3KQ8 | pdb_00003kq8

5-Te-uridine derivatized DNA-8mer

• PDB DOI: https://doi.org/10.2210/pdb3KQ8/pdb
• NAKB: 3KQ8

• Classification: DNA
• Mutation(s): No 


• Deposited: 2009-11-17 Released: 2010-11-17 
• Deposition Author(s): Sheng, J., Hassan, A.E.A., Zhang, W., Huang, Z.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.229 (Depositor), 0.310 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.290 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Literature

Synthesis and Structure studies of 5-Tellurium modified DNA

Sheng, J., Hassan, A.E.A., Zhang, W., Huang, Z.

To be published.

Biological Assembly 1  

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

Macromolecule Content 

• Total Structure Weight: 2.64 kDa 
• Atom Count: 199 
• Modeled Residue Count: 8 
• Deposited Residue Count: 8 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*GP*(UMS)P*GP*(TTI)P*AP*CP*AP*C)-3'	A	8	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.229 (Depositor), 0.310 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.290 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.242	α = 90
b = 42.242	β = 90
c = 23.929	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SHELXS	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-11-17 
Deposition Author(s): Sheng, J., Hassan, A.E.A., Zhang, W., Huang, Z.

Revision History  

• Version 1.0: 2010-11-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations