2JWQ

G-quadruplex recognition by quinacridines: a SAR, NMR and Biological study

• PDB DOI: https://doi.org/10.2210/pdb2JWQ/pdb
• NAKB: 2JWQ

• Classification: DNA
• Mutation(s): No 


• Deposited: 2007-10-23 Released: 2008-03-25 
• Deposition Author(s): Hounsou, C., Guittat, L., Monchaud, D., Jourdan, M., Saettel, N., Mergny, J.L., Teulade-Fichou, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 4 
• Conformers Submitted: 1 
• Selection Criteria: all calculated structures submitted 

Literature

G-Quadruplex Recognition by Quinacridines: a SAR, NMR, and Biological Study

Hounsou, C., Guittat, L., Monchaud, D., Jourdan, M., Saettel, N., Mergny, J.L., Teulade-Fichou, M.

(2007) ChemMedChem 2: 655-666

• PubMed: 17385760 
• DOI: https://doi.org/10.1002/cmdc.200600286
• Primary Citation of Related Structures:  
  2JWQ


• PubMed Abstract: 
  

  The synthesis of a novel group of quinacridine-based ligands (MMQs) is described along with an evaluation of their G-quadruplex binding properties. A set of biophysical assays was applied to characterize their interaction with DNA quadruplexes: FRET-melting experiments and equilibrium microdialysis were used to evaluate their quadruplex affinity and their ability to discriminate quadruplexes across a broad panel of DNA structures. All data collected support the proposed model of interaction of these compounds with G-quadruplexes, which is furthermore confirmed by a solution structure determined by 2D NMR experiments. Finally, the activity of the MMQ series against tumor cell growth is reported, and the data support the potential of quadruplex-interactive compounds for use in anticancer approaches.

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Organizational Affiliation: 

Laboratoire de Chimie des Interactions Moléculaires, CNRS UPR 285, Collège de France, 11, place Marcellin Berthelot, 75005 Paris, France.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 9.52 kDa 
• Atom Count: 640 
• Modelled Residue Count: 28 
• Deposited Residue Count: 28 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*DTP*DTP*DAP*DGP*DGP*DGP*DT)-3')	A, B, C, D	7	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MM0	E [auth B], F [auth B]	N,N'-(dibenzo[b,j][1,7]phenanthroline-2,10-diyldimethanediyl)dipropan-1-amine C28 H30 N4 BAQHAHCFORIMOQ-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
MM0	PDBBind:  2JWQ	IC50: 373 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 4 
• Conformers Submitted: 1 
• Selection Criteria: all calculated structures submitted 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-03-25 
Deposition Author(s): Hounsou, C., Guittat, L., Monchaud, D., Jourdan, M., Saettel, N., Mergny, J.L., Teulade-Fichou, M.

Revision History  

• Version 1.0: 2008-03-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2022-03-16
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2024-05-29
  Changes: Data collection