1d64

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Image:1d64.gif

1d64, resolution 2.100Å

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CRYSTAL STRUCTURE OF A PENTAMIDINE-OLIGONUCLEOTIDE COMPLEX: IMPLICATIONS FOR DNA-BINDING PROPERTIES

Overview

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.

About this Structure

1D64 is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.

Reference

Crystal structure of a pentamidine-oligonucleotide complex: implications for DNA-binding properties., Edwards KJ, Jenkins TC, Neidle S, Biochemistry. 1992 Aug 11;31(31):7104-9. PMID:1643044

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