Pseudouridine synthases

Eurther quantum chemical studies involving uracil derivatives concern the conformations and properties of uridines [98CEJ621,98JA5488,98JOC1033, OOJCS (P2)677], the nucleophilic attack in pseudouridine synthases [99JA9928], and the aza analogs of uracil [99JST349]. 

PUA Putative RNA-binding domain in PseudoUridine synthase and Archaeosine transglycosylase E(MFP)AB 5(5) 3(3) ... 

Two structures incorporating modified nucleotides include the co-crystal structure of pseudouridine synthase TruB with a T stem-loop of tRNA in which the modification site (U55) is modified with 5-fluorouridine, " and the crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to DNA containing an abasic site. " ... 

Figure 29 Postulated chemical mechanisms for pseudouridine synthase, (a) Nucleophilic attack at uracil C , X was initially thought to be a cysteine however, mutagenesis studies eliminated that possibility and identified a conserved and essential aspartate, (b) Nucleophilic attack at ribose by the aspartate analogous to the mechanism followed by TGT.

THioUridine synthases, RNA Methyltransferases, and Pseudouridine synthases RNA-binding motif originally characterized in TRM2 and miaB... 

Many crystal structures have been reported involve nucleic acid interactions with DNA and RNA polymerases as well as other nucleic acid replicative anzymes. " Other structures involve tRNA and tRNA synthetases, and many nucleic acid-modifying enzymes including methyl transferases, " " repair enzymes, " endonucleases, the RNase R enzyme Rrp44 and topoisomerases and helicases. Other protein-DNA structures reported include Soxl7 bound to DNA, " the Mosl paired-end complex, TAR DNA-binding protein (TDP-43) and the tumor suppressor protein p53. A number of protein-RNA structures are also reported including pseudouridine synthase, the E.coli SeqA... 

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