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MODOMICS: a database of RNA modification pathways—2013 update
MODOMICS is a database of RNA modifications that provides comprehensive information concerning the chemical structures of modified ribonucleosides, their biosynthetic pathways, RNA-modifying enzymesExpand
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Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases
BackgroundSPOUT methyltransferases (MTases) are a large class of S-adenosyl-L-methionine-dependent enzymes that exhibit an unusual alpha/beta fold with a very deep topological knot. In 2001, when noExpand
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MODOMICS: a database of RNA modification pathways. 2017 update
Abstract MODOMICS is a database of RNA modifications that provides comprehensive information concerning the chemical structures of modified ribonucleosides, their biosynthetic pathways, the locationExpand
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YbeA is the m3Psi methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA.
Pseudouridines in the stable RNAs of Bacteria are seldom subjected to further modification. There are 11 pseudouridine (Psi) sites in Escherichia coli rRNA, and further modification is found only atExpand
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Structural analysis of human 2′-O-ribose methyltransferases involved in mRNA cap structure formation
The 5′ cap of human messenger RNA contains 2′-O-methylation of the first and often second transcribed nucleotide that is important for its processing, translation and stability. Human enzymes thatExpand
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Functional specialization of domains tandemly duplicated within 16S rRNA methyltransferase RsmC
RNA methyltransferases (MTases) are important players in the biogenesis and regulation of the ribosome, the cellular machine for protein synthesis. RsmC is a MTase that catalyzes the transfer of aExpand
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Proteomic analysis of complexes formed by human topoisomerase I.
Human topoisomerase I is a nuclear enzyme that catalyses DNA relaxation and phosphorylation of SR proteins. Topoisomerase I participates in several protein-protein interactions. We performed aExpand
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YgdE is the 2′‐O‐ribose methyltransferase RlmM specific for nucleotide C2498 in bacterial 23S rRNA
The rRNAs of Escherichia coli contain four 2′‐O‐methylated nucleotides. Similar to other bacterial species and in contrast with Archaea and Eukaryota, the E. coli rRNA modifications are catalysed byExpand
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YccW is the m5C methyltransferase specific for 23S rRNA nucleotide 1962.
Methylation at the 5-position of cytosine [m(5)C (5-methylcytidine)] occurs at three RNA nucleotides in Escherichia coli. All these modifications are at highly conserved nucleotides in the rRNAs, andExpand
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Sequence–structure–function relationships of a tRNA (m7G46) methyltransferase studied by homology modeling and site‐directed mutagenesis
The Escherichia coli TrmB protein and its Saccharomyces cerevisiae ortholog Trm8p catalyze the S‐adenosyl‐L‐methionine‐dependent formation of 7‐methylguanosine at position 46 (m7G46) in tRNA. ToExpand
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