Skip to main content

Table 1 Predicted clusters of readthrough proteins

From: Mining prokaryotic genomes for unknown amino acids: a stop-codon-based approach

Cluster description Codon Size Example organism (locus)
Formate dehydrogenase α subunit TGA 45 Escherichia coli (b1474)
Selenide water dikinase TGA 12 Haemophilus influenzae (HI0200m)
Glycine reductase complex selenoprotein A TGA 6 Treponema denticola (TDE0745)
Glycine reductase complex selenoprotein B TGA 6 Treponema denticola (TDE0078)
Heterodisulfide reductase subunit A TGA 6 Methanococcus jannaschii (MJ1190m)
Coenzyme F420-reducing hydrogenase δ subunit TGA 5 Methanococcus jannaschii (MJ1190a)
Formylmethanofuran dehydrogenase subunit B TGA 4 Methanococcus jannaschii (MJ1194m)
Glutaredoxin-like TGA 3 Carboxydothermus hydrogenoformans (CHY_0740)
Thioredoxin TGA 3 Geobacter sulfurreducens (GSU3446)
Coenzyme F420-reducing hydrogenase α subunit TGA 3 Methanococcus jannaschii (MJ0029)
HesB family TGA 3 Desulfovibrio vulgaris (DVU_1382)
HesB family TGA 2 Methanococcus maripaludis (MMP0252 + upstream)
Fe-S oxidoreductase TGA 2 Desulfotalea psychrophila (DP1009)
DsbA-like TGA 2 Desulfovibrio desulfuricans (Dde_1263 + upstream)
Periplasmic [NiFeSe] hydrogenase large subunit TGA 2 Desulfovibrio vulgaris (DVU_1918)
Monomethylamine methyltransferase TAG 7 Methanosarcina acetivorans (MA0144)
Dimethylamine methyltransferase TAG 7 Methanosarcina acetivorans (MA0532)
Trimethylamine methyltransferase TAG 6 Methanosarcina acetivorans (MA0528)
Transcriptional regulator, TetR family TAG 2 Methanosarcina acetivorans (MA2902)
Cytochrome c family protein TGA 2 Geobacter sulfurreducens (GSU2937 + GSU2936)
Hypothetical protein TAG 2 Geobacter sulfurreducens (GSU2293 + downstream)
  1. A plus sign in a locus indicates that the genomic coordinates of the iORF can be described by a concatenation of two genes or regions. For example, "GSU2293 + downstream" means that the iORF consists of the gene GSU2293 and its downstream sequence. HesB family was not clustered into one family, because their sequences were too short and diverged.