7MOO | pdb_00007moo

L-type DNA containing 2'-fluoro-2'-deoxycytidine

• PDB DOI: https://doi.org/10.2210/pdb7MOO/pdb
• NAKB: 7MOO

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


• Deposited: 2021-05-03 Released: 2022-03-16 
• Deposition Author(s): Dantsu, Y., Zhang, Y., Zhang, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 
  0.227 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Synthesis of 2'-Deoxy-2'-fluoro-L-cytidine and Fluorinated L-Nucleic Acids for Structural Studies

Dantsu, Y., Zhang, Y., Zhang, W.

(2021) ChemistrySelect 6: 10597-10600

• DOI: https://doi.org/10.1002/slct.202103202

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 4.89 kDa 
• Atom Count: 359 
• Modeled Residue Count: 16 
• Deposited Residue Count: 16 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*(0DG)P*(OFC)P*(0DG)P*(0DT)P*(0DA)P*(0DC)P*(0DG)P*(0DC))-3')	A, B	8	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free:  0.227 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.84	α = 90
b = 43.84	β = 90
c = 41.25	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2022-03-16 
Deposition Author(s): Dantsu, Y., Zhang, Y., Zhang, W.

Revision History  

• Version 1.0: 2022-03-16
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Refinement description