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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Moriwaki, Y."

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Search Summary

This query matches 17 Structures.

Refinements

Structure Determination Methodology

experimental (17)

Scientific Name of Source Organism

	Staphylococcus aureus subsp. aureus Mu50 (4)
	Allium cepa (3)
	Saccharomyces cerevisiae (2)
	Brassica rapa (1)
	Homo sapiens (1)
	Pseudomonas aeruginosa (1)
	Streptomyces caelestis (1)
	Streptomyces lincolnensis (1)
	Streptomyces sp. KO-3988 (1)
	Streptomyces sp. RI-18-2 (1)

More...

Taxonomy

	Bacteria (10)
	Eukaryota (7)

Experimental Method

	X-RAY DIFFRACTION (14)
	SOLUTION NMR (3)

Polymer Entity Type

Protein (17)

Refinement Resolution (Å)

	1.5 - 2.0 (7)
	2.0 - 2.5 (3)
	2.5 - 3.0 (4)

Release Date

	2005 - 2009 (2)
	2010 - 2014 (4)
	2015 - 2019 (5)
	2020 - 2024 (6)

Enzyme Classification Name

	Isomerases (3)
	Transferases (4)
	Oxidoreductases (1)

Symmetry Type

	Asymmetric (10)
	Cyclic (6)
	Dihedral (2)

SCOP Classification

All beta proteins (4)

AllSelected

1 to 17 of 17 Structures

Page 1 of 1

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2RNZ \| pdb_00002rnz	Download File View File

Solution structure of the presumed chromodomain of the yeast histone acetyltransferase, Esa1

Shimojo, H., Sano, N., Moriwaki, Y., Okuda, M., Horikoshi, M., Nishimura, Y.

(2008) J Mol Biology 378: 987-1001

Released	2008-04-29
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	Histone acetyltransferase ESA1 (protein)

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2RO0 \| pdb_00002ro0	Download File View File

Solution structure of the knotted tudor domain of the yeast histone acetyltransferase, Esa1

Shimojo, H., Sano, N., Moriwaki, Y., Okuda, M., Horikoshi, M., Nishimura, Y.

(2008) J Mol Biology 378: 987-1001

Released	2008-04-29
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	Histone acetyltransferase ESA1 (protein)

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2RVQ \| pdb_00002rvq	Download File View File

Solution structure of the isolated histone H2A-H2B heterodimer

Moriwaki, Y., Yamane, T., Ohtomo, H., Ikeguchi, M., Kurita, J., Sato, M., Nagadoi, A., Shimojo, H., Nishimura, Y.

(2016) Sci Rep 6: 24999-24999

Released	2016-05-25
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein)

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3QUG \| pdb_00003qug	Download File View File

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Gallium-porphyrin

Moriwaki, Y., Caaveiro, J.M.M., Tsumoto, K.

(2011) Biochemistry 50: 7311-7320

Released	2011-03-30
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Staphylococcus aureus subsp. aureus Mu50
Macromolecule	Iron-regulated surface determinant protein H (protein)
Unique Ligands	GIX, GOL, SO4

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3QUH \| pdb_00003quh	Download File View File

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Manganese(III)-porphyrin

Moriwaki, Y., Caaveiro, J.M.M., Tsumoto, K.

(2011) Biochemistry 50: 7311-7320

Released	2011-03-30
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Staphylococcus aureus subsp. aureus Mu50
Macromolecule	Iron-regulated surface determinant protein H (protein)
Unique Ligands	GOL, MNR

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3VTM \| pdb_00003vtm	Download File View File

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Indium-porphyrin

Vu, N.T., Caaveiro, J.M.M., Moriwaki, Y., Tsumoto, K.

(2013) Protein Sci 22: 942-953

Released	2013-05-15
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Staphylococcus aureus subsp. aureus Mu50
Macromolecule	Iron-regulated surface determinant protein H (protein)
Unique Ligands	3ZZ, GOL

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3VUA \| pdb_00003vua	Download File View File

Apo IsdH-NEAT3 in space group P3121 at a resolution of 1.85 A

Vu, N.T., Caaveiro, J.M.M., Moriwaki, Y., Tsumoto, K.

To be published

Released	2013-06-26
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Staphylococcus aureus subsp. aureus Mu50
Macromolecule	Iron-regulated surface determinant protein H (protein)
Unique Ligands	ACT, GOL, SO4

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5GTE \| pdb_00005gte	Download File View File

Crystal structure of onion lachrymatory factor synthase (LFS), solute-free form

Takabe, J., Arakawa, T., Masamura, N., Tsuge, N., Imai, S., Fushinobu, S.

(2020) ACS Catal 10: 9-19

Released	2017-08-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Allium cepa
Macromolecule	Lachrymatory-factor synthase (protein)
Unique Ligands	SO4
Unique branched monosaccharides	GLC

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5GTF \| pdb_00005gtf	Download File View File

Crystal structure of onion lachrymatory factor synthase (LFS) containing glycerol

Takabe, J., Arakawa, T., Masamura, N., Tsuge, N., Imai, S., Fushinobu, S.

(2020) ACS Catal 10: 9-19

Released	2017-08-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Allium cepa
Macromolecule	Lachrymatory-factor synthase (protein)
Unique Ligands	GOL, MES, SO4

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5GTG \| pdb_00005gtg	Download File View File

Crystal structure of onion lachrymatory factor synthase (LFS) containing 1,2-propanediol

Arakawa, T., Sato, Y., Takabe, J., Masamura, N., Tsuge, N., Imai, S., Fushinobu, S.

(2020) ACS Catal 10: 9-19

Released	2017-08-23
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Allium cepa
Macromolecule	Lachrymatory-factor synthase (protein)
Unique Ligands	MES, PGO, SO4
Unique branched monosaccharides	GLC

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6JU1 \| pdb_00006ju1	Download File View File

p-Hydroxybenzoate hydroxylase Y385F mutant complexed with 3,4-dihydroxybenzoate

Yato, M., Arakawa, T., Yamada, C., Fushinobu, S.

(2019) Biochemistry 58: 4543-4558

Released	2019-11-06
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Pseudomonas aeruginosa
Macromolecule	4-hydroxybenzoate 3-monooxygenase (protein)
Unique Ligands	BR, DHB, FAD, GOL, P33, PG4

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6KYW \| pdb_00006kyw	Download File View File

S8-mSRK-S8-SP11 complex

Murase, K., Hakoshima, T., Mori, T.

(2020) Nat Commun 11: 4916-4916

Released	2020-09-16
Method	X-RAY DIFFRACTION 2.60112735603 Å
Organisms	Brassica rapa
Macromolecule	Receptor protein kinase SRK8 (protein) S locus protein 11 (protein)
Unique Ligands	NAG

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7FBH \| pdb_00007fbh	Download File View File

geranyl pyrophosphate C6-methyltransferase BezA

Tsutsumi, H., Moriwaki, Y., Terada, T., Shimizu, K., Katsuyama, Y., Ohnishi, Y.

(2022) Angew Chem Int Ed Engl 61: e202111217-e202111217

Released	2021-12-01
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Streptomyces sp. RI18
Macromolecule	BezA (protein)
Unique Ligands	EDO, EPE, GOL, LYS

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7FBO \| pdb_00007fbo	Download File View File

geranyl pyrophosphate C6-methyltransferase BezA binding with S-adenosylhomocysteine

Tsutsumi, H., Moriwaki, Y., Terada, T., Shimizu, K., Katsuyama, Y., Ohnishi, Y.

(2022) Angew Chem Int Ed Engl 61: e202111217-e202111217

Released	2021-12-01
Method	X-RAY DIFFRACTION 2.56 Å
Organisms	Streptomyces sp. RI-18-2
Macromolecule	BezA (protein)
Unique Ligands	EPE, SAH

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8HAR \| pdb_00008har	Download File View File

SAH-bound C-Methyltransferase Fur6 from Streptomyces sp. KO-3988

Noguchi, T., Nagata, R., Tomita, T., Kuzuyama, T.

To be published

Released	2023-11-01
Method	X-RAY DIFFRACTION 2.12 Å
Organisms	Streptomyces sp. KO-3988
Macromolecule	Fur6 (protein)
Unique Ligands	SAH, TRS

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8KDK \| pdb_00008kdk	Download File View File

Crystal structure of CcbF in complex with PLP

Mori, T., Lyu, S., Kadlcik, S., Abe, I.

(2025) Nat Chem 17: 256-264

Released	2024-08-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Streptomyces caelestis
Macromolecule	CcbF (protein)

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8KDL \| pdb_00008kdl	Download File View File

Crystal structure of LmbF in complex with PLP

Mori, T., Lyu, S., Kadlcik, S., Abe, I.

(2025) Nat Chem 17: 256-264

Released	2024-08-14
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Streptomyces lincolnensis
Macromolecule	Aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme (protein)
Unique Ligands	GOL

1 to 17 of 17 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

2RNZ | pdb_00002rnz

Solution structure of the presumed chromodomain of the yeast histone acetyltransferase, Esa1

2RO0 | pdb_00002ro0

Solution structure of the knotted tudor domain of the yeast histone acetyltransferase, Esa1

2RVQ | pdb_00002rvq

Solution structure of the isolated histone H2A-H2B heterodimer

3QUG | pdb_00003qug

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Gallium-porphyrin

3QUH | pdb_00003quh

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Manganese(III)-porphyrin

3VTM | pdb_00003vtm

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Indium-porphyrin

3VUA | pdb_00003vua

Apo IsdH-NEAT3 in space group P3121 at a resolution of 1.85 A

5GTE | pdb_00005gte

Crystal structure of onion lachrymatory factor synthase (LFS), solute-free form

5GTF | pdb_00005gtf

Crystal structure of onion lachrymatory factor synthase (LFS) containing glycerol

5GTG | pdb_00005gtg

Crystal structure of onion lachrymatory factor synthase (LFS) containing 1,2-propanediol

6JU1 | pdb_00006ju1

p-Hydroxybenzoate hydroxylase Y385F mutant complexed with 3,4-dihydroxybenzoate

6KYW | pdb_00006kyw

S8-mSRK-S8-SP11 complex

7FBH | pdb_00007fbh

geranyl pyrophosphate C6-methyltransferase BezA

7FBO | pdb_00007fbo

geranyl pyrophosphate C6-methyltransferase BezA binding with S-adenosylhomocysteine

8HAR | pdb_00008har

SAH-bound C-Methyltransferase Fur6 from Streptomyces sp. KO-3988

8KDK | pdb_00008kdk

Crystal structure of CcbF in complex with PLP

8KDL | pdb_00008kdl

Crystal structure of LmbF in complex with PLP

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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

Symmetry Type

SCOP Classification

2RNZ | pdb_00002rnz

2RO0 | pdb_00002ro0

2RVQ | pdb_00002rvq

3QUG | pdb_00003qug

3QUH | pdb_00003quh

3VTM | pdb_00003vtm

3VUA | pdb_00003vua

5GTE | pdb_00005gte

5GTF | pdb_00005gtf

5GTG | pdb_00005gtg

6JU1 | pdb_00006ju1

6KYW | pdb_00006kyw

7FBH | pdb_00007fbh

7FBO | pdb_00007fbo

8HAR | pdb_00008har

8KDK | pdb_00008kdk

8KDL | pdb_00008kdl