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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Shirakawa, M."

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Search Summary

This query matches 83 Structures.

Refinements

Structure Determination Methodology

experimental (83)

Scientific Name of Source Organism

	Homo sapiens (40)
	Mus musculus (22)
	Bacillus cereus (6)
	Arabidopsis thaliana (3)
	Niallia circulans (2)
	Thermus thermophilus (2)
	Bombyx mori (1)
	Brassica campestris (1)
	Escherichia coli (1)
	Escherichia coli K-12 (1)

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Taxonomy

	Eukaryota (65)
	Bacteria (14)
	Eukaryota (eukaryotes) (3)
	Archaea (1)
	Duplodnaviria (1)

Experimental Method

	SOLUTION NMR (43)
	X-RAY DIFFRACTION (40)

Polymer Entity Type

	Protein (83)
	DNA (8)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (4)
	2.0 - 2.5 (21)
	2.5 - 3.0 (8)
	3.0 - 3.5 (3)
	> 4.5 (1)

Release Date

	1995 - 1999 (7)
	2000 - 2004 (20)
	2005 - 2009 (18)
	2010 - 2014 (23)
	2015 - 2019 (8)
	2020 - 2024 (7)

Enzyme Classification Name

	Hydrolases (23)
	Transferases (19)
	Ligases (7)
	Lyases (2)
	Oxidoreductases (2)
	Isomerases (1)

Membrane Protein Annotation

OPM (4)

Symmetry Type

	Asymmetric (79)
	Cyclic (3)
	Dihedral (1)

SCOP Classification

	All beta proteins (22)
	Alpha and beta proteins (a+b) (26)
	Alpha and beta proteins (a/b) (13)
	All alpha proteins (14)
	Artifacts (11)
	Peptides (2)
	Small proteins (2)

AllSelected

1 to 25 of 83 Structures

Page 1 of 4

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1A2B \| pdb_00001a2b	Download File View File

HUMAN RHOA COMPLEXED WITH GTP ANALOGUE

Ihara, K., Muraguchi, S., Kato, M., Shimizu, T., Shirakawa, M., Kuroda, S., Kaibuchi, K., Hakoshima, T.

(1998) J Biological Chem 273: 9656-9666

Released	1998-06-17
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	TRANSFORMING PROTEIN RHOA (protein)
Unique Ligands	GSP, MG

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1CC0 \| pdb_00001cc0	Download File View File

CRYSTAL STRUCTURE OF THE RHOA.GDP-RHOGDI COMPLEX

Longenecker, K.L., Read, P., Derewenda, U., Dauter, Z., Garrard, S., Walker, L., Somlyo, A.V., Somlyo, A.P., Nakamoto, R.K., Derewenda, Z.S.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1503-1515

Released	2000-01-07
Method	X-RAY DIFFRACTION 5 Å
Organisms	Homo sapiens
Macromolecule	rho GDP dissociation inhibitor alpha (protein) transforming protein rhoA (protein)
Unique Ligands	GDP, MG

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1COO \| pdb_00001coo	Download File View File

THE COOH-TERMINAL DOMAIN OF RNA POLYMERASE ALPHA SUBUNIT

Jeon, Y.H., Negishi, T., Shirakawa, M., Yamazaki, T., Fujita, N., Ishihama, A., Kyogoku, Y.

(1995) Science 270: 1495-1497

Released	1996-03-08
Method	SOLUTION NMR
Organisms	Escherichia coli K-12
Macromolecule	RNA POLYMERASE ALPHA SUBUNIT (protein)

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1COP \| pdb_00001cop	Download File View File

THREE-DIMENSIONAL DIMER STRUCTURE OF THE LAMBDA-CRO REPRESSOR IN SOLUTION AS DETERMINED BY HETERONUCLEAR MULTIDIMENSIONAL NMR

Matsuo, H., Shirakawa, M., Kyogoku, Y.

(1995) J Mol Biology 254: 668-680

Released	1995-10-15
Method	SOLUTION NMR
Organisms	Lambdavirus lambda
Macromolecule	CRO REPRESSOR (protein)

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1D9N \| pdb_00001d9n	Download File View File

SOLUTION STRUCTURE OF THE METHYL-CPG-BINDING DOMAIN OF THE METHYLATION-DEPENDENT TRANSCRIPTIONAL REPRESSOR MBD1/PCM1

Ohki, I., Shimotake, N., Fujita, N., Nakao, M., Shirakawa, M.

(1999) EMBO J 18: 6653-6661

Released	2000-10-28
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	METHYL-CPG-BINDING PROTEIN MBD1 (protein)

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1ED7 \| pdb_00001ed7	Download File View File

SOLUTION STRUCTURE OF THE CHITIN-BINDING DOMAIN OF BACILLUS CIRCULANS WL-12 CHITINASE A1

Ikegami, T., Okada, T., Hashimoto, M., Seino, S., Watanabe, T., Shirakawa, M.

(2000) J Biological Chem 275: 13654-13661

Released	2000-05-24
Method	SOLUTION NMR
Organisms	Niallia circulans
Macromolecule	CHITINASE A1 (protein)

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1FR0 \| pdb_00001fr0	Download File View File

SOLUTION STRUCTURE OF THE HISTIDINE-CONTAINING PHOSPHOTRANSFER DOMAIN OF ANAEROBIC SENSOR KINASE ARCB FROM ESCHERICHIA COLI.

Ikegami, T., Okada, T., Ohki, I., Hirayama, J., Mizuno, T., Shirakawa, M.

(2001) Biochemistry 40: 375-386

Released	2001-03-14
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	ARCB (protein)

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1GEA \| pdb_00001gea	Download File View File

RECEPTOR-BOUND CONFORMATION OF PACAP21

Inooka, H., Ohtaki, T., Kitahara, O., Ikegami, T., Endo, S., Kitada, C., Ogi, K., Onda, H., Fujino, M., Shirakawa, M.

(2001) Nat Struct Biol 8: 161-165

Released	2001-04-20
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	PITUITARY ADENYLATE CYCLASE ACTIVATING POLYPEPTIDE (protein)

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1IG4 \| pdb_00001ig4	Download File View File

Solution Structure of the Methyl-CpG-Binding Domain of Human MBD1 in Complex with Methylated DNA

Ohki, I., Shimotake, N., Fujita, N., Jee, J.-G., Ikegami, T., Nakao, M., Shirakawa, M.

(2001) Cell 105: 487-497

Released	2001-05-30
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Methyl-CpG Binding Protein (protein) 5'-D(GPTPAPTPCP(5CM)PGPGPAPTPAPC)-3' (nucleic acid)

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1IRF \| pdb_00001irf	Download File View File

INTERFERON REGULATORY FACTOR-2 DNA BINDING DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE

Furui, J., Uegaki, K., Yamazaki, T., Shirakawa, M., Swindells, M.B., Harada, H., Taniguchi, T., Kyogoku, Y.

(1998) Structure 6: 491-500

Released	1998-01-28
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	INTERFERON REGULATORY FACTOR-2 (protein)

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1IRG \| pdb_00001irg	Download File View File

INTERFERON REGULATORY FACTOR-2 DNA BINDING DOMAIN, NMR, 20 STRUCTURES

Furui, J., Uegaki, K., Yamazaki, T., Shirakawa, M., Swindells, M.B., Harada, H., Taniguchi, T., Kyogoku, Y.

(1998) Structure 6: 491-500

Released	1998-03-18
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	INTERFERON REGULATORY FACTOR-2 (protein)

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1IRY \| pdb_00001iry	Download File View File

Solution structure of the hMTH1, a nucleotide pool sanitization enzyme

Mishima, M., Itoh, N., Sakai, Y., Kamiya, H., Nakabeppu, Y., Shirakawa, M.

(2004) J Biological Chem 279: 33806-33815

Released	2003-12-23
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	hMTH1 (protein)

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1J0S \| pdb_00001j0s	Download File View File

Solution structure of the human interleukin-18

Kato, Z., Jee, J., Shikano, H., Mishima, M., Ohki, I., Yoneda, T., Hara, T., Torigoe, K., Kondo, N., Shirakawa, M.

(2003) Nat Struct Biol 10: 966-971

Released	2003-11-11
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Interleukin-18 (protein)

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1J0Y \| pdb_00001j0y	Download File View File

Beta-amylase from Bacillus cereus var. mycoides in complex with glucose

Oyama, T., Miyake, H., Kusunoki, M., Nitta, Y.

(2003) J Biochem 133: 467-474

Released	2003-06-17
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus cereus
Macromolecule	Beta-amylase (protein)
Unique Ligands	BGC, CA

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1J0Z \| pdb_00001j0z	Download File View File

Beta-amylase from Bacillus cereus var. mycoides in complex with maltose

Oyama, T., Miyake, H., Kusunoki, M., Nitta, Y.

(2003) J Biochem 133: 467-474

Released	2003-06-17
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Bacillus cereus
Macromolecule	Beta-amylase (protein)
Unique Ligands	CA
Unique branched monosaccharides	BGC, GLC

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1J10 \| pdb_00001j10	Download File View File

beta-amylase from Bacillus cereus var. mycoides in complex with GGX

Oyama, T., Miyake, H., Kusunoki, M., Nitta, Y.

(2003) J Biochem 133: 467-474

Released	2003-06-17
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus cereus
Macromolecule	Beta-amylase (protein)
Unique Ligands	CA
Unique branched monosaccharides	GLC, XYP, XYS

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1J11 \| pdb_00001j11	Download File View File

beta-amylase from Bacillus cereus var. mycoides in complex with alpha-EPG

Oyama, T., Miyake, H., Kusunoki, M., Nitta, Y.

(2003) J Biochem 133: 467-474

Released	2003-06-17
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bacillus cereus
Macromolecule	Beta-amylase (protein)
Unique Ligands	CA, EPG

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1J12 \| pdb_00001j12	Download File View File

Beta-Amylase from Bacillus cereus var. mycoides in Complex with alpha-EBG

Oyama, T., Miyake, H., Kusunoki, M., Nitta, Y.

(2003) J Biochem 133: 467-474

Released	2003-06-17
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus cereus
Macromolecule	Beta-amylase (protein)
Unique Ligands	CA, EBG

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1K85 \| pdb_00001k85	Download File View File

Solution structure of the fibronectin type III domain from Bacillus circulans WL-12 Chitinase A1.

Jee, J.G., Ikegami, T., Hashimoto, M., Kawabata, T., Ikeguchi, M., Watanabe, T., Shirakawa, M.

(2002) J Biological Chem 277: 1388-1397

Released	2002-12-18
Method	SOLUTION NMR
Organisms	Niallia circulans
Macromolecule	CHITINASE A1 (protein)

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1KLV \| pdb_00001klv	Download File View File

Solution Structure and Backbone Dynamics of GABARAP, GABAA Receptor associated protein

Kouno, T., Miura, K., Tada, M., Kanematsu, T., Tate, S., Shirakawa, M., Hirata, M., Kawano, K.

(2002) J Biomol NMR 22: 97-98

Released	2003-10-07
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	GABA(A) Receptor associated protein (protein)

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1KM7 \| pdb_00001km7	Download File View File

Solution Structure and Backbone Dynamics of GABARAP, GABAA Receptor Associated Protein

Kouno, T., Miura, K., Tada, M., Kanematsu, T., Tate, S., Shirakawa, M., Hirata, M., Kawano, K.

(2002) J Biomol NMR 22: 97-98

Released	2003-10-07
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	GABA(A) Receptor Associated Protein (protein)

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1OCP \| pdb_00001ocp	Download File View File

SOLUTION STRUCTURE OF OCT3 POU-HOMEODOMAIN

Morita, E.H., Hayashi, F., Shirakawa, M., Kyogoku, Y.

(1995) Protein Sci 4: 729-739

Released	1995-09-15
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	OCT-3 (protein)

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1UEL \| pdb_00001uel	Download File View File

Solution structure of ubiquitin-like domain of hHR23B complexed with ubiquitin-interacting motif of proteasome subunit S5a

Fujiwara, K., Tenno, T., Jee, J.G., Sugasawa, K., Ohki, I., Kojima, C., Tochio, H., Hiroaki, H., Hanaoka, H., Shirakawa, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) J Biological Chem 279: 4760-4767

Released	2004-02-10
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	26S proteasome non-ATPase regulatory subunit 4 (protein) UV excision repair protein RAD23 homolog B (protein)