Computational protocol: Formation of m2G6 in Methanocaldococcus jannaschii tRNA catalyzed by the novel methyltransferase Trm14

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Protocol publication

[…] Initial comparative analysis of a limited subset of methanogen genomes was performed using STRING (v 6.2) (). Sequence homology searches to the omniome or selected subsets of the omniome were performed with BLAST (). For phylogenetic analysis, the multiple sequence alignment for a subset of proteins within COG 0116 was carried out using ClustalW (). The phylogenetic tree based on these sequences was constructed with MEGA5 (), using the neighbor-joining method with the BioNJ(JTT) model. The bootstrap test (1000 replicates) was performed to validate the stability of the nodes. […]

Pipeline specifications

Software tools Clustal W, MEGA
Application Phylogenetics
Organisms Methanocaldococcus jannaschii
Chemicals S-Adenosylmethionine