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232,829 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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Search Summary

This query matches 11 Structures.

Refinements

Structure Determination Methodology

experimental (11)

Scientific Name of Source Organism

	Homo sapiens (9)
	synthetic construct (4)
	unidentified (2)
	Escherichia coli (1)
	Saccharomyces cerevisiae (1)

Taxonomy

	Eukaryota (10)
	other sequences (4)
	unclassified sequences (2)
	Bacteria (1)

Experimental Method

X-RAY DIFFRACTION (11)

Polymer Entity Type

Protein (11)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (4)
	2.0 - 2.5 (4)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (2)
	2010 - 2014 (1)
	2015 - 2019 (5)
	2020 - 2024 (2)

Enzyme Classification Name

	Hydrolases (8)
	Transferases (2)
	Isomerases (2)

Symmetry Type

Asymmetric (11)

SCOP Classification

	Alpha and beta proteins (a/b) (2)
	All beta proteins (2)

AllSelected

1 to 11 of 11 Structures

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1VAI	Download File View File

Structure of e. coli cyclophilin B K163T mutant bound to n-acetyl-ala-ala-pro-ala-7-amino-4-methylcoumarin

Konno, M., Sano, Y., Okudaira, K., Kawaguchi, Y., Yamagishi-Ohmori, Y., Fushinobu, S., Matsuzawa, H.

(2004) Eur J Biochem 271: 3794-3803

Released	2004-09-21
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	(ACE)AAPA(MCM) (protein) cyclophilin B (protein)

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1VDN	Download File View File

Crystal Structure Of Yeast Cyclophilin A Complexed With ACE-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin

Konno, M., Shibano, T., Okudaira, K., Takahashi, N.

To be published

Released	2005-06-28
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	(ACE)AAPA(MCM) (protein) Cyclophilin A (protein)

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2V5W	Download File View File

Crystal structure of HDAC8-substrate complex

Di Marco, S., Vannini, A., Volpari, C.

(2007) EMBO Rep 8: 879

Released	2007-09-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	GLYCYL-GLYCYL-GLYCINE (protein) HISTONE DEACETYLASE 8 (protein) PEPTIDIC SUBSTRATE (protein)
Unique Ligands	K, ZN

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4FZ3	Download File View File

Crystal structure of SIRT3 in complex with acetyl p53 peptide coupled with 4-amino-7-methylcoumarin

Liu, D., Wu, J., Zhang, D., Chen, K., Jiang, H., Liu, H.

(2013) J Med Chem 56: 761-780

Released	2013-03-20
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	NAD-dependent protein deacetylase sirtuin-3, mitochondrial (protein) peptide from Cellular tumor antigen p53 (protein)
Unique Ligands	ZN

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5D1C	Download File View File

Crystal structure of D233G-Y306F HDAC8 in complex with a tetrapeptide substrate

Decroos, C., Christianson, N.H., Gullett, L.E., Bowman, C.M., Christianson, K.E., Deardorff, M.A., Christianson, D.W.

(2015) Biochemistry 54: 6501-6513

Released	2015-10-21
Method	X-RAY DIFFRACTION 1.422 Å
Organisms	Homo sapiens unidentified
Macromolecule	HDAC8 Fluor de Lys tetrapeptide substrate (protein) Histone deacetylase 8 (protein)
Unique Ligands	GOL, K, ZN

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5D1D	Download File View File

Crystal structure of P91L-Y306F HDAC8 in complex with a tetrapeptide substrate

Decroos, C., Christianson, N.H., Gullett, L.E., Bowman, C.M., Christianson, K.E., Deardorff, M.A., Christianson, D.W.

(2015) Biochemistry 54: 6501-6513

Released	2015-10-21
Method	X-RAY DIFFRACTION 2.011 Å
Organisms	Homo sapiens unidentified
Macromolecule	HDAC8 Fluor de Lys tetrapeptide substrate (protein) Histone deacetylase 8 (protein)
Unique Ligands	K, ZN

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5DC6	Download File View File

Crystal structure of D176N-Y306F HDAC8 in complex with a tetrapeptide substrate

Decroos, C., Lee, M.S., Christianson, D.W.

(2016) Biochemistry 55: 820-832

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.553 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fluor-de-Lys tetrapeptide assay substrate (protein) Histone deacetylase 8 (protein)
Unique Ligands	GOL, K, ZN

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5DC7	Download File View File

Crystal structure of D176A-Y306F HDAC8 in complex with a tetrapeptide substrate

Decroos, C., Lee, M.S., Christianson, D.W.

(2016) Biochemistry 55: 820-832

Released	2016-02-03
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fluor-de-Lys tetrapeptide assay substrate (protein) Histone deacetylase 8 (protein)
Unique Ligands	GOL, K, ZN

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5DC8	Download File View File

Crystal structure of H142A-Y306F HDAC8 in complex with a tetrapeptide substrate

Decroos, C., Lee, M.S., Christianson, D.W.

(2016) Biochemistry 55: 820-832

Released	2016-02-03
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Fluor-de-Lys tetrapeptide assay substrate (protein) Histone deacetylase 8 (protein)
Unique Ligands	GOL, K, ZN

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7JVV	Download File View File

Crystal structure of human histone deacetylase 8 (HDAC8) E66D/Y306F double mutation complexed with a tetrapeptide substrate

Osko, J.D., Christianson, D.W., Decroos, C., Porter, N.J., Lee, M.

(2020) J Struct Biol 213: 107681-107681

Released	2020-12-16
Method	X-RAY DIFFRACTION 1.84 Å
Organisms	Homo sapiens
Macromolecule	ACE-ARG-HIS-ALY-ALY-MCM (protein) Histone deacetylase 8 (protein)
Unique Ligands	EDO, GOL, K, ZN

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8V5U	Download File View File

Human SIRT3 bound to p53-AMC peptide and Honokiol

Chakrabarti, R., Ghosh, A., Guan, X., Upadhyay, A., Dumpati, R.K., Munshi, S., Roy, S., Chall, S., Rahnamoun, A., Reverdy, C., Errasti, G., Delacroix, T.

(2024) Phys Rev X 14:

Released	2024-11-06
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Homo sapiens
Macromolecule	NAD-dependent protein deacetylase sirtuin-3, mitochondrial (protein) p53-AMC peptide (protein)
Unique Ligands	Y4T, ZN

1 to 11 of 11 Structures

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