1NVY | pdb_00001nvy

Strontium bound to the Holliday junction sequence d(TCGGTACCGA)4

• PDB DOI: https://doi.org/10.2210/pdb1NVY/pdb
• NAKB: 1NVY

• Classification: DNA
• Mutation(s): No 


• Deposited: 2003-02-05 Released: 2003-02-25 
• Deposition Author(s): Cardin, C.J., Thorpe, J.H., Gale, B.C., Teixeira, S.C.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.263 (Depositor), 0.272 (DCC) 
• R-Value Work: 
  0.207 (Depositor) 
• R-Value Observed: 
  0.210 (Depositor) 

Literature

Strontium, a MAD taerget for the DNA Holliday junction

Cardin, C.J., Thorpe, J.H., Gale, B.C., Teixeira, S.C.M.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 6.53 kDa 
• Atom Count: 516 
• Modeled Residue Count: 20 
• Deposited Residue Count: 20 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
d(TCGGTACCGA)4	A, B	10	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SR	C [auth A], D [auth A], E [auth B], F [auth B], G [auth B]	STRONTIUM ION Sr PWYYWQHXAPXYMF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.263 (Depositor), 0.272 (DCC) 
• R-Value Work:  0.207 (Depositor) 
• R-Value Observed: 0.210 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.734	α = 90
b = 25.32	β = 110.11
c = 36.493	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-02-25 
Deposition Author(s): Cardin, C.J., Thorpe, J.H., Gale, B.C., Teixeira, S.C.M.

Revision History  

• Version 1.0: 2003-02-25
  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: 2024-02-14
  Changes: Data collection, Database references, Derived calculations