Synthesis of a cleavable dinucleotide photoaffinity probe of ribonucleic acid polymerase: Application to trinucleotide labeling of an Escherichia coli transcription complex

Michelle M. Hanna, Claude F. Meares

Research output: Contribution to journalArticle

30 Scopus citations

Abstract

The cleavable dinucleotide photoaffinity probe 5′-[[(4-azidophenacyl)thio]phosphoryl]adenylyl(3′-5′)uridine was prepared and used to determine the 5′ contacts of a trinucleotide in an Escherichia coli RNA polymerase/T7 DNA transcription complex. The probe was prepared by alkylating 5′-(thiophosphory)adenylyl(3′-5′)uridine with azidophenacyl bromide. The 5′-(thiophosphoryl)adenylyl(3′-5′)uridine was prepared by the abortive initiation reaction of RNA polymerase on a poly[d(A-T)] DNA template, using adenosine 5′-O-(thiomonophosphate) and uridine triphosphate as substrates. A transcription complex containing a radiolabeled trinucleotide at the Al promoter of bacteriophage T7 D111 or D123 DNA was prepared by using the dinucleotide photoaffinity probe as initiator and cytidine [α-32P]triphosphate as the other substrate. After photolysis, the labeled subunits and DNA were isolated, and the trinucleotide was removed in the presence of phenylmercuric acetate and analyzed by polyacrylamide gel electrophoresis. The 5′ end of the trinucleotide was found to label the DNA (≈88%) and also the β (≈10%) and σ(≈3%) subunits of E. coli RNA polymerase. It was also shown that the order of migration of the β and β′ subunits of E. coli RNA polymerase on polyacrylamide gel electrophoresis in sodium dodecyl sulfate is different from that in sodium dodecyl sulfate plus urea.

Original languageEnglish (US)
Pages (from-to)3546-3551
Number of pages6
JournalBiochemistry
Volume22
Issue number15
StatePublished - 1983

ASJC Scopus subject areas

  • Biochemistry

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