{"id":"W1983725277","doi":"10.1093/nar/gkr296","title":"Structural basis of cooperative DNA recognition by the plasmid conjugation factor, TraM","year":2011,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":49,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Canadian Institutes of Health Research; Howard Hughes Medical Institute","keywords":"Biology; Plasmid; Bacterial conjugation; DNA; Cooperativity; DNA-binding protein; Cooperative binding; Binding site; Molecular biology; Cell biology; Genetics; Biophysics; Biochemistry; Transcription factor; Gene","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":[0.0001221237,0.0002421121,0.0001909517,0.0001254822,0.0003802417,0.0003436903,0.0004461824,0.0004067237,0.0008778362],"category_scores_gemma":[0.0003169118,0.0002144176,0.0001734651,0.00007110872,0.0004197123,0.0002659051,0.0002570824,0.0004474532,0.0006094713],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005151974,"about_ca_system_score_gemma":0.0003233684,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004214646,"about_ca_topic_score_gemma":0.0005433,"domain_scores_codex":[0.9999086,0.00001535757,0.000004999127,0.00002370811,0.0000235022,0.00002385223],"domain_scores_gemma":[0.9998755,0.00002460636,0.00003145585,0.00001536166,0.00001242678,0.0000406471],"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":[0.000148699,0.0000888626,0.0009797896,0.00006839601,0.000008182609,0.0002678287,0.00005206788,0.001137201,0.992651,0.002269782,0.000106579,0.002221473],"study_design_scores_gemma":[0.0001229084,0.0007486017,0.01312424,0.00002003045,0.00002514301,0.001347848,0.0001750323,0.02532003,0.9515263,0.003054931,0.004502319,0.00003254107],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9934005,0.0006690789,0.003948589,0.0001129548,0.0000136535,0.00001689694,0.00002783971,0.0001030989,0.001707518],"genre_scores_gemma":[0.9980814,0.0001366481,0.001258911,0.00002441387,0.000004990387,0.000007832024,0.00004778946,0.000005061511,0.0004330232],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008778362,"threshold_uncertainty_score":0.003737986,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06317978152798684,"score_gpt":0.3046256147216407,"score_spread":0.2414458331936539,"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."}}