4HQH | pdb_00004hqh

Decamer Fluoro Carbocyclic LNA (R-F-cLNA) crystal structure

• PDB DOI: https://doi.org/10.2210/pdb4HQH/pdb
• NAKB: 4HQH

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


• Deposited: 2012-10-25 Released: 2013-11-20 
• Deposition Author(s): Seth, P.P., Pallan, P.S., Swayze, E.E., Egli, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.246 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Starting Model: experimental

Literature

Properties of a Fluorinated Carbocyclic LNA Analog

Seth, P.P., Pallan, P.S., Swayze, E.E., Egli, M.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 6.15 kDa 
• Atom Count: 476 
• Modeled Residue Count: 20 
• Deposited Residue Count: 20 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
DNA (5'-D(*GP*CP*GP*TP*AP*(ULF)P*AP*CP*GP*C)-3')	A, B	10	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.246 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 26.115	α = 90
b = 43.859	β = 90
c = 45.787	γ = 90

Software Package:

Software Name	Purpose
MD2	data collection
CCP4	model building
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CCP4	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-11-20 
Deposition Author(s): Seth, P.P., Pallan, P.S., Swayze, E.E., Egli, M.

Revision History  

• Version 1.0: 2013-11-20
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description