Journal Article

Two novel dATP analogs for DNA photoaffinity labeling

Martin Zofall and Blaine Bartholomew

in Nucleic Acids Research

Volume 28, issue 21, pages 4382-4390
Published in print November 2000 | ISSN: 0305-1048
Published online November 2000 | e-ISSN: 1362-4962 | DOI: http://dx.doi.org/10.1093/nar/28.21.4382
Two novel dATP analogs for DNA photoaffinity labeling

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Two new photoreactive dATP analogs, N6-[4-azidobenzoyl–(2-aminoethyl)]-2′-deoxyadenosine-5′-triphosphate (AB-dATP) and N6-[4-[3-(trifluoromethyl)-diazirin-3-yl]benzoyl-(2-aminoethyl)]-2′-deoxyadenosine-5′-triphosphate (DB-dATP), were synthesized from 2′-deoxyadenosine-5′-monophosphate in a six step procedure. Synthesis starts with aminoethylation of dAMP and continues with rearrangement of N1-(2-aminoethyl)-2′-deoxyadenosine-5′-monophosphate to N6-(2-aminoethyl)-2′-deoxyadenosine-5′-monophosphate (N6-dAMP). Next, N6-dAMP is converted into the triphosphate form by first protecting the N-6 primary amino group before coupling the pyrophosphate. After pyrophosphorylation, the material is deprotected to yield N6-(2-aminoethyl)-2′-deoxyadenosine-5′-triphosphate (N6-dATP). The N-6 amino group is subsequently used to attach either a phenylazide or phenyldiazirine and the photoreactive nucleotide is then enzymatically incorporated into DNA. N6-dATP and its photoreactive analogs AB-dATP and DB-dATP were successfully incorporated into DNA using the exonuclease-free Klenow fragment of DNA polymerase I in a primer extension reaction. UV irradiation of the primer extension reaction with AB-dATP or DB-dATP showed specific photocrosslinking of DNA polymerase I to DNA.

Journal Article.  5482 words.  Illustrated.

Subjects: Chemistry ; Biochemistry ; Bioinformatics and Computational Biology ; Genetics and Genomics ; Molecular and Cell Biology

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