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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Tsumoto, K."

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Search Summary

This query matches 201 Structures.

Refinements

Structure Determination Methodology

experimental (201)

Scientific Name of Source Organism

	Homo sapiens (80)
	Mus musculus (38)
	Gallus gallus (26)
	Staphylococcus aureus subsp. aureus Mu50 (15)
	Rattus norvegicus (14)
	Actinia fragacea (12)
	Oryctolagus cuniculus (8)
	Streptococcus pyogenes SSI-1 (8)
	Lama glama (6)
	Streptococcus pyogenes (6)

More...

Taxonomy

	Eukaryota (154)
	Bacteria (43)
	Archaea (11)
	Riboviria (8)
	other sequences (1)

Experimental Method

	X-RAY DIFFRACTION (186)
	ELECTRON MICROSCOPY (15)

Polymer Entity Type

Protein (201)

Refinement Resolution (Å)

	1.0 - 1.5 (26)
	1.5 - 2.0 (74)
	2.0 - 2.5 (51)
	2.5 - 3.0 (28)
	3.0 - 3.5 (11)
	3.5 - 4.0 (10)
	4.0 - 4.5 (1)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (19)
	2005 - 2009 (29)
	2010 - 2014 (20)
	2015 - 2019 (73)
	2020 - 2024 (59)

Enzyme Classification Name

	Hydrolases (45)
	Transferases (15)
	Isomerases (5)
	Lyases (4)
	Oxidoreductases (2)

Membrane Protein Annotation

	mpstruc (8)
	MemProtMD (3)
	OPM (3)
	PDBTM (3)

Symmetry Type

	Asymmetric (128)
	Cyclic (64)
	Dihedral (14)

SCOP Classification

	All beta proteins (73)
	Alpha and beta proteins (a+b) (40)
	Alpha and beta proteins (a/b) (22)
	Artifacts (16)
	All alpha proteins (6)
	Small proteins (1)

AllSelected

1 to 25 of 201 Structures

Page 1 of 9

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1C08 \| pdb_00001c08	Download File View File

CRYSTAL STRUCTURE OF HYHEL-10 FV-HEN LYSOZYME COMPLEX

Shiroishi, M., Kondo, H., Matsushima, M., Tsumoto, K., Kumagai, I.

(1999) J Biological Chem 274: 27623-27631

Released	2000-07-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	ANTI-HEN EGG WHITE LYSOZYME ANTIBODY (HYHEL-10) (protein) LYSOZYME (protein)

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1FKQ \| pdb_00001fkq	Download File View File

RECOMBINANT GOAT ALPHA-LACTALBUMIN T29V

Horii, K., Matsushima, M., Tsumoto, K., Kumagai, I.

(2001) Proteins 45: 16-29

Released	2001-02-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Capra hircus
Macromolecule	ALPHA-LACTALBUMIN (protein)
Unique Ligands	CA

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1FKV \| pdb_00001fkv	Download File View File

RECOMBINANT GOAT ALPHA-LACTALBUMIN T29I

Horii, K., Matsushima, M., Tsumoto, K., Kumagai, I.

(2001) Proteins 45: 16-29

Released	2001-02-14
Method	X-RAY DIFFRACTION 2 Å
Organisms	Capra hircus
Macromolecule	ALPHA-LACTALBUMIN (protein)
Unique Ligands	CA

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1HMK \| pdb_00001hmk	Download File View File

RECOMBINANT GOAT ALPHA-LACTALBUMIN

Horii, K., Matsushima, M., Tsumoto, K., Kumagai, I.

(1999) J Mol Biology 285: 1179-1194

Released	1999-11-26
Method	X-RAY DIFFRACTION 2 Å
Organisms	Capra hircus
Macromolecule	PROTEIN (ALPHA-LACTALBUMIN) (protein)
Unique Ligands	CA

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1IC4 \| pdb_00001ic4	Download File View File

CRYSTAL STRUCTURE OF HYHEL-10 FV MUTANT(HD32A)-HEN LYSOZYME COMPLEX

Shiroishi, M., Yokota, A., Tsumoto, K., Kondo, H., Nishimiya, Y., Horii, K., Matsushima, M., Ogasahara, K., Yutani, K., Kumagai, I.

(2001) J Biological Chem 276: 23042-23050

Released	2001-07-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	IGG1 FAB CHAIN H (protein) LYSOZYME BINDING IG KAPPA CHAIN (protein) LYSOZYME C (protein)

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1IC5 \| pdb_00001ic5	Download File View File

CRYSTAL STRUCTURE OF HYHEL-10 FV MUTANT(HD99A)-HEN LYSOZYME COMPLEX

Shiroishi, M., Yokota, A., Tsumoto, K., Kondo, H., Nishimiya, Y., Horii, K., Matsushima, M., Ogasahara, K., Yutani, K., Kumagai, I.

(2001) J Biological Chem 276: 23042-23050

Released	2001-07-18
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	IGG1 FAB CHAIN H (protein) LYSOZYME BINDING IG KAPPA CHAIN (protein) LYSOZYME C (protein)

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1IC7 \| pdb_00001ic7	Download File View File

CRYSTAL STRUCTURE OF HYHEL-10 FV MUTANT(HD32A99A)-HEN LYSOZYME COMPLEX

Shiroishi, M., Yokota, A., Tsumoto, K., Kondo, H., Nishimiya, Y., Horii, K., Matsushima, M., Ogasahara, K., Yutani, K., Kumagai, I.

(2001) J Biological Chem 276: 23042-23050

Released	2001-07-18
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	IGG1 FAB CHAIN H (protein) LYSOZYME BINDING IG KAPPA CHAIN (protein) LYSOZYME C (protein)

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1J05 \| pdb_00001j05	Download File View File

The crystal structure of anti-carcinoembryonic antigen monoclonal antibody T84.66 Fv fragment

Kondo, H., Nishimura, Y., Shiroishi, M., Asano, R., Noro, N., Tsumoto, K., Kumagai, I.

To be published

Released	2003-12-16
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Mus musculus
Macromolecule	anti-CEA mAb T84.66, heavy chain (protein) anti-CEA mAb T84.66, light chain (protein)
Unique Ligands	GOL, PO4

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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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1J1O \| pdb_00001j1o	Download File View File

Crystal Structure of HyHEL-10 Fv mutant LY50F complexed with hen egg white lysozyme

Yokota, A., Tsumoto, K., Shiroishi, M., Kondo, H., Kumagai, I.

(2003) J Biological Chem 278: 5410-5418

Released	2003-01-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	Ig VH,anti-lysozyme (protein) Lysozyme C (protein) lysozyme binding Ig kappa chain V23-J2 region (protein)

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1J1P \| pdb_00001j1p	Download File View File

Crystal structure of HyHEL-10 Fv mutant LS91A complexed with hen egg white lysozyme

Yokota, A., Tsumoto, K., Shiroishi, M., Kondo, H., Kumagai, I.

(2003) J Biological Chem 278: 5410-5418

Released	2003-01-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	Ig VH,anti-lysozyme (protein) Lysozyme C (protein) lysozyme binding Ig kappa chain V23-J2 region (protein)

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1J1X \| pdb_00001j1x	Download File View File

Crystal Structure of HyHEL-10 Fv mutant LS93A complexed with hen egg white lysozyme

Yokota, A., Tsumoto, K., Shiroishi, M., Kondo, H., Kumagai, I.

(2003) J Biological Chem 278: 5410-5418

Released	2003-01-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	Ig VH,anti-lysozyme (protein) Lysozyme C (protein) lysozyme binding Ig kappa chain V23-J2 region (protein)

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1J2V \| pdb_00001j2v	Download File View File

Crystal Structure of CutA1 from Pyrococcus Horikoshii

Tanaka, Y., Sakai, N., Yasutake, Y., Yao, M., Tsumoto, K., Kumagai, I., Tanaka, I.

(2004) FEBS Lett 556: 167-174

Released	2004-01-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	102AA long hypothetical periplasmic divalent cation tolerance protein CUTA (protein)

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1UA6 \| pdb_00001ua6	Download File View File

Crystal structure of HYHEL-10 FV MUTANT SFSF complexed with HEN EGG WHITE LYSOZYME complex

Kumagai, I., Nishimiya, Y., Kondo, H., Tsumoto, K.

(2003) J Biological Chem 278: 24929-24936

Released	2004-03-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Gallus gallus Mus musculus
Macromolecule	Ig VH,anti-lysozyme (protein) Lysozyme C (protein) lysozyme binding Ig kappa chain V23-J2 region (protein)

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1UAC \| pdb_00001uac	Download File View File

Crystal Structure of HYHEL-10 FV MUTANT SFSF Complexed with TURKEY WHITE LYSOZYME

Kumagai, I., Nishimiya, Y., Kondo, H., Tsumoto, K.

(2003) J Biological Chem 278: 24929-24936

Released	2004-03-23
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Meleagris gallopavo Mus musculus
Macromolecule	Ig VH,anti-lysozyme (protein) Lysozyme C (protein) lysozyme binding Ig kappa chain V23-J2 region (protein)

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1UD9 \| pdb_00001ud9	Download File View File

Crystal Structure of Proliferating Cell Nuclear Antigen (PCNA) Homolog From Sulfolobus tokodaii

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

To be published

Released	2004-06-15
Method	X-RAY DIFFRACTION 1.68 Å
Organisms	Sulfurisphaera tokodaii
Macromolecule	DNA polymerase sliding clamp A (protein)
Unique Ligands	ZN

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1UFU \| pdb_00001ufu	Download File View File

Crystal structure of ligand binding domain of immunoglobulin-like transcript 2 (ILT2; LIR-1)

Shiroishi, M., Amano, K., Rasubala, L., Tsumoto, K., Kumagai, I., Kohda, D., Maenaka, K.

To be published

Released	2004-08-10
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Immunoglobulin-like transcript 2 (protein)

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1UKU \| pdb_00001uku	Download File View File

Crystal Structure of Pyrococcus horikoshii CutA1 Complexed with Cu2+

Tanaka, Y., Yasutake, Y., Yao, M., Sakai, N., Tanaka, I., Tsumoto, K., Kumagai, I.

(2004) FEBS Lett 556: 167-174

Released	2004-01-13
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	periplasmic divalent cation tolerance protein CutA (protein)
Unique Ligands	CU

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1UMJ \| pdb_00001umj	Download File View File

Crystal structure of Pyrococcus horikoshii CutA in the presence of 3M guanidine hydrochloride

Tanaka, Y., Tsumoto, K., Yasutake, Y., Sakai, N., Yao, M., Tanaka, I., Kumagai, I.

(2004) Biochem Biophys Res Commun 323: 185-191

Released	2004-10-05
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	periplasmic divalent cation tolerance protein CutA (protein)
Unique Ligands	GAI

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1VBF \| pdb_00001vbf	Download File View File

Crystal structure of protein L-isoaspartate O-methyltransferase homologue from Sulfolobus tokodaii

Tanaka, Y., Tsumoto, K., Yasutake, Y., Umetsu, M., Yao, M., Tanaka, I., Fukada, H., Kumagai, I.

(2004) J Biological Chem 279: 32957-32967

Released	2004-08-10
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Sulfurisphaera tokodaii
Macromolecule	231aa long hypothetical protein-L-isoaspartate O-methyltransferase (protein)

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1VE0 \| pdb_00001ve0	Download File View File

Crystal structure of uncharacterized protein ST2072 from Sulfolobus tokodaii

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

To be published

Released	2005-03-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sulfurisphaera tokodaii
Macromolecule	hypothetical protein (ST2072) (protein)
Unique Ligands	SO4, ZN

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1WOZ \| pdb_00001woz	Download File View File

Crystal structure of uncharacterized protein ST1454 from Sulfolobus tokodaii

Sasaki, T., Tanaka, Y., Yasutake, Y., Yao, M., Tanaka, I., Tsumoto, K., Kumagai, I.

To be published

Released	2005-10-04
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Sulfurisphaera tokodaii str. 7
Macromolecule	177aa long conserved hypothetical protein (ST1454) (protein)
Unique Ligands	POG