{"id":"W4296986169","doi":"10.1016/j.jbc.2022.102521","title":"Ancestral archaea expanded the genetic code with pyrrolysine","year":2022,"lang":"en","type":"article","venue":"Journal of Biological Chemistry","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":30,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Basic Energy Sciences; National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; Natural Science Foundation of Guangdong Province; University of Queensland; National Natural Science Foundation of China; Canada Research Chairs; Canadian Institutes of Health Research; Academia Sinica; U.S. Department of Energy","keywords":"Biology; Archaea; Aminoacylation; Genetic code; Amino acid; Aminoacyl tRNA synthetase; Biochemistry; Genetics; Amino Acyl-tRNA Synthetases; Transfer RNA; Streptomyces coelicolor; Enzyme; Bacteria; Computational biology; Gene; RNA; Streptomyces","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004688576,0.0006182722,0.0003958951,0.0002490005,0.0004167267,0.001119568,0.0004554561,0.0007071013,0.004639558],"category_scores_gemma":[0.0006976564,0.0002484719,0.0005146038,0.0003088123,0.0005896268,0.001003785,0.0007899514,0.002387748,0.001620254],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0008237918,"about_ca_system_score_gemma":0.0009169696,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006856273,"about_ca_topic_score_gemma":0.0008138112,"domain_scores_codex":[0.9997581,0.0000477004,0.00002056125,0.00006415081,0.0000610803,0.00004834679],"domain_scores_gemma":[0.9991104,0.0001727052,0.0001408662,0.0002912823,0.0001350106,0.0001496342],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000287907,0.0001174366,0.002114604,0.0001098691,0.00002488086,0.000362231,0.00009352901,0.0006856888,0.9722958,0.0060008,0.0002593787,0.01764789],"study_design_scores_gemma":[0.00009945206,0.0007134843,0.0115821,0.00007052442,0.00006984446,0.001441887,0.0003622432,0.00606488,0.8956805,0.006620704,0.07721526,0.00007923294],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9571101,0.001022634,0.03059473,0.001218475,0.0003755723,0.00007382935,0.0007650124,0.0008685981,0.007970963],"genre_scores_gemma":[0.9533387,0.000854025,0.0340973,0.0002476581,0.00005318738,0.00005238087,0.001333248,0.0002074547,0.00981602],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004639558,"threshold_uncertainty_score":0.01552087,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02207490566122641,"score_gpt":0.241894821350717,"score_spread":0.2198199156894906,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}