9DMA | pdb_00009dma

Crystal structure of cobalt-bound human ADO C18S/C239S variant in complex with hydralazine at 1.89 Angstrom resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 
    0.256 (Depositor), 0.255 (DCC) 
  • R-Value Work: 
    0.213 (Depositor), 0.212 (DCC) 
  • R-Value Observed: 
    0.216 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Hydralazine inhibits cysteamine dioxygenase to treat preeclampsia and senesce glioblastoma.

Shishikura, K.Li, J.Chen, Y.McKnight, N.R.Keeley, T.P.Bustin, K.A.Barr, E.W.Chilkamari, S.R.Ayub, M.Kim, S.W.Lin, Z.Hu, R.M.Hicks, K.Wang, X.O'Rourke, D.M.Martin Bollinger Jr., J.Binder, Z.A.Parsons, W.H.Martemyanov, K.A.Liu, A.Matthews, M.L.

(2025) Sci Adv 11: eadx7687-eadx7687

  • DOI: https://doi.org/10.1126/sciadv.adx7687
  • Primary Citation of Related Structures:  
    9DMA, 9DY4

  • PubMed Abstract: 

    Hydralazine (HYZ), a treatment for preeclampsia and hypertensive crisis, is listed by the World Health Organization as an essential medicine. Its mode of action has remained unknown through its seven decades of clinical use. Here, we identify 2-aminoethanethiol dioxygenase (ADO), a key mediator of targeted protein degradation, as a selective HYZ target. The drug chelates ADO's metallocofactor and can alkylate one of its ligands. The resultant inactivation stabilizes regulators of G protein signaling (RGS4 and RGS5) that ADO normally marks for proteolysis, explaining the drug's vasodilatory activity and comporting with observations of diminished RGS levels in both clinical preeclampsia and a mouse model thereof. Its inhibition of ADO suggested use of HYZ against glioblastoma (GBM); indeed, a single dose robustly senesces cultured GBM cells. By establishing ADO as a nexus for GBM and preeclampsia and connecting it to HYZ, the results create opportunities for directed tailoring of the old drug for new therapies.


  • Organizational Affiliation
    • Department of Chemistry, University of Pennsylvania, Philadelphia, PA, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
2-aminoethanethiol dioxygenase274Homo sapiensMutation(s): 2 
Gene Names: ADO
EC: 1.13.11.19
UniProt & NIH Common Fund Data Resources
Find proteins for Q96SZ5 (Homo sapiens)
Explore Q96SZ5 
Go to UniProtKB:  Q96SZ5
PHAROS:  Q96SZ5
GTEx:  ENSG00000181915 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96SZ5
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HLZ (Subject of Investigation/LOI)
Query on HLZ

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A]
1-hydrazinophthalazine
C8 H8 N4
RPTUSVTUFVMDQK-UHFFFAOYSA-N
SO4
Query on SO4

Download Ideal Coordinates CCD File 
H [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth A],
F [auth A],
G [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CO (Subject of Investigation/LOI)
Query on CO

Download Ideal Coordinates CCD File 
B [auth A]COBALT (II) ION
Co
XLJKHNWPARRRJB-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free:  0.256 (Depositor), 0.255 (DCC) 
  • R-Value Work:  0.213 (Depositor), 0.212 (DCC) 
  • R-Value Observed: 0.216 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.343α = 90
b = 95.052β = 90
c = 117.225γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
HKL-3000data scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data

  • Released Date: 2025-09-10 
  • Deposition Author(s): Liu, A., Li, J.

Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United StatesCHE-2204225

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-10
    Type: Initial release
  • Version 1.1: 2025-10-29
    Changes: Database references