8R4W

(3+1) hybrid-2 G-quadruplex with a -(llp) loop progression

• PDB DOI: https://doi.org/10.2210/pdb8R4W/pdb
• BMRB: 34877
• NAKB: 8R4W

• Classification: DNA
• Organism(s): synthetic construct
• Mutation(s): No 


• Deposited: 2023-11-14 Released: 2023-12-27 
• Deposition Author(s): Jana, J., Vianney, Y.M., Weisz, K.
• Funding Organization(s): German Research Foundation (DFG)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Literature

Impact of loop length and duplex extensions on the design of hybrid-type G-quadruplexes.

Jana, J., Vianney, Y.M., Weisz, K.

(2024) Chem Commun (Camb) 60: 854-857

• PubMed: 38131370 
• DOI: https://doi.org/10.1039/d3cc05625b
• Primary Citation of Related Structures:  
  8R4E, 8R4W


• PubMed Abstract: 
  

  A G-rich core sequence G ₃ -TCA-G ₃ -T _1,2 -G ₃ -T _1,2 -G ₃ can be designed to fold into a parallel or into two different (3+1) hybrid-type G-quadruplexes, among them an elusive topology with one lateral followed by two propeller loops. Favored folds can be rationalized based on the number of intervening thymidines and on additional complementary flanking sequences.

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Organizational Affiliation: 

Institut für Biochemie, Universität Greifswald, Felix-Hausdorff Str. 4, Greifswald D-17489, Germany. [e-mail].

Biological Assembly 1  

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: NMR Distance Restraints

Macromolecule Content

• Total Structure Weight: 7.91 kDa 
• Atom Count: 526 
• Modelled Residue Count: 25 
• Deposited Residue Count: 25 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (25-MER)	A	25	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-27 
Deposition Author(s): Jana, J., Vianney, Y.M., Weisz, K.

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Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	410497337

Revision History  

• Version 1.0: 2023-12-27
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Database references
• Version 1.2: 2024-01-31
  Changes: Database references