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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Kawachi, E."

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Search Summary

This query matches 11 Structures.

Refinements

Structure Determination Methodology

experimental (11)

Scientific Name of Source Organism

	Rattus norvegicus (7)
	Homo sapiens (6)
	Sus scrofa (4)
	Xenopus tropicalis (1)

Taxonomy

Eukaryota (11)

Experimental Method

X-RAY DIFFRACTION (11)

Polymer Entity Type

Protein (11)

Refinement Resolution (Å)

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

Release Date

	2010 - 2014 (9)
	2015 - 2019 (2)

Enzyme Classification Name

Hydrolases (4)

Symmetry Type

Asymmetric (11)

SCOP Classification

	Alpha and beta proteins (a/b) (4)
	All alpha proteins (1)

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1 to 11 of 11 Structures

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Explore in 3D

3AFR	Download File View File

Crystal Structure of VDR-LBD/22S-Butyl-1a,24R-dihydroxyvitamin D3 complex

Inaba, Y., Nakabayashi, M., Itoh, T., Ikura, T., Ito, N., Yamamoto, K.

(2010) J Steroid Biochem Mol Biol 121: 146-150

Released	2010-03-31
Method	X-RAY DIFFRACTION 2 Å
Organisms	Rattus norvegicus Xenopus tropicalis
Macromolecule	13-meric peptide from Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	ICJ

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3VRT	Download File View File

VDR ligand binding domain in complex with 2-Mehylidene-19,25,26,27-tetranor-1alpha,24-dihydroxyvitaminD3

Nakabayashi, M., Yoshimoto, N., Inaba, Y., Itoh, T., Ito, N., Yamamoto, K.

(2012) J Med Chem 55: 4373-4381

Released	2012-05-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	13-meric peptide from Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	YS2

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3VRU	Download File View File

VDR ligand binding domain in complex with 2-Methylidene-19,24-dinor-1alpha,25-dihydroxy vitaminD3

Yoshimoto, N., Inaba, Y., Itoh, T., Nakabayashi, M., Ito, N., Yamamoto, K.

(2012) J Med Chem 55: 4373-4381

Released	2012-05-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	13-meric peptide from Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	YS3

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3VRV	Download File View File

VDR ligand binding domain in complex with 2-Methylidene-26,27-dimethyl-19,24-dinor-1alpha,25-dihydroxyvitamin D3

Yoshimoto, N., Inaba, Y., Itoh, T., Nakabayashi, M., Ito, N., Yamamoto, K.

(2012) J Med Chem 55: 4373-4381

Released	2012-05-23
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	13-meric peptide from Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	YSD

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3VRW	Download File View File

VDR ligand binding domain in complex with 22S-Butyl-2-methylidene-26,27-dimethyl-19,24-dinor-1alpha,25-dihydroxyvitamin D3

Yoshimoto, N., Inaba, Y., Itoh, T., Nakabayashi, M., Ito, N., Yamamoto, K.

(2012) J Med Chem 55: 4373-4381

Released	2012-05-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	13-meric peptide from Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	YS5

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3WAB	Download File View File

Carboxypeptidase B in complex with DD2

Yoshimoto, N., Itoh, T., Inaba, Y., Yamamoto, K.

(2013) J Med Chem 56: 7527-7535

Released	2013-10-02
Method	X-RAY DIFFRACTION 2.154 Å
Organisms	Sus scrofa
Macromolecule	Carboxypeptidase B (protein)
Unique Ligands	CAC, DDW, ZN

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3WC5	Download File View File

Carboxypeptidase B in complex with DD9

Yoshimoto, N., Itoh, T., Inaba, Y., Yamamoto, K.

(2013) J Med Chem 56: 7527-7535

Released	2013-10-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Sus scrofa
Macromolecule	Carboxypeptidase B (protein)
Unique Ligands	CAC, DDK, ZN

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3WC6	Download File View File

Carboxypeptidase B in complex with 2nd zinc

Yoshimoto, N., Itoh, T., Inaba, Y., Yamamoto, K.

(2013) J Med Chem 56: 7527-7535

Released	2013-10-02
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Sus scrofa
Macromolecule	Carboxypeptidase B (protein)
Unique Ligands	ACT, ZN

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3WC7	Download File View File

Carboxypeptidase B in complex with EF6265

Yoshimoto, N., Itoh, T., Inaba, Y., Yamamoto, K.

(2013) J Med Chem 56: 7527-7535

Released	2013-10-02
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Sus scrofa
Macromolecule	Carboxypeptidase B (protein)
Unique Ligands	EF1, ZN

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3WTQ	Download File View File

Crystal structure of VDR-LBD complexed with 22S-butyl-2-methylidene-19-nor-1a,25-dihydroxyvitamin D3

Nakabayashi, M., Inaba, Y., Itoh, T., Anami, Y., Ikura, T., Ito, N., Yamamoto, K.

To be published

Released	2015-04-15
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor (protein)
Unique Ligands	YS9

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5AWJ	Download File View File

Crystal structure of VDR-LBD/partial agonist complex: 22S-hexyl analogue

Anami, Y., Itoh, T., Inaba, Y., Nakabayashi, M., Ikura, T., Ito, N., Yamamoto, K.

(2015) Bioorg Med Chem 23: 7274-7281

Released	2015-11-18
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens Rattus norvegicus
Macromolecule	Mediator of RNA polymerase II transcription subunit 1 (protein) Vitamin D3 receptor,Vitamin D3 receptor (protein)
Unique Ligands	YSL

1 to 11 of 11 Structures

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