4F4N | pdb_00004f4n

Crystal structure of 2-se-thymidine derivatized dna 8mer

• PDB DOI: https://doi.org/10.2210/pdb4F4N/pdb
• NAKB: 4F4N

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


• Deposited: 2012-05-10 Released: 2012-06-13 
• Deposition Author(s): Zhang, W., Sheng, J., Huang, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.181 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.154 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.155 (Depositor) 

Literature

Crystal structure of 2-se-thymidine derivatized dna 8mer

Zhang, W., Sheng, J., Huang, Z.

To be published.

Biological Assembly 1  

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

Macromolecule Content 

• Total Structure Weight: 4.98 kDa 
• Atom Count: 396 
• Modeled Residue Count: 16 
• Deposited Residue Count: 16 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*GP*TP*GP*(US3)P*AP*CP*AP*C)-3'	A, B [auth C]	8	synthetic construct

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.181 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.154 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.155 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.635	α = 90
b = 44.635	β = 90
c = 41.305	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-13 
Deposition Author(s): Zhang, W., Sheng, J., Huang, Z.

Revision History  

• Version 1.0: 2012-06-13
  Type: Initial release
  
• Version 1.1: 2014-10-08
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations