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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "De Groot, A."

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Search Summary

This query matches 9 Structures.

Refinements

Structure Determination Methodology

experimental (9)

Scientific Name of Source Organism

	Deinococcus deserti (6)
	Biomphalaria glabrata (1)
	Deinococcus deserti VCD115 (1)
	Homo sapiens (1)
	Polyandrocarpa misakiensis (1)

Taxonomy

	Bacteria (7)
	Eukaryota (2)
	Eukaryota (eukaryotes) (1)

Experimental Method

X-RAY DIFFRACTION (9)

Polymer Entity Type

Protein (9)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	2.5 - 3.0 (4)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)

Release Date

	2005 - 2009 (5)
	2015 - 2019 (4)

Enzyme Classification Name

	Hydrolases (3)
	Transferases (1)

Symmetry Type

	Cyclic (6)
	Asymmetric (4)

SCOP Classification

All alpha proteins (2)

AllSelected

1 to 9 of 9 Structures

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1XIU \| pdb_00001xiu	Download File View File

Crystal structure of the agonist-bound ligand-binding domain of Biomphalaria glabrata RXR

De Groot, A., De Rosny, E., Juillan-Binard, C., Ferrer, J.-L., Laudet, V., Pebay-Peroula, E., Fontecilla-Camps, J.-C., Borel, F.

(2005) J Mol Biology 354: 841-853

Released	2005-09-13
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Biomphalaria glabrata Homo sapiens
Macromolecule	Nuclear receptor coactivator 1 (protein) RXR-like protein (protein)
Unique Ligands	9CR

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2Q60 \| pdb_00002q60	Download File View File

Crystal structure of the ligand binding domain of polyandrocarpa misakiensis rxr in tetramer in absence of ligand

Borel, F., De Groot, A., Juillan-Binard, C., De Rosny, E., Laudet, V., Pebay-Peyroula, E., Fontecilla-Camps, J.-C., Ferrer, J.-L.

(2008) Proteins 74: 538-542

Released	2008-05-27
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Polyandrocarpa misakiensis
Macromolecule	Retinoid X receptor (protein)

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3DTE \| pdb_00003dte	Download File View File

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

Vujicic-Zagar, A., Dulermo, R., Le Gorrec, M., Vannier, F., Servant, P., Sommer, S., De Groot, A., Serre, L.

(2009) J Mol Biology 386: 704-716

Released	2009-02-10
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Deinococcus deserti
Macromolecule	IrrE protein (protein)

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3DTI \| pdb_00003dti	Download File View File

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

Vujicic-Zagar, A., Dulermo, R., Le Gorrec, M., Vannier, F., Servant, P., Sommer, S., De Groot, A., Serre, L.

(2009) J Mol Biology 386: 704-716

Released	2009-02-10
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Deinococcus deserti
Macromolecule	IRRE protein (protein)
Unique Ligands	ZN

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3DTK \| pdb_00003dtk	Download File View File

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

Vujicic-Zagar, A., Dulermo, R., Le Gorrec, M., Vannier, F., Servant, P., Sommer, S., de Groot, A., Serre, L.

(2009) J Mol Biology 386: 704-716

Released	2009-02-17
Method	X-RAY DIFFRACTION 3.24 Å
Organisms	Deinococcus deserti
Macromolecule	IRRE PROTEIN (protein)
Unique Ligands	CL, ZN

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6RMQ \| pdb_00006rmq	Download File View File

Crystal structure of a selenomethionine-substituted A70M I84M mutant of the essential repressor DdrO from radiation resistant-Deinococcus bacteria (Deinococcus deserti)

Arnoux, P., Siponen, M.I., Pignol, D., De Groot, A., Blanchard, L.

(2019) Nucleic Acids Res 47: 11403-11417

Released	2019-10-09
Method	X-RAY DIFFRACTION 3 Å
Organisms	Deinococcus deserti
Macromolecule	HTH-type transcriptional regulator DdrOC (protein)

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6RNX \| pdb_00006rnx	Download File View File

Crystal structure of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

Arnoux, P., Siponen, M.I., Pignol, D., De Groot, A., Blanchard, L.

(2019) Nucleic Acids Res 47: 11403-11417

Released	2019-10-09
Method	X-RAY DIFFRACTION 2.84 Å
Organisms	Deinococcus deserti VCD115
Macromolecule	HTH-type transcriptional regulator DdrOC (protein)
Unique Ligands	CL

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6RNZ \| pdb_00006rnz	Download File View File

Crystal structure of the N-terminal HTH DNA-binding domain of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

Arnoux, P., Siponen, M.I., Pignol, D., Brandelet, G., De Groot, A., Blanchard, L.

(2019) Nucleic Acids Res 47: 11403-11417

Released	2019-10-09
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Deinococcus deserti
Macromolecule	HTH-type transcriptional regulator DdrOC (protein)
Unique Ligands	GOL

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6RO6 \| pdb_00006ro6	Download File View File

Crystal structure of the C-terminal dimerization domain of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

Pignol, D., Arnoux, P., Siponen, M.I., Brandelet, G., De Groot, A., Blanchard, L.

(2019) Nucleic Acids Res 47: 11403-11417

Released	2019-10-09
Method	X-RAY DIFFRACTION 1.41 Å
Organisms	Deinococcus deserti
Macromolecule	HTH-type transcriptional regulator DdrOC (protein)
Unique Ligands	SO4

1 to 9 of 9 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.

1XIU | pdb_00001xiu

Crystal structure of the agonist-bound ligand-binding domain of Biomphalaria glabrata RXR

2Q60 | pdb_00002q60

Crystal structure of the ligand binding domain of polyandrocarpa misakiensis rxr in tetramer in absence of ligand

3DTE | pdb_00003dte

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

3DTI | pdb_00003dti

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

3DTK | pdb_00003dtk

Crystal structure of the IRRE protein, a central regulator of DNA damage repair in deinococcaceae

6RMQ | pdb_00006rmq

Crystal structure of a selenomethionine-substituted A70M I84M mutant of the essential repressor DdrO from radiation resistant-Deinococcus bacteria (Deinococcus deserti)

6RNX | pdb_00006rnx

Crystal structure of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

6RNZ | pdb_00006rnz

Crystal structure of the N-terminal HTH DNA-binding domain of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

6RO6 | pdb_00006ro6

Crystal structure of the C-terminal dimerization domain of the essential repressor DdrO from radiation-resistant Deinococcus bacteria (Deinococcus deserti)

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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

1XIU | pdb_00001xiu

2Q60 | pdb_00002q60

3DTE | pdb_00003dte

3DTI | pdb_00003dti

3DTK | pdb_00003dtk

6RMQ | pdb_00006rmq

6RNX | pdb_00006rnx

6RNZ | pdb_00006rnz

6RO6 | pdb_00006ro6