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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Murata, K."

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Search Summary

This query matches 172 Structures.

Refinements

Structure Determination Methodology

experimental (172)

Scientific Name of Source Organism

	Sphingomonas sp. A1 (34)
	Bacillus sp. GL1 (15)
	Sphingomonas sp. (13)
	Bacillus subtilis (9)
	Homo sapiens (9)
	Chlamydomonas reinhardtii (8)
	Streptobacillus moniliformis DSM 12112 (6)
	Streptococcus agalactiae NEM316 (6)
	Aspergillus nidulans (5)
	Thaumatococcus daniellii (5)

More...

Taxonomy

	Bacteria (113)
	Eukaryota (42)
	Riboviria (7)
	Duplodnaviria (6)
	Varidnaviria (4)
	Archaea (3)

Experimental Method

	X-RAY DIFFRACTION (141)
	ELECTRON MICROSCOPY (27)
	ELECTRON CRYSTALLOGRAPHY (3)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (172)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (12)
	1.5 - 2.0 (57)
	2.0 - 2.5 (43)
	2.5 - 3.0 (25)
	3.0 - 3.5 (17)
	3.5 - 4.0 (8)
	4.0 - 4.5 (3)
	> 4.5 (4)

Release Date

	1990 - 1994 (1)
	1995 - 1999 (8)
	2000 - 2004 (11)
	2005 - 2009 (42)
	2010 - 2014 (41)
	2015 - 2019 (35)
	2020 - 2024 (33)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (25)
	Lyases (28)
	Oxidoreductases (14)
	Transferases (9)
	Isomerases (3)
	Ligases (3)

Membrane Protein Annotation

	PDBTM (13)
	OPM (4)
	mpstruc (5)
	MemProtMD (9)

Symmetry Type

	Asymmetric (118)
	Cyclic (34)
	Dihedral (24)
	Icosahedral (7)
	Octahedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (31)
	Membrane and cell surface proteins and peptides (8)
	All alpha proteins (30)
	All beta proteins (22)
	Artifacts (8)
	Alpha and beta proteins (a+b) (9)
	Multi-domain proteins (alpha and beta) (2)
	Small proteins (1)

AllSelected

1 to 25 of 172 Structures

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1AT9 \| pdb_00001at9	Download File View File

STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM DETERMINED BY ELECTRON CRYSTALLOGRAPHY

Kimura, Y., Vassylyev, D.G., Miyazawa, A., Kidera, A., Matsushima, M., Mitsuoka, K., Murata, K., Hirai, T., Fujiyoshi, Y.

(1997) Nature 389: 206-211

Released	1998-09-16
Method	ELECTRON CRYSTALLOGRAPHY 2.8 Å
Organisms	Halobacterium salinarum
Macromolecule	BACTERIORHODOPSIN (protein)
Unique Ligands	RET

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1FP3 \| pdb_00001fp3	Download File View File

CRYSTAL STRUCTURE OF N-ACYL-D-GLUCOSAMINE 2-EPIMERASE FROM PORCINE KIDNEY

Itoh, T., Mikami, B., Maru, I., Ohta, Y., Hashimoto, W., Murata, K.

(2000) J Mol Biology 303: 733-744

Released	2000-11-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sus scrofa
Macromolecule	N-ACYL-D-GLUCOSAMINE 2-EPIMERASE (protein)

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1FQY \| pdb_00001fqy	Download File View File

STRUCTURE OF AQUAPORIN-1 AT 3.8 A RESOLUTION BY ELECTRON CRYSTALLOGRAPHY

Murata, K., Mitsuoka, K., Hirai, T., Walz, T., Agre, P., Heymann, J.B., Engel, A., Fujiyoshi, Y.

(2000) Nature 407: 599-605

Released	2000-10-18
Method	ELECTRON CRYSTALLOGRAPHY 3.8 Å
Organisms	Homo sapiens
Macromolecule	AQUAPORIN-1 (protein)

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1GLV \| pdb_00001glv	Download File View File

THREE-DIMENSIONAL STRUCTURE OF THE GLUTATHIONE SYNTHETASE FROM ESCHERICHIA COLI B AT 2.0 ANGSTROMS RESOLUTION

Yamaguchi, H., Kato, H., Tanaka, T., Katsube, Y.

(1993) J Mol Biology 229: 1083-1100

Released	1994-01-31
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	GLUTATHIONE SYNTHASE (protein)

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1GSA \| pdb_00001gsa	Download File View File

STRUCTURE OF GLUTATHIONE SYNTHETASE COMPLEXED WITH ADP AND GLUTATHIONE

Hara, T., Kato, H., Nishioka, T., Katsube, Y., Oda, J.

(1996) Biochemistry 35: 11967-11974

Released	1996-06-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli B
Macromolecule	GLUTATHIONE SYNTHETASE (protein)
Unique Ligands	ADP, GSH, MG, SO4

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1HV6 \| pdb_00001hv6	Download File View File

CRYSTAL STRUCTURE OF ALGINATE LYASE A1-III COMPLEXED WITH TRISACCHARIDE PRODUCT.

Yoon, H.-J., Hashimoto, W., Miyake, O., Murata, K., Mikami, B.

(2001) J Mol Biology 307: 9-16

Released	2001-05-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp.
Macromolecule	ALGINATE LYASE (protein)
Unique Ligands	SO4
Unique branched monosaccharides	GCU, MAV, MAW

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1IYM \| pdb_00001iym	Download File View File

RING-H2 finger domain of EL5

Katoh, E., Katoh, S., Minami, E., Yamazaki, T.

(2003) J Biological Chem 278: 15341-15348

Released	2003-07-22
Method	SOLUTION NMR
Organisms	Oryza sativa
Macromolecule	EL5 (protein)
Unique Ligands	ZN

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1J0M \| pdb_00001j0m	Download File View File

Crystal Structure of Bacillus sp. GL1 Xanthan Lyase that Acts on Side Chains of Xanthan

Hashimoto, W., Nankai, H., Mikami, B., Murata, K.

(2003) J Biological Chem 278: 7663-7673

Released	2003-04-01
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Bacillus sp. GL1
Macromolecule	XANTHAN LYASE (protein)
Unique Ligands	CA

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1J0N \| pdb_00001j0n	Download File View File

Crystal Structure of Bacillus sp. GL1 Xanthan Lyase that Acts on Side Chains of Xanthan

Hashimoto, W., Nankai, H., Mikami, B., Murata, K.

(2003) J Biological Chem 278: 7663-7673

Released	2003-04-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Bacillus sp. GL1
Macromolecule	XANTHAN LYASE (protein)
Unique Ligands	CA, CEG

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1J1N \| pdb_00001j1n	Download File View File

Structure Analysis of AlgQ2, A Macromolecule(Alginate)-Binding Periplasmic Protein Of Sphingomonas Sp. A1., Complexed with an Alginate Tetrasaccharide

Momma, K., Mikami, B., Mishima, Y., Hashimoto, W., Murata, K.

(2003) J Biological Chem 278: 6552-6559

Released	2003-06-10
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ2 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, LGU, MAV

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1KWH \| pdb_00001kwh	Download File View File

Structure Analysis AlgQ2, a Macromolecule(alginate)-Binding Periplasmic Protein of Sphingomonas sp. A1.

Momma, K., Mikami, B., Mishima, Y., Hashimoto, W., Murata, K.

(2002) J Mol Biology 316: 1051-1059

Released	2002-02-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp. A1
Macromolecule	Macromolecule-Binding Periplasmic Protein (protein)
Unique Ligands	CA

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1PJB \| pdb_00001pjb	Download File View File

L-ALANINE DEHYDROGENASE

Baker, P.J., Sawa, Y., Shibata, H., Sedelnikova, S.E., Rice, D.W.

(1998) Nat Struct Biol 5: 561-567

Released	1999-06-08
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Phormidium lapideum
Macromolecule	L-ALANINE DEHYDROGENASE (protein)

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1PJC \| pdb_00001pjc	Download File View File

L-ALANINE DEHYDROGENASE COMPLEXED WITH NAD

Baker, P.J., Sawa, Y., Shibata, H., Sedelnikova, S.E., Rice, D.W.

(1998) Nat Struct Biol 5: 561-567

Released	1999-07-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Phormidium lapideum
Macromolecule	PROTEIN (L-ALANINE DEHYDROGENASE) (protein)
Unique Ligands	NAD

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1QAZ \| pdb_00001qaz	Download File View File

CRYSTAL STRUCTURE OF ALGINATE LYASE A1-III FROM SPHINGOMONAS SPECIES A1 AT 1.78A RESOLUTION

Yoon, H.-J.

(1999) J Mol Biology 290: 505-514

Released	1999-07-19
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Sphingomonas sp.
Macromolecule	PROTEIN (ALGINATE LYASE A1-III) (protein)
Unique Ligands	SO4

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1SAY \| pdb_00001say	Download File View File

L-ALANINE DEHYDROGENASE COMPLEXED WITH PYRUVATE

Baker, P.J., Sawa, Y., Shibata, H., Sedelnikova, S.E., Rice, D.W.

(1998) Nat Struct Biol 5: 561-567

Released	1999-06-08
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Phormidium lapideum
Macromolecule	L-ALANINE DEHYDROGENASE (protein)
Unique Ligands	PYR

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1VAV \| pdb_00001vav	Download File View File

Crystal structure of alginate lyase PA1167 from Pseudomonas aeruginosa at 2.0 A resolution

Yamasaki, M., Moriwaki, S., Miyake, O., Hashimoto, W., Murata, K., Mikami, B.

(2004) J Biological Chem 279: 31863-31872

Released	2004-05-25
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pseudomonas aeruginosa PAO1
Macromolecule	Alginate lyase PA1167 (protein)

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1VD5 \| pdb_00001vd5	Download File View File

Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution

Itoh, T., Akao, S., Hashimoto, W., Mikami, B., Murata, K.

(2004) J Biological Chem 279: 31804-31812

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus sp. GL1
Macromolecule	unsaturated glucuronyl hydrolase (protein)
Unique Ligands	DTT, GLY, MPD

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1WOQ \| pdb_00001woq	Download File View File

Crystal Structure of Inorganic Polyphosphate/ATP-Glucomannokinase From Arthrobacter sp. strain KM At 1.8 A Resolution

Mukai, T., Kawai, S., Mori, S., Mikami, B., Murata, K.

(2004) J Biological Chem 279: 50591-50600

Released	2004-09-28
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Arthrobacter sp. KM
Macromolecule	Inorganic polyphosphate/ATP-glucomannokinase (protein)
Unique Ligands	BGC, PO4

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1X1H \| pdb_00001x1h	Download File View File

Crystal Structure of Xanthan Lyase (N194A)

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)

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1X1I \| pdb_00001x1i	Download File View File

Crystal Structure of Xanthan Lyase (N194A) Complexed with a Product

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)
Unique Ligands	46M

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1X1J \| pdb_00001x1j	Download File View File

Crystal Structure of Xanthan Lyase (N194A) with a Substrate.

Maruyama, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) J Mol Biology 350: 974-986

Released	2005-07-19
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bacillus sp. GL1
Macromolecule	xanthan lyase (protein)
Unique Ligands	46D, CA

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1Y3H \| pdb_00001y3h	Download File View File

Crystal Structure of Inorganic Polyphosphate/ATP-NAD kinase from Mycobacterium tuberculosis

Mori, S., Yamasaki, M., Maruyama, Y., Momma, K., kawai, S., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochem Biophys Res Commun 327: 500-508

Released	2005-01-18
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Inorganic polyphosphate/ATP-NAD kinase (protein)

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1Y3I \| pdb_00001y3i	Download File View File

Crystal Structure of Mycobacterium tuberculosis NAD kinase-NAD complex

Mori, S., Yamasaki, M., Maruyama, Y., Momma, K., Kawai, S., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochem Biophys Res Commun 327: 500-508

Released	2005-01-18
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	Inorganic polyphosphate/ATP-NAD kinase (protein)
Unique Ligands	GOL, NAD, SO4

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1Y3N \| pdb_00001y3n	Download File View File

Structure of AlgQ1, alginate-binding protein, complexed with an alginate disaccharide

Momma, K., Mishima, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochemistry 44: 5053-5064

Released	2005-04-12
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ1 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, MAV

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1Y3P \| pdb_00001y3p	Download File View File

Structure of AlgQ1, alginate-binding protein, complexed with an alginate tetrasaccharide

Momma, K., Mishima, Y., Hashimoto, W., Mikami, B., Murata, K.

(2005) Biochemistry 44: 5053-5064

Released	2005-04-12
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sphingomonas sp. A1
Macromolecule	AlgQ1 (protein)
Unique Ligands	CA
Unique branched monosaccharides	BEM, LGU, MAV

1 to 25 of 172 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

1AT9 | pdb_00001at9

1FP3 | pdb_00001fp3

1FQY | pdb_00001fqy

1GLV | pdb_00001glv

1GSA | pdb_00001gsa

1HV6 | pdb_00001hv6

1IYM | pdb_00001iym

1J0M | pdb_00001j0m

1J0N | pdb_00001j0n

1J1N | pdb_00001j1n

1KWH | pdb_00001kwh

1PJB | pdb_00001pjb

1PJC | pdb_00001pjc

1QAZ | pdb_00001qaz

1SAY | pdb_00001say

1VAV | pdb_00001vav

1VD5 | pdb_00001vd5

1WOQ | pdb_00001woq

1X1H | pdb_00001x1h

1X1I | pdb_00001x1i

1X1J | pdb_00001x1j

1Y3H | pdb_00001y3h

1Y3I | pdb_00001y3i

1Y3N | pdb_00001y3n

1Y3P | pdb_00001y3p