1FMS

Structure of complex between cyclohexyl-bis-furamidine and d(CGCGAATTCGCG)

• PDB DOI: https://doi.org/10.2210/pdb1FMS/pdb
• NAKB: 1FMS

• Classification: DNA
• Mutation(s): No 


• Deposited: 2000-08-18 Released: 2000-09-11 
• Deposition Author(s): Simpson, I.J., Lee, M., Kumar, A., Boykin, D.W., Neidle, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.280 
• R-Value Observed: 0.217 

Literature

DNA minor groove interactions and the biological activity of 2,5-bis-[4-(N-alkylamidino)phenyl] furans

Simpson, I.J., Lee, M., Kumar, A., Boykin, D.W., Neidle, S.

(2000) Bioorg Med Chem Lett 10: 2593-2597

• PubMed: 11128631 
• DOI: https://doi.org/10.1016/s0960-894x(00)00511-4
• Primary Citation of Related Structures:  
  1FMQ, 1FMS


• PubMed Abstract: 
  

  2,5-Bis-[4-(N-cyclobutyl-amidino)phenyl] furan and 2,5-bis-[4-(N-cyclohexyl-amidino)phenyl] furan have activity against Pneumocystis carinii and also show cytotoxicity against several tumour cell lines. These activities are correlated with DNA-binding abilities; the crystal structures of complexes with the DNA sequence d(CGCGAATTCGCG) is reported here. Interactions with, and effects on, the DNA minor groove, are found to be factors in the biological properties of these compounds.

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Organizational Affiliation: 

CRC Biomolecular Structure Unit, Chester Beatty Laboratories, The Institute of Cancer Research, London, UK.

Biological Assembly 1  

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 7.82 kDa 
• Atom Count: 709 
• 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
D35	D [auth A]	2,5-BIS{[4-(N-CYCLOHEXYLDIAMINOMETHYL)PHENYL]}FURAN C30 H40 N4 O RSCUVHWEUSXGAS-UFXYQILXSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.280 
• R-Value Observed: 0.217 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 25.567	α = 90
b = 40.236	β = 90
c = 65.567	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
X-PLOR	model building
SHELXL-97	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-09-11 
Deposition Author(s): Simpson, I.J., Lee, M., Kumar, A., Boykin, D.W., Neidle, S.

Revision History  

• Version 1.0: 2000-09-11
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2024-02-07
  Changes: Data collection, Database references, Derived calculations