{"id":"W4200376418","doi":"10.1042/bcj20210529","title":"The optimal pH of AID is skewed from that of its catalytic pocket by DNA-binding residues and surface charge","year":2021,"lang":"en","type":"article","venue":"Biochemical Journal","topic":"Trypanosoma species research and implications","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Simon Fraser University; Memorial University of Newfoundland","funders":"Canadian Institutes of Health Research","keywords":"Cytidine deaminase; Catalysis; Mutant; Surface charge; Cytidine; Residue (chemistry)","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":[0.00008153231,0.0002149076,0.0001778694,0.0001775353,0.0001576696,0.0004206755,0.0002288209,0.0002865264,0.001419174],"category_scores_gemma":[0.0001652056,0.0001514325,0.0001994425,0.0002131865,0.0002487497,0.0002963473,0.0002272879,0.0003940696,0.0004948515],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002307706,"about_ca_system_score_gemma":0.0002089773,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001209178,"about_ca_topic_score_gemma":0.0009618033,"domain_scores_codex":[0.9999322,0.000004827455,0.000002780499,0.00002097863,0.00001736036,0.00002188665],"domain_scores_gemma":[0.9999294,0.00001598083,0.00001946246,0.00000394366,0.00001376197,0.00001748184],"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":[0.0001880279,0.00001407129,0.004005251,0.00005001162,0.000007565856,0.0001132753,0.00004055514,0.0004386316,0.9912035,0.000182737,0.0001157023,0.003640709],"study_design_scores_gemma":[0.00001498128,0.0001380328,0.02915785,0.00001331022,0.0000254423,0.0007969423,0.0001761423,0.003882742,0.961546,0.0004663163,0.003758457,0.00002378987],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.992327,0.0005940491,0.004243767,0.00006762835,0.000007893758,0.00000730904,0.0004283644,0.0001050134,0.002218831],"genre_scores_gemma":[0.9960203,0.0002910626,0.002571623,0.00002854386,0.000002101526,0.000007788341,0.0003879418,0.00002117145,0.0006694531],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001419174,"threshold_uncertainty_score":0.004747629,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02876885031882631,"score_gpt":0.3014243747818741,"score_spread":0.2726555244630478,"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."}}