A pseudoknot‐compatible universal site is located in the large ribosomal RNA in the peptidyltransferase center

FEBS Letters

Ulyanov, N.B²  Ivanov, V.I²  Minyat, E.E²  Zdobnov, E.M¹  Beniaminov, A.D²  Bondarenko, S.A¹ 

[1] Moscow Institute of Physics and Technology, 141700 Moscow region, Dolgoprudny, Russia;Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 32 Vavilov st., 117984 Moscow, Russia

关键词: Ribosome;    Ribosomal RNA;    Peptidyltransferase;    Pseudoknot;    Phylogenetic covariation;    PTC;    peptidyltransferase center;    rRNA;    ribosomal RNA;    SLS;    slipped-loop structure;    SLP;    slipped-loop palindrome;    PTP;    peptidyltransferase pseudoknot;   

DOI  :  10.1016/S0014-5793(99)00166-0

学科分类：生物化学/生物物理

来源: John Wiley & Sons Ltd.

【 摘 要 】

The RNA secondary structure is not confined to a system of the hairpins and can contain pseudoknots as well as topologically equivalent slipped-loop structure (SLS) conformations. A specific primary structure that directs folding to the pseudoknot or SLS is called SL-palindrome (SLP). Using a computer program for searching the SLP in the genomic sequences, 419 primary structures of large ribosomal RNAs from different kingdoms (prokaryota, eukaryota, archaebacteria) as well as plastids and mitochondria were analyzed. A universal site was found in the peptidyltransferase center (PTC) capable of folding to a pseudoknot of 48 nucleotides in length. Phylogenetic conservation of its helices (concurrent replacements with no violation of base pairing, covariation) has been demonstrated. We suggest the reversible folding-unfolding of the pseudoknot for certain stages of the ribosome functioning.

【 授权许可】

Unknown