436D | pdb_0000436d

THE DICKERSON-DREW B-DNA DODECAMER REVISITED-AT ATOMIC RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb436D/pdb
• NAKB: 436D

• Classification: DNA
• Mutation(s): No 


• Deposited: 1998-11-12 Released: 1998-11-25 
• Deposition Author(s): Tereshko, V., Minasov, G., Egli, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Work: 
  0.160 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Literature

The Dickerson-Drew B-DNA Dodecamer Revisited-At Atomic Resolution

Tereshko, V., Minasov, G., Egli, M.

(1999) J Am Chem Soc 121: 470-471

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 7.48 kDa 
• Atom Count: 724 
• Modeled Residue Count: 24 
• Deposited Residue Count: 24 
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*CP*GP*CP*GP*AP*AP*(TAF)P*TP*CP*GP*CP*G)-3'	A, B	12	N/A

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Work:  0.160 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.64	α = 90
b = 39.63	β = 90
c = 65.53	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
SHELXL-97	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-11-25 
Deposition Author(s): Tereshko, V., Minasov, G., Egli, M.

Revision History  

• Version 1.0: 1998-11-25
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations