1EVO

NMR OBSERVATION OF A NOVEL C-TETRAD

• PDB DOI: https://doi.org/10.2210/pdb1EVO/pdb
• NAKB: 1EVO
• BMRB: 4612

• Classification: DNA
• Mutation(s): No 


• Deposited: 2000-04-20 Released: 2000-05-01 
• Deposition Author(s): Patel, P.K., Bhavesh, N.S., Hosur, R.V.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: all calculated structures submitted 

Literature

NMR observation of a novel C-tetrad in the structure of the SV40 repeat sequence GGGCGG.

Patel, P.K., Bhavesh, N.S., Hosur, R.V.

(2000) Biochem Biophys Res Commun 270: 967-971

• PubMed: 10772934 
• DOI: https://doi.org/10.1006/bbrc.2000.2479
• Primary Citation of Related Structures:  
  1EVO


• PubMed Abstract: 
  

  We report the NMR structure of the DNA sequence d-TGGGCGGT in Na(+) solutions at neutral pH, containing a repeat sequence from SV40 viral genome. The structure is a novel quadruplex incorporating the C-tetrad formed by symmetrical pairing of four Cs via NH(2)&bond;O(2) H-bonds in a plane. The C-tetrad has a wider cavity compared to G-tetrads and stacks well over the adjacent G4-tetrad, but poorly on the G6 tetrad. The quadruplex helix is largely underwound by 8-10 degrees compared to B-DNA except at the C5-G6 step. To our knowledge this is the first report of C-tetrad formation in DNA structures, and would be of significance from the point of view of both structural diversity and specific recognition.

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Organizational Affiliation: 

Department of Chemical Sciences, Tata Institute of Fundamental Research, Homi Bhabha Road, Mumbai, 400 005, India.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 9.99 kDa 
• Atom Count: 664 
• Modelled Residue Count: 32 
• Deposited Residue Count: 32 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*TP*GP*GP*GP*CP*GP*GP*T)-3')	A [auth O], B [auth P], C [auth Q], D [auth R]	8	N/A

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 10 
• Conformers Submitted: 10 
• Selection Criteria: all calculated structures submitted 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-05-01 
Deposition Author(s): Patel, P.K., Bhavesh, N.S., Hosur, R.V.

Revision History  

• Version 1.0: 2000-05-01
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-16
  Changes: Data collection, Database references, Derived calculations