1QYK | pdb_00001qyk

GCATGCT + Barium

• PDB DOI: https://doi.org/10.2210/pdb1QYK/pdb
• NAKB: 1QYK

• Classification: DNA
• Mutation(s): No 


• Deposited: 2003-09-11 Released: 2003-10-21 
• Deposition Author(s): Cardin, C.J., Gan, Y., Thorpe, J.H., Teixeira, S.C.M., Gale, B.C., Moraes, M.I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.224 (Depositor) 
• R-Value Work: 
  0.201 (Depositor), 0.360 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Metal Ion Distribution and Stabilization of the DNA Quadruplex Structure Formed by d(GCATGCT)

Cardin, C.J., Gan, Y., Thorpe, J.H., Teixeira, S.C.M., Gale, B.C., Moraes, M.I.A.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 4.5 kDa 
• Atom Count: 323 
• Modeled Residue Count: 14 
• Deposited Residue Count: 14 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*GP*CP*AP*TP*GP*CP*T)-3'	A, B	7	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BA	C [auth A], D [auth B]	BARIUM ION Ba XDFCIPNJCBUZJN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.224 (Depositor) 
• R-Value Work:  0.201 (Depositor), 0.360 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 22.015	α = 90
b = 59.536	β = 90
c = 47.667	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
SHELXL-97	refinement
XDS	data reduction
XDS	data scaling
XTALVIEW	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-10-21 
Deposition Author(s): Cardin, C.J., Gan, Y., Thorpe, J.H., Teixeira, S.C.M., Gale, B.C., Moraes, M.I.A.

Revision History  

• Version 1.0: 2003-10-21
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2014-02-12
  Changes: Version format compliance
• Version 1.4: 2024-02-14
  Changes: Data collection, Database references, Derived calculations
• Version 1.5: 2024-04-03
  Changes: Refinement description