7PWM

PARP15 catalytic domain in complex with OUL252


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.169 
  • R-Value Work: 0.137 
  • R-Value Observed: 0.139 

wwPDB Validation 

Currently 7PWM does not have a validation slider image.


This is version 1.0 of the entry. See complete history


Literature

Potent 2,3-dihydrophthalazine-1,4-dione derivatives as dual inhibitors for mono-ADP-ribosyltransferases PARP10 and PARP15.

Nizi, M.G.Maksimainen, M.M.Murthy, S.Massari, S.Alaviuhkola, J.Lippok, B.E.Sowa, S.T.Galera-Prat, A.Prunskaite-Hyyrylainen, R.Luscher, B.Korn, P.Lehtio, L.Tabarrini, O.

(2022) Eur J Med Chem 237: 114362-114362

  • DOI: 10.1016/j.ejmech.2022.114362
  • Primary Citation of Related Structures:  
    7PW3, 7PWA, 7PWC, 7PWK, 7PWL, 7PWM, 7PWP, 7PWQ, 7PWR, 7PWS, 7PWU, 7PWW, 7PX6, 7PX7

  • PubMed Abstract: 
  • While human poly-ADP-ribose chain generating poly-ARTs, PARP1 and 2 and TNKS1 and 2, have been widely characterized, less is known on the pathophysiological roles of the mono-ADP-ribosylating mono-ARTs, partly due to the lack of selective inhibitors. In this context, we have focused on the development of inhibitors for the mono-ART PARP10, whose overexpression is known to induce cell death ...

    While human poly-ADP-ribose chain generating poly-ARTs, PARP1 and 2 and TNKS1 and 2, have been widely characterized, less is known on the pathophysiological roles of the mono-ADP-ribosylating mono-ARTs, partly due to the lack of selective inhibitors. In this context, we have focused on the development of inhibitors for the mono-ART PARP10, whose overexpression is known to induce cell death. Starting from OUL35 (1) and its 4-(benzyloxy)benzamidic derivative (2) we herein report the design and synthesis of new analogues from which the cyclobutyl derivative 3c rescued cells most efficiently from PARP10 induced apoptosis. Most importantly, we also identified 2,3-dihydrophthalazine-1,4-dione as a new suitable nicotinamide mimicking PARP10 inhibitor scaffold. When it was functionalized with cycloalkyl (8a-c), o-fluorophenyl (8h), and thiophene (8l) rings, IC 50 values in the 130-160 nM range were obtained, making them the most potent PARP10 inhibitors reported to date. These compounds also inhibited PARP15 with low micromolar IC 50 s, but none of the other tested poly- and mono-ARTs, thus emerging as dual mono-ART inhibitors. Compounds 8a, 8h and 8l were also able to enter cells and rescue cells from apoptosis. Our work sheds more light on inhibitor development against mono-ARTs and identifies chemical probes to study the cellular roles of PARP10 and PARP15.


    Organizational Affiliation

    Department of Pharmaceutical Sciences, University of Perugia, 06123, Perugia, Italy. Electronic address: oriana.tabarrini@unipg.it.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein mono-ADP-ribosyltransferase PARP15A, B221Homo sapiensMutation(s): 0 
Gene Names: PARP15BAL3
EC: 2.4.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q460N3 (Homo sapiens)
Explore Q460N3 
Go to UniProtKB:  Q460N3
PHAROS:  Q460N3
GTEx:  ENSG00000173200 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ460N3
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
8AQ (Subject of Investigation/LOI)
Query on 8AQ

Download Ideal Coordinates CCD File 
C [auth A]4-(cyclohexylmethoxy)-2-methoxy-benzamide
C15 H21 N O3
 Ligand Interaction
DMS
Query on DMS

Download Ideal Coordinates CCD File 
D [auth B]DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 45.29α = 90
b = 68.83β = 90
c = 160.57γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
MOLREPphasing

Structure Validation

Currently 7PWM does not have a validation slider image.




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Academy of FinlandFinland287063 and 294085
Jane and Aatos Erkko FoundationFinland--

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-11
    Type: Initial release