{"id":"W2034182536","doi":"10.1074/jbc.m114.618199","title":"The β-Lactamase Gene Regulator AmpR Is a Tetramer That Recognizes and Binds the d-Ala-d-Ala Motif of Its Repressor UDP-N-acetylmuramic Acid (MurNAc)-pentapeptide","year":2014,"lang":"en","type":"article","venue":"Journal of Biological Chemistry","topic":"Antibiotic Resistance in Bacteria","field":"Biochemistry, Genetics and Molecular Biology","cited_by":88,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University; University of Manitoba","funders":"Canadian Institutes of Health Research","keywords":"Repressor; Biology; Pentapeptide repeat; Homotetramer; Citrobacter freundii; Biochemistry; Peptidoglycan; Transcription (linguistics); Activator (genetics); Electrophoretic mobility shift assay; Regulon; Gene; Promoter; DNA-binding domain; Transcription factor; Gene expression; Enterobacteriaceae; Escherichia coli","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":[0.0000796279,0.0003775657,0.0004014282,0.0001998251,0.0002619737,0.0003108531,0.0002956393,0.0004457624,0.001621055],"category_scores_gemma":[0.0001306285,0.0001837243,0.0003473874,0.0001616928,0.0002845605,0.0002093035,0.0002567782,0.000487214,0.001398058],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003466358,"about_ca_system_score_gemma":0.0001449062,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004320203,"about_ca_topic_score_gemma":0.0002469935,"domain_scores_codex":[0.9998559,0.00001255334,0.000006393509,0.00005007779,0.00005032665,0.00002473368],"domain_scores_gemma":[0.9999133,0.000006998593,0.000038376,0.000006986722,0.000008745596,0.00002556502],"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":[0.00004181072,0.00001741245,0.0005234066,0.00003734729,0.000005231987,0.00009915476,0.00001663966,0.00009455984,0.9948308,0.0001924952,0.0001269111,0.004014273],"study_design_scores_gemma":[0.00003803451,0.0005153399,0.0213248,0.00002087901,0.00002289988,0.002767975,0.00009549954,0.00308895,0.9362779,0.0002753958,0.03554107,0.0000313092],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9664738,0.007153287,0.01904109,0.0002787898,0.000101341,0.00009283997,0.000768048,0.0009418529,0.005148937],"genre_scores_gemma":[0.9805756,0.001259679,0.0101112,0.0001479937,0.00004216493,0.00004773158,0.00144223,0.00005245239,0.006321062],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001621055,"threshold_uncertainty_score":0.005423009,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01571835486634433,"score_gpt":0.2427899892342253,"score_spread":0.227071634367881,"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."}}