3JXR | pdb_00003jxr

X-Ray structure of r[CGCG(5-fluoro)CG]2

• PDB DOI: https://doi.org/10.2210/pdb3JXR/pdb
• NAKB: 3JXR

• Classification: RNA
• Mutation(s): No 


• Deposited: 2009-09-21 Released: 2010-02-09 
• Deposition Author(s): Adamiak, D.A., Milecki, J., Adamiak, R.W., Rypniewski, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free: 
  0.276 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Literature

The hydration and unusual hydrogen bonding in the crystal structure of an RNA duplex containing alternating CG base pairs

Adamiak, D.A., Milecki, J., Adamiak, R.W., Rypniewski, W.

(2010) New J Chem 34: 903-906

• DOI: https://doi.org/10.1039/b9nj00601j

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 5.77 kDa 
• Atom Count: 441 
• Modeled Residue Count: 18 
• Deposited Residue Count: 18 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
r[CGCG(5-fluoro)CG]2	A, B, C [auth K]	6	N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free:  0.276 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.116	α = 90
b = 41.116	β = 90
c = 143.285	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
MOLREP	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-02-09 
Deposition Author(s): Adamiak, D.A., Milecki, J., Adamiak, R.W., Rypniewski, W.

Revision History  

• Version 1.0: 2010-02-09
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2015-09-09
  Changes: Refinement description
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations