Literature DB >> 1643044

Crystal structure of a pentamidine-oligonucleotide complex: implications for DNA-binding properties.

K J Edwards1, T C Jenkins, S Neidle.   

Abstract

The crystal structure of the complex formed between the dodecanucleotide d(CGCGAATTCGCG)2 and the drug pentamidine, which is active against the Pneumocystis carinii pathogen in AIDS patients, has been determined to a resolution of 2.1 A and an R-factor of 19.4%. Analysis of the structure has shown the drug to be bound in the 5'-AATT minor groove region of the duplex, with the amidinium groups H-bonded to adenine N3 atoms in an interstrand manner. The drug molecule adopts an extended conformation, and the immediate binding site spans four base pairs. Structural details of the drug-DNA interactions are discussed, and comparison is made with the dodecamer complex of the structurally similar berenil ligand.

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Year:  1992        PMID： 1643044     DOI： 10.1021/bi00146a011

Source DB:  PubMed          Journal:  Biochemistry        ISSN： 0006-2960            Impact factor:   3.162


  58 in total

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2.  Minor groove binding of a bis-quaternary ammonium compound: the crystal structure of SN 7167 bound to d(CGCGAATTCGCG)2.

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3.  Reducing levels of toxic RNA with small molecules.

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4.  Hydration changes accompanying the binding of minor groove ligands with DNA.

Authors:  Natalya N Degtyareva; Bret D Wallace; Andrea R Bryant; Kristine M Loo; Jeffrey T Petty
Journal:  Biophys J       Date:  2006-11-17       Impact factor: 4.033

Review 5.  Antiparasitic compounds that target DNA.

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6.  Variability in DNA minor groove width recognised by ligand binding: the crystal structure of a bis-benzimidazole compound bound to the DNA duplex d(CGCGAATTCGCG)2.

Authors:  A A Wood; C M Nunn; A Czarny; D W Boykin; S Neidle
Journal:  Nucleic Acids Res       Date:  1995-09-25       Impact factor: 16.971

7.  Characterization of noncovalent complexes formed between minor groove binding molecules and duplex DNA by electrospray ionization-mass spectrometry.

Authors:  D C Galefn; R D Smithcor
Journal:  J Am Soc Mass Spectrom       Date:  1995-12       Impact factor: 3.109

8.  Pharmacophore-based screening of diamidine small molecule inhibitors for protein arginine methyltransferases.

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Journal:  RSC Med Chem       Date:  2020-09-30

9.  Hydrogen bond geometry in DNA-minor groove binding drug complexes.

Authors:  L Tabernero; J Bella; C Alemán
Journal:  Nucleic Acids Res       Date:  1996-09-01       Impact factor: 16.971

10.  DB75, a novel trypanocidal agent, disrupts mitochondrial function in Saccharomyces cerevisiae.

Authors:  Charlotte A Lanteri; Bernard L Trumpower; Richard R Tidwell; Steven R Meshnick
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