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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Endo, S."

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Search Summary

This query matches 17 Structures.

Refinements

Structure Determination Methodology

experimental (17)

Scientific Name of Source Organism

	Corynebacterium glutamicum ATCC 13032 (6)
	Pyrococcus horikoshii OT3 (3)
	Saccharomyces cerevisiae S288C (3)
	Corynebacterium glutamicum (1)
	Escherichia coli (1)
	Helicobacter pylori (1)
	Homo sapiens (1)
	Zygosaccharomyces rouxii CBS 732 (1)

Taxonomy

	Bacteria (9)
	Eukaryota (5)
	Archaea (3)

Experimental Method

X-RAY DIFFRACTION (17)

Polymer Entity Type

	Protein (17)
	DNA (2)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (3)
	2.0 - 2.5 (8)
	2.5 - 3.0 (5)

Release Date

	2000 - 2004 (4)
	2005 - 2009 (8)
	2010 - 2014 (2)
	2015 - 2019 (2)
	2020 - 2024 (1)

Enzyme Classification Name

Hydrolases (1)

Symmetry Type

	Cyclic (11)
	Asymmetric (6)
	Dihedral (2)

SCOP Classification

	All alpha proteins (7)
	Artifacts (2)
	Alpha and beta proteins (a/b) (1)

AllSelected

1 to 17 of 17 Structures

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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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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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1UDD \| pdb_00001udd	Download File View File

TenA homologue protein from P.horikoshii OT3

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

(2004) Acta Crystallogr D Biol Crystallogr 60: 1094-1100

Released	2004-06-01
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	transcriptional regulator (protein)

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1ULY \| pdb_00001uly	Download File View File

Crystal structure analysis of the ArsR homologue DNA-binding protein from P. horikoshii OT3

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

(2008) Proteins 70: 1631-1634

Released	2004-10-19
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	hypothetical protein PH1932 (protein)

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2DI3 \| pdb_00002di3	Download File View File

Crystal structure of the transcriptional factor CGL2915 from Corynebacterium glutamicum

Gao, Y.G., Yao, M., Tanaka, I.

(2008) Nucleic Acids Res 36: 7110-7123

Released	2007-03-28
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Corynebacterium glutamicum
Macromolecule	Bacterial regulatory proteins, GntR family (protein)
Unique Ligands	ZN

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2DU9 \| pdb_00002du9	Download File View File

crystal structure of the transcriptional factor from C.glutamicum

Gao, Y., Yao, M., Tanaka, I.

(2007) Protein Sci 16: 1878-1886

Released	2007-07-24
Method	X-RAY DIFFRACTION 2.28 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Predicted transcriptional regulators (protein)
Unique Ligands	MPD

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2EK5 \| pdb_00002ek5	Download File View File

Crystal structure of the transcriptional factor from C.glutamicum at 2.2 angstrom resolution

Gao, Y.G., Yao, M., Tanaka, I.

(2007) Protein Sci 16: 1878-1886

Released	2007-09-18
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Predicted transcriptional regulators (protein)

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2RD3 \| pdb_00002rd3	Download File View File

Crystal structure of TenA homologue (HP1287) from Helicobacter pylori

Barison, N., Cendron, L., Trento, A., Angelini, A., Zanotti, G.

To be published

Released	2008-09-30
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Helicobacter pylori
Macromolecule	Transcriptional regulator (protein)

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2YVE \| pdb_00002yve	Download File View File

Crystal structure of the methylene blue-bound form of the multi-drug binding transcriptional repressor CgmR

Itou, H., Shirakihara, Y., Tanaka, I.

(2010) J Mol Biology 403: 174-184

Released	2008-04-15
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Transcriptional regulator (protein)
Unique Ligands	CL, GOL, MBT

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2YVH \| pdb_00002yvh	Download File View File

Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR

Itou, H., Shirakihara, Y., Tanaka, I.

(2010) J Mol Biology 403: 174-184

Released	2008-04-15
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Transcriptional regulator (protein) 5'-D(DGPDGPDTPDCPDGPDGPDTPDAPDCPDAPDGPDTPDTPDA)-3' (nucleic acid) 5'-D(DTPDAPDAPDCPDTPDGPDTPDAPDCPDCPDGPDAPDCPDC)-3' (nucleic acid)

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2ZOY \| pdb_00002zoy	Download File View File

The multi-drug binding transcriptional repressor CgmR (CGL2612 protein) from C.glutamicum

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

(2005) J Biological Chem 280: 38711-38719

Released	2008-07-08
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Transcriptional regulator (protein)
Unique Ligands	GOL

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2ZOZ \| pdb_00002zoz	Download File View File

Crystal structure of the ethidium-bound form of the multi-drug binding transcriptional repressor CgmR

Itou, H., Shirakihara, Y., Tanaka, I.

(2010) J Mol Biology 403: 174-184

Released	2008-07-08
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	Transcriptional regulator (protein)
Unique Ligands	ET, GOL, SO4

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3VW4 \| pdb_00003vw4	Download File View File

Crystal structure of the DNA-binding domain of ColE2-P9 Rep in complex with the replication origin

Itou, H., Yagura, M., Itoh, T., Shirakihara, Y.

(2015) J Biological Chem 290: 3601-3611

Released	2013-07-31
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	Rep (protein) DNA (5'-D(PAPAPTPGPAPGPAPCPCPAPGPAPTPAPAPGPCPCPTPTPAPTPC)-3') (nucleic acid) DNA (5'-D(PGPAPTPAPAPGPGPCPTPTPAPTPCPTPGPGPTPCPTPCPAPTPT)-3') (nucleic acid)
Unique Ligands	SO4

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3WI3 \| pdb_00003wi3	Download File View File

Crystal Structure of the Sld3/Treslin domain from yeast Sld3

Itou, H., Araki, H., Shirakihara, Y.

(2014) Structure 22: 1341-1347

Released	2014-08-20
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	DNA replication regulator SLD3 (protein)
Unique Ligands	EDO, SO4

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3X37 \| pdb_00003x37	Download File View File

Crystal structure of the N-terminal domain of Sld7 in complex with Sld3

Itou, H., Araki, H., Shirakihara, Y.

(2015) Acta Crystallogr D Biol Crystallogr 71: 1649-1656

Released	2015-08-19
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Zygosaccharomyces rouxii CBS 732
Macromolecule	Mitochondrial morphogenesis protein SLD7 (protein) ZYRO0C14696p (protein)
Unique Ligands	GOL

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3X38 \| pdb_00003x38	Download File View File

Crystal structure of the C-terminal domain of Sld7

Itou, H., Araki, H., Shirakihara, Y.

(2015) Acta Crystallogr D Biol Crystallogr 71: 1649-1656

Released	2015-08-19
Method	X-RAY DIFFRACTION 1.801 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Mitochondrial morphogenesis protein SLD7 (protein)
Unique Ligands	GOL, SO4

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8J09 \| pdb_00008j09	Download File View File

Crystal structure of the Sld3 Cdc45-binding-domain, in complex with Cdc45

Li, H., Ishizaka, I., Kato, K., Sun, X., Muramatsu, S., Itou, H., Ose, T., Araki, H., Yao, M.

(2024) Elife

Released	2024-05-29
Method	X-RAY DIFFRACTION 2.61 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Cell division control protein 45 (protein) DNA replication regulator SLD3 (protein)

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.

1ION | pdb_00001ion

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

1IRJ | pdb_00001irj

Crystal Structure of the MRP14 complexed with CHAPS

1UDD | pdb_00001udd

TenA homologue protein from P.horikoshii OT3

1ULY | pdb_00001uly

Crystal structure analysis of the ArsR homologue DNA-binding protein from P. horikoshii OT3

2DI3 | pdb_00002di3

Crystal structure of the transcriptional factor CGL2915 from Corynebacterium glutamicum

2DU9 | pdb_00002du9

crystal structure of the transcriptional factor from C.glutamicum

2EK5 | pdb_00002ek5

Crystal structure of the transcriptional factor from C.glutamicum at 2.2 angstrom resolution

2RD3 | pdb_00002rd3

Crystal structure of TenA homologue (HP1287) from Helicobacter pylori

2YVE | pdb_00002yve

Crystal structure of the methylene blue-bound form of the multi-drug binding transcriptional repressor CgmR

2YVH | pdb_00002yvh

Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR

2ZOY | pdb_00002zoy

The multi-drug binding transcriptional repressor CgmR (CGL2612 protein) from C.glutamicum

2ZOZ | pdb_00002zoz

Crystal structure of the ethidium-bound form of the multi-drug binding transcriptional repressor CgmR

3VW4 | pdb_00003vw4

Crystal structure of the DNA-binding domain of ColE2-P9 Rep in complex with the replication origin

3WI3 | pdb_00003wi3

Crystal Structure of the Sld3/Treslin domain from yeast Sld3

3X37 | pdb_00003x37

Crystal structure of the N-terminal domain of Sld7 in complex with Sld3

3X38 | pdb_00003x38

Crystal structure of the C-terminal domain of Sld7

8J09 | pdb_00008j09

Crystal structure of the Sld3 Cdc45-binding-domain, in complex with Cdc45

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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

1ION | pdb_00001ion

1IRJ | pdb_00001irj

1UDD | pdb_00001udd

1ULY | pdb_00001uly

2DI3 | pdb_00002di3

2DU9 | pdb_00002du9

2EK5 | pdb_00002ek5

2RD3 | pdb_00002rd3

2YVE | pdb_00002yve

2YVH | pdb_00002yvh

2ZOY | pdb_00002zoy

2ZOZ | pdb_00002zoz

3VW4 | pdb_00003vw4

3WI3 | pdb_00003wi3

3X37 | pdb_00003x37

3X38 | pdb_00003x38

8J09 | pdb_00008j09