{"id":"W4307160306","doi":"10.3389/fmolb.2022.992748","title":"Engineered bacterial host for genetic encoding of physiologically stable protein nitration","year":2022,"lang":"en","type":"article","venue":"Frontiers in Molecular Biosciences","topic":"Cancer Research and Treatments","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba","funders":"Canada Research Chairs; Technische Universität Berlin; Keio University; Deutsche Forschungsgemeinschaft","keywords":"Nitration; Amino acid; Chemistry; Escherichia coli; Genetic code; Protein engineering; Biomolecule; Synthetic biology; Tyrosine; Biochemistry; Computational biology; Biology; Gene; Enzyme","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001733964,0.00008513223,0.0001139218,0.00008189055,0.000100596,0.00001708046,0.0002438411,0.00003382956,0.0000142543],"category_scores_gemma":[0.00006792859,0.00008033017,0.00006142924,0.0002017876,0.0000922836,0.000004653107,0.00009438006,0.00004366321,1.217763e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003433083,"about_ca_system_score_gemma":0.0001348372,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00005656007,"about_ca_topic_score_gemma":0.00001614646,"domain_scores_codex":[0.9990727,0.00006882074,0.0001461547,0.0002874534,0.0001914838,0.0002334285],"domain_scores_gemma":[0.9997256,0.000003389096,0.00005946047,0.0001397762,0.0000323032,0.00003945602],"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":[0.0001631234,0.00007280374,0.001457371,0.00001216993,0.0000154226,0.000002882955,0.00002046777,0.000430975,0.9969284,0.00002656882,0.0002295795,0.0006402293],"study_design_scores_gemma":[0.0007265608,0.001243532,0.002384913,0.000006074816,0.00000532464,0.000001520217,0.0001411906,0.0005230363,0.9920641,0.0003323327,0.002446105,0.0001252817],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9744784,0.0005636679,0.02397744,0.00004044648,0.0002056106,0.0005808077,0.00009137828,0.000003996197,0.00005824936],"genre_scores_gemma":[0.9742444,0.00002994468,0.02519331,0.00002424925,0.00002872495,0.0003285925,0.00008407019,0.000006859449,0.00005986823],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004864278,"threshold_uncertainty_score":0.3275769,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008481548095633722,"score_gpt":0.2421609142304842,"score_spread":0.2336793661348505,"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."}}