3SE2

Human poly(ADP-ribose) polymerase 14 (PARP14/ARTD8) - catalytic domain in complex with 6(5H)-phenanthridinone


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.208 

wwPDB Validation 3D Report Full Report


This is version 1.5 of the entry. See complete history

Literature

Family-wide chemical profiling and structural analysis of PARP and tankyrase inhibitors.

Wahlberg, E.Karlberg, T.Kouznetsova, E.Markova, N.Macchiarulo, A.Thorsell, A.G.Pol, E.Frostell, A.Ekblad, T.Oncu, D.Kull, B.Robertson, G.M.Pellicciari, R.Schuler, H.Weigelt, J.

(2012) Nat.Biotechnol. 30: 283-288

  • DOI: 10.1038/nbt.2121
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Inhibitors of poly-ADP-ribose polymerase (PARP) family proteins are currently in clinical trials as cancer therapeutics, yet the specificity of many of these compounds is unknown. Here we evaluated a series of 185 small-molecule inhibitors, including ...

    Inhibitors of poly-ADP-ribose polymerase (PARP) family proteins are currently in clinical trials as cancer therapeutics, yet the specificity of many of these compounds is unknown. Here we evaluated a series of 185 small-molecule inhibitors, including research reagents and compounds being tested clinically, for the ability to bind to the catalytic domains of 13 of the 17 human PARP family members including the tankyrases, TNKS1 and TNKS2. Many of the best-known inhibitors, including TIQ-A, 6(5H)-phenanthridinone, olaparib, ABT-888 and rucaparib, bound to several PARP family members, suggesting that these molecules lack specificity and have promiscuous inhibitory activity. We also determined X-ray crystal structures for five TNKS2 ligand complexes and four PARP14 ligand complexes. In addition to showing that the majority of PARP inhibitors bind multiple targets, these results provide insight into the design of new inhibitors.


    Organizational Affiliation

    Structural Genomics Consortium, Karolinska Institutet, Department of Medical Biochemistry and Biophysics, Stockholm, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Poly [ADP-ribose] polymerase 14
A, B, C, D
193Homo sapiensMutation(s): 0 
Gene Names: PARP14 (BAL2, KIAA1268)
EC: 2.4.2.-
Find proteins for Q460N5 (Homo sapiens)
Go to Gene View: PARP14
Go to UniProtKB:  Q460N5
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SCN
Query on SCN

Download SDF File 
Download CCD File 
B, C, D
THIOCYANATE ION
C N S
ZMZDMBWJUHKJPS-UHFFFAOYSA-M
 Ligand Interaction
CL
Query on CL

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Download CCD File 
C, D
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, C, D
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
LDR
Query on LDR

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Download CCD File 
A, B
phenanthridin-6(5H)-one
C13 H9 N O
RZFVLEJOHSLEFR-UHFFFAOYSA-N
 Ligand Interaction
3AB
Query on 3AB

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Download CCD File 
C, D
3-aminobenzamide
C7 H8 N2 O
GSCPDZHWVNUUFI-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.208 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 82.372α = 90.00
b = 82.372β = 90.00
c = 434.478γ = 120.00
Software Package:
Software NamePurpose
MOLREPphasing
XSCALEdata scaling
MAR345data collection
REFMACrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2011-07-06
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2012-03-07
    Type: Database references
  • Version 1.3: 2012-03-21
    Type: Database references
  • Version 1.4: 2017-11-08
    Type: Refinement description
  • Version 1.5: 2018-01-24
    Type: Structure summary