2I5A

Crystal structure of a DB1055-D(CGCGAATTCGCG)2 complex

• PDB DOI: https://doi.org/10.2210/pdb2I5A/pdb
• NAKB: 2I5A

• Classification: DNA
• Mutation(s): No 


• Deposited: 2006-08-24 Released: 2008-04-08 
• Deposition Author(s): Neidle, S., Lee, M.P.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 0.287 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 

Literature

Crystal structure of a DB1055-D(CGCGAATTCGCG)2 complex

Neidle, S., Lee, M.P.H.

To be published.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 7.71 kDa 
• Atom Count: 598 
• Modelled 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*TP*TP*CP*GP*CP*G)-3'	A, B	12	N/A

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
M1B	D [auth A]	2-{3'-[AMINO(IMINO)METHYL]BIPHENYL-4-YL}-1H-BENZIMIDAZOLE-5-CARBOXIMIDAMIDE C21 H18 N6 JTEAXLWMBHFLPI-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 0.287 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 24.145	α = 90
b = 39.842	β = 90
c = 65.794	γ = 90

Software Package:

Software Name	Purpose
SHELXL-97	refinement
CNS	refinement
CrystalClear	data collection
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-08 
Deposition Author(s): Neidle, S., Lee, M.P.H.

Revision History  

• Version 1.0: 2008-04-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-01-31
  Changes: Experimental preparation
• Version 1.3: 2019-07-24
  Changes: Data collection, Refinement description
• Version 1.4: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description