AzaHx, a novel fluorescent, DNA minor groove and G·C recognition element: Synthesis and DNA binding properties of a p-anisyl-4-aza-benzimidazole-pyrrole-imidazole (azaHx-PI) polyamide.

Abstract:

:The design, synthesis, and DNA binding properties of azaHx-PI or p-anisyl-4-aza-benzimidazole-pyrrole-imidazole (5) are described. AzaHx, 2-(p-anisyl)-4-aza-benzimidazole-5-carboxamide, is a novel, fluorescent DNA recognition element, derived from Hoechst 33258 to recognize G·C base pairs. Supported by theoretical data, the results from DNase I footprinting, CD, ΔT(M), and SPR studies provided evidence that an azaHx/IP pairing, formed from antiparallel stacking of two azaHx-PI molecules in a side-by-side manner in the minor groove, selectively recognized a C-G doublet. AzaHx-PI was found to target 5'-ACGCGT-3', the Mlu1 Cell Cycle Box (MCB) promoter sequence with specificity and significant affinity (K(eq) 4.0±0.2×10(7) M(-1)).

journal_name

Bioorg Med Chem Lett

authors

Satam V,Babu B,Patil P,Brien KA,Olson K,Savagian M,Lee M,Mepham A,Jobe LB,Bingham JP,Pett L,Wang S,Ferrara M,Bruce CD,Wilson WD,Lee M,Hartley JA,Kiakos K

doi

10.1016/j.bmcl.2015.06.055

subject

Has Abstract

pub_date

2015-09-01 00:00:00

pages

3681-5

issue

17

eissn

0960-894X

issn

1464-3405

pii

S0960-894X(15)00648-4

journal_volume

25

pub_type

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