A chloroplastic RNA ligase activity analogous to the bacterial and archaeal 2´–5′ RNA ligase [PDF]
RNA Biology, 2012 Bacteria and archaea contain a 2'-5' RNA ligase that seals in vitro 2',3'-cyclic phosphodiester and 5'-hydroxyl RNA termini, generating a 2',5'-phosphodiester bond. In our search for an RNA ligase able to circularize the monomeric linear replication intermediates of viroids belonging to the family Avsunviroidae, which replicate in the chloroplast, we ...
Diego Molina‐Serrano +4 more
semanticscholar +6 more sources
Structure and two-metal mechanism of a eukaryal nick-sealing RNA ligase. [PDF]
Proc Natl Acad Sci U S A, 2015 Significance Polynucleotide ligases are an ancient superfamily of nucleic acid repair enzymes that join 3′-OH and 5′-PO4 DNA or RNA ends. Ligases react with ATP or NAD+ to form a covalent enzyme–adenylate intermediate in which AMP is linked via a P–N ...
Unciuleac MC, Goldgur Y, Shuman S.
europepmc +2 more sources
Coevolution of RtcB and Archease created a multiple-turnover RNA ligase. [PDF]
RNA, 2015 RtcB is a noncanonical RNA ligase that joins either 2′,3′-cyclic phosphate or 3′-phosphate termini to 5′-hydroxyl termini. The genes encoding RtcB and Archease constitute a tRNA splicing operon in many organisms.
Desai KK, Beltrame AL, Raines RT.
europepmc +2 more sources
Genetic and Functional Analyses of Archaeal ATP-Dependent RNA Ligase in C/D Box sRNA Circularization and Ribosomal RNA Processing [PDF]
Frontiers in Molecular Biosciences, 2022 RNA ligases play important roles in repairing and circularizing RNAs post-transcriptionally. In this study, we generated an allelic knockout of ATP-dependent RNA ligase (Rnl) in the hyperthermophilic archaeon Thermococcus kodakarensis to identify its ...
Yancheng Liu +7 more
doaj +2 more sources
Adenylylation of small RNA sequencing adapters using the TS2126 RNA ligase I. [PDF]
RNA, 2016 Many high-throughput small RNA next-generation sequencing protocols use 5′ preadenylylated DNA oligonucleotide adapters during cDNA library preparation. Preadenylylation of the DNA adapter's 5′ end frees from ATP-dependence the ligation of the adapter to
Lama L, Ryan K.
europepmc +2 more sources
Plant Methods, 2012 Background Deep sequencing is a powerful tool for novel small RNA discovery. Illumina small RNA sequencing library preparation requires a pre-adenylated 3’ end adapter containing a 5’,5’-adenyl pyrophosphoryl moiety.
Chen Yun-Ru +5 more
doaj +2 more sources
T4 RNA Ligase 2 truncated active site mutants: improved tools for RNA analysis
BMC Biotechnology, 2011 Background T4 RNA ligases 1 and 2 are useful tools for RNA analysis. Their use upstream of RNA analyses such as high-throughput RNA sequencing and microarrays has recently increased their importance.
Zhuang Fanglei +4 more
doaj +2 more sources
Characterization of a novel eukaryal nick-sealing RNA ligase from Naegleria gruberi. [PDF]
RNA, 2015 The proteome of the amoebo-flagellate protozoan Naegleria gruberi is rich in candidate RNA repair enzymes, including 15 putative RNA ligases, one of which, NgrRnl, is a eukaryal homolog of Deinococcus radiodurans RNA ligase, DraRnl.
Unciuleac MC, Shuman S.
europepmc +2 more sources
Kinetic mechanism of nick sealing by T4 RNA ligase 2 and effects of 3′-OH base mispairs and damaged base lesions [PDF]
RNA: A publication of the RNA Society, 2013 T4 RNA ligase 2 (Rnl2) seals 3′-OH/5′-PO4 nicks in double-stranded nucleic acids where the broken strand is RNA. This study analyzed the kinetic mechanism and fidelity of nick sealing by Rnl2–AMP.
Mathieu Chauleau, Stewart Shuman
openalex +2 more sources
RtcB, a Novel RNA Ligase, Can Catalyze tRNA Splicing and HAC1 mRNA Splicing in Vivo [PDF]
Journal of Biological Chemistry, 2011 RtcB enzymes are novel RNA ligases that join 2′,3′-cyclic phosphate and 5′-OH ends. The phylogenetic distribution of RtcB points to its candidacy as a tRNA splicing/repair enzyme.
Naoko Tanaka +2 more
openalex +2 more sources