9RQQ | pdb_00009rqq

Tankyrase 2 in complex with an inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free: 
    0.234 (Depositor), 0.235 (DCC) 
  • R-Value Work: 
    0.192 (Depositor), 0.193 (DCC) 
  • R-Value Observed: 
    0.194 (Depositor) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


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Literature

Discovery of Fused Isoquinolinone/Triazole as a Scaffold for Tankyrase and PARP Inhibition.

Ouzounthanasis, K.A.Bosetti, C.Alaviuhkola, J.Dhakar, S.S.Mantzourani, C.Kokotou, M.G.Kanetidis, D.Lehtio, L.Koumbis, A.E.

(2026) J Med Chem 69: 330-351

  • DOI: https://doi.org/10.1021/acs.jmedchem.5c02481
  • Primary Citation Related Structures: 
    9RQQ, 9RRP

  • PubMed Abstract: 

    A series of fused isoquinolinone/triazole hybrids were designed and prepared applying a unified versatile synthetic strategy. This practically involved three steps, a novel one-pot CuAAc "click" reaction-iodination process, an amidation and a copper-catalyzed intramolecular Ullmann cyclization and was found to be applicable for a variety of substitutions patterns on the main framework. Some of those synthesized hybrids were tested for selected ADP-ribosyltransferases and found to display nanomolar potency against TNKS2, whereas selectivity was also observed in comparison to other tested PARPs. The SAR studies divulged key structural features which are responsible for this selectivity. Moreover, the identification of the binding site of those selective derivatives using X-ray crystallography revealed that they are accommodated in the nicotinamide binding subsite while certain groups extend toward a hydrophobic pocket unique to tankyrases.


  • Organizational Affiliation
    • Laboratory of Organic Chemistry, Department of Chemistry, Aristotle University, 54124 Thessaloniki, Greece.

Macromolecule Content 

  • Total Structure Weight: 25.46 kDa 
  • Atom Count: 1,811 
  • Modeled Residue Count: 208 
  • Deposited Residue Count: 218 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Poly [ADP-ribose] polymerase tankyrase-2218Homo sapiensMutation(s): 0 
Gene Names: TNKS2PARP5BTANK2TNKL
EC: 2.4.2.30 (PDB Primary Data), 2.4.2 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H2K2 (Homo sapiens)
Explore Q9H2K2 
Go to UniProtKB:  Q9H2K2
PHAROS:  Q9H2K2
GTEx:  ENSG00000107854 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H2K2
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
A1JIF
(Subject of Investigation/LOI)

Query on A1JIF



Download:Ideal Coordinates CCD File
B [auth A]3-[(4-ethylphenyl)methyl]-7-fluoranyl-4~{H}-[1,2,3]triazolo[4,5-c]isoquinolin-5-one
C18 H15 F N4 O
PVXPOUFJSHCZMZ-UHFFFAOYSA-N
PEG

Query on PEG



Download:Ideal Coordinates CCD File
C [auth A]DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
SO4

Query on SO4



Download:Ideal Coordinates CCD File
E [auth A],
F [auth A]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
ZN

Query on ZN



Download:Ideal Coordinates CCD File
D [auth A]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.89 Å
  • R-Value Free:  0.234 (Depositor), 0.235 (DCC) 
  • R-Value Work:  0.192 (Depositor), 0.193 (DCC) 
  • R-Value Observed: 0.194 (Depositor) 
Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.433α = 90
b = 66.433β = 90
c = 118.672γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Jane and Aatos Erkko FoundationFinland--

Revision History  (Full details and data files)

  • Version 1.0: 2026-01-28
    Type: Initial release