL DIVISION INHIBITOR MIND (protein)
Unique Ligands	ADP, MG

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1IQ4 \| pdb_00001iq4	Download File View File

5S-RRNA BINDING RIBOSOMAL PROTEIN L5 FROM BACILLUS STEAROTHERMOPHILUS

Nakashima, T., Yao, M., Kawamura, S., Iwasaki, K., Kimura, M., Tanaka, I.

(2001) RNA 7: 692-701

Released	2001-06-27
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	50S RIBOSOMAL PROTEIN L5 (protein)

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1IQV \| pdb_00001iqv	Download File View File

Crystal Structure Analysis of the archaebacterial ribosomal protein S7

Hosaka, H., Yao, M., Kimura, M., Tanaka, I.

(2001) J Biochem 130: 695-701

Released	2001-08-29
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Pyrococcus horikoshii
Macromolecule	RIBOSOMAL PROTEIN S7 (protein)

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1IRJ \| pdb_00001irj	Download File View File

Crystal Structure of the MRP14 complexed with CHAPS

Itou, H., Yao, M., Watanabe, N., Nishihira, J., Tanaka, I.

(2002) J Mol Biology 316: 265-276

Released	2002-02-27
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Migration Inhibitory Factor-Related Protein 14 (protein)
Unique Ligands	CA, CPS

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1ITW \| pdb_00001itw	Download File View File

Crystal structure of the monomeric isocitrate dehydrogenase in complex with isocitrate and Mn

Yasutake, Y., Watanabe, S., Yao, M., Takada, Y., Fukunaga, N., Tanaka, I.

(2002) Structure 10: 1637-1648

Released	2002-12-11
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Azotobacter vinelandii
Macromolecule	Isocitrate dehydrogenase (protein)
Unique Ligands	ICT, MN

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1IU5 \| pdb_00001iu5	Download File View File

X-ray Crystal Structure of the rubredoxin mutant from Pyrococcus Furiosus

Chatake, T., Kurihara, K., Tanaka, I., Tsyba, I., Bau, R., Jenney, F.E., Adams, M.W.W., Niimura, N.

(2004) Acta Crystallogr D Biol Crystallogr 60: 1364-1373

Released	2002-08-27
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Pyrococcus furiosus
Macromolecule	rubredoxin (protein)
Unique Ligands	FE

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1IU6 \| pdb_00001iu6	Download File View File

Neutron Crystal Structure of the rubredoxin mutant from Pyrococcus Furiosus

Chatake, T., Kurihara, K., Tanaka, I., Tsyba, I., Bau, R., Jenney, F.E., Adams, M.W.W., Niimura, N.

(2004) Acta Crystallogr D Biol Crystallogr 60: 1364-1373

Released	2002-08-27
Method	NEUTRON DIFFRACTION 1.6 Å
Organisms	Pyrococcus furiosus
Macromolecule	rubredoxin (protein)
Unique Ligands	FE

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1IU8 \| pdb_00001iu8	Download File View File

The X-ray Crystal Structure of Pyrrolidone-Carboxylate Peptidase from Hyperthermophilic Archaeon Pyrococcus horikoshii

Sokabe, M., Kawamura, T., Sakai, N., Yao, M., Watanabe, N., Tanaka, I.

(2002) J Struct Funct Genomics 2: 145-154

Released	2002-03-20
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Pyrrolidone-carboxylate peptidase (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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1IXL \| pdb_00001ixl	Download File View File

Crystal structure of uncharacterized protein PH1136 from Pyrococcus horikoshii

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

(2004) Proteins 55: 210-213

Released	2003-09-09
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Pyrococcus horikoshii
Macromolecule	hypothetical protein PH1136 (protein)

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1IZ6 \| pdb_00001iz6	Download File View File

Crystal Structure of Translation Initiation Factor 5A from Pyrococcus Horikoshii

Yao, M., Ohsawa, A., Kikukawa, S., Tanaka, I., Kimura, M.

(2003) J Biochem 133: 75-81

Released	2003-01-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	Initiation Factor 5A (protein)

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1IZC \| pdb_00001izc	Download File View File

Crystal Structure Analysis of Macrophomate synthase

Ose, T., Watanabe, K., Mie, T., Honma, M., Watanabe, H., Yao, M., Oikawa, H., Tanaka, I.

(2003) Nature 422: 185-189

Released	2003-04-01
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Macrophoma commelinae
Macromolecule	macrophomate synthase intermolecular Diels-Alderase (protein)
Unique Ligands	MG, PYR

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1J08 \| pdb_00001j08	Download File View File

Crystal structure of glutaredoxin-like protein from Pyrococcus horikoshii

Tanaka, Y., Tanabe, E., Tsumoto, K., Kumagai, I., Yao, M., Tanaka, I.

To be published

Released	2003-05-11
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pyrococcus horikoshii
Macromolecule	glutaredoxin-like protein (protein)

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1J0A \| pdb_00001j0a	Download File View File

Crystal Structure Analysis of the ACC deaminase homologue

Fujino, A., Ose, T., Honma, M., Yao, M., Tanaka, I.

(2004) J Mol Biology 341: 999-1013

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	IPA, PLP, SO4

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1J0B \| pdb_00001j0b	Download File View File

Crystal Structure Analysis of the ACC deaminase homologue complexed with inhibitor

Fujino, A., Ose, T., Honma, M., Yao, M., Tanaka, I.

(2004) J Mol Biology 341: 999-1013

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	5PA

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1J0C \| pdb_00001j0c	Download File View File

ACC deaminase mutated to catalytic residue

Ose, T., Fujino, A., Yao, M., Honma, M., Tanaka, I.

(2003) J Biological Chem 278: 41069-41076

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Cyberlindnera saturnus
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	PLP

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1J0D \| pdb_00001j0d	Download File View File

ACC deaminase mutant complexed with ACC

Ose, T., Fujino, A., Yao, M., Honma, M., Tanaka, I.

(2003) J Biological Chem 278: 41069-41076

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Cyberlindnera saturnus
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	5PA

1 to 25 of 280 Structures

Page 1 of 12

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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

1BK7 | pdb_00001bk7

1DPT | pdb_00001dpt

1EL1 | pdb_00001el1

1F2D | pdb_00001f2d

1FIM | pdb_00001fim

1GD6 | pdb_00001gd6

1HUS | pdb_00001hus

1HUU | pdb_00001huu

1ION | pdb_00001ion

1IQ4 | pdb_00001iq4

1IQV | pdb_00001iqv

1IRJ | pdb_00001irj

1ITW | pdb_00001itw

1IU5 | pdb_00001iu5

1IU6 | pdb_00001iu6

1IU8 | pdb_00001iu8

1IXK | pdb_00001ixk

1IXL | pdb_00001ixl

1IZ6 | pdb_00001iz6

1IZC | pdb_00001izc

1J08 | pdb_00001j08

1J0A | pdb_00001j0a

1J0B | pdb_00001j0b

1J0C | pdb_00001j0c

1J0D | pdb_00001j0d