ISDA

Deposition Date 2017-08-03

Release Date 2018-05-16

Last Version Date 2024-10-23

Entry Detail

PDB ID:

5Y4H

Keywords:

HYDROLASE/INHIBITOR

Title:

Human SIRT3 in complex with halistanol sulfate

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.60 Å

R-Value Free:

0.26

R-Value Work:

0.21

R-Value Observed:

0.21

Space Group:

P 4 3 2

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:NAD-dependent protein deacetylase sirtuin-3, mitochondrial
Gene (Uniprot):SIRT3
Chain IDs:A
Chain Length:285
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9NTG7 Pfam ID:PF02146 EC:2.3.1.24

Protein Blast

Polymer Type:polypeptide(L)
Molecule:THr-Arg-Ser-GLY-ALY-VAL-MET-ARG-ARG-LEU-ARG-ARG
Chain IDs:B
Chain Length:12
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9NUB1

Ligand Molecules

8QF

Primary Citation

Halistanol sulfates I and J, new SIRT1-3 inhibitory steroid sulfates from a marine sponge of the genus Halichondria

Nakamura, F, Kudo, N, Tomachi, Y, Nakata, A, Takemoto, M, Ito, A, Tabei, H, Arai, D, de Voogd, N, Yoshida, M, Nakao, Y, Fusetani, N, Nakamura, F, Kudo, N, Tomachi, Y, Nakata, A, Takemoto, M, Ito, A, Tabei, H, Arai, D, de Voogd, N, Yoshida, M, Nakao, Y, Fusetani, N.Show

J. Antibiot. 71 273 278 (2018)

PMID: 29184120 DOI: 10.1038/ja.2017.145

Abstact

Two new analogs of halistanol sulfate (1) were isolated from a marine sponge Halichondria sp. collected at Hachijo-jima Island. Structures of these new halistanol sulfates I (2) and J (3) were elucidated by spectral analyses. Compounds 1-3 showed inhibitory activity against SIRT 1-3 with IC50 ranges of 45.9-67.9, 18.9-21.1 and 21.8-37.5 μM, respectively. X-ray crystallography of the halistanol sulfate (1) and SIRT3 complex clearly indicates that 1 binds to the exosite of SIRT3 that we have discovered in this study.

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Primary Citation of related structures