title: Photoaffinity polyamines: interactions with AcPhe-tRNA free in solution or bound at the P-site of Escherichia coli ribosomes.
abstract: Two photoreactive derivatives of spermine, azidobenzamidino (ABA)-spermine and azidonitrobenzoyl (ANB)-spermine, were used for mapping of polyamine binding sites in AcPhe-tRNA free in solution or bound at the P-site of Escherichia coli poly(U)-programmed ribosomes. Partial nuclease digestion indicated that the deep pocket formed by nucleosides of the D-stem and the variable loop, as well as the anticodon stem, are preferable polyamine binding sites for AcPhe-tRNA in the free state. ABA-spermine was a stronger cross-linker than ANB-spermine. Both photoprobes were linked to AcPhe-tRNA with higher affinity when the latter was non-enzymatically bound to poly(U)-programmed ribosomes. In particular, the cross-linking at the TpsiC stem and acceptor stem was substantially promoted. The photolabeled AcPhe-tRNA.poly(U).ribosome complex exhibited moderate reactivity towards puromycin. The attachment of photoprobes to AcPhe-tRNA was mainly responsible for this defect. A more complicated situation was revealed when the AcPhe-tRNA.poly(U).ribosome complex was formed in the presence of translation factors; the reactivity towards puromycin was stimulated by irradiating such a complex in the presence of photoprobes at 50 microM, with higher concentrations being inhibitory. The stimulatory effect was closely related with the binding of photoprobes to ribosomes. The results are discussed on the basis of possible AcPhe-tRNA conformational changes induced by the incorporation of photoprobes.
authors.affiliation: Laboratory of Biochemistry, School of Medicine, University of Patras, GR-26500 Patras, Greece.
authors.forename: I
authors.initials: I
authors.lastname: Amarantos
authors.forename: D L
authors.initials: DL
authors.lastname: Kalpaxis
mesh_terms: D000447:Aldehydes / Q000378:metabolism; D000926:Anticodon / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D001665:Binding Sites; D002074:Butanones; D002384:Catalysis / Q000187:drug effects; D004926:Escherichia coli / Q000166:cytology / Q000201:enzymology / Q000235:genetics*; D007700:Kinetics; D015335:Molecular Probes / Q000737:chemistry / Q000378:metabolism; D009690:Nucleic Acid Conformation / Q000187:drug effects; D010455:Peptides / Q000737:chemistry / Q000378:metabolism; D010458:Peptidyl Transferases / Q000037:antagonists & inhibitors / Q000378:metabolism; D019920:Photoaffinity Labels / Q000737:chemistry / Q000378:metabolism*; D011072:Poly U / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D014176:Protein Biosynthesis / Q000187:drug effects; D011691:Puromycin / Q000494:pharmacology; D012329:RNA, Bacterial / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D012343:RNA, Transfer / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D012270:Ribosomes / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D012995:Solubility; D012996:Solutions; D013096:Spermine / Q000031:analogs & derivatives* / Q000737:chemistry / Q000378:metabolism*; D013816:Thermodynamics
chemical_list: D000447:Aldehydes; D000926:Anticodon; D002074:Butanones; D015335:Molecular Probes; D010455:Peptides; D019920:Photoaffinity Labels; D012329:RNA, Bacterial; D012996:Solutions; D011072:Poly U; D013096:Spermine; D011691:Puromycin; D012343:RNA, Transfer; C005135:kethoxal; D010458:Peptidyl Transferases