{"id":"W4408308366","doi":"10.1155/jna/5518018","title":"A Base Pair Outside the Catalytic Core of the I‐R3 DNA Enzyme Has a Significant Effect on Its Cleavage Activity: An Improved Catalytic Core Model and an Automated Design Program","year":2025,"lang":"en","type":"article","venue":"Journal of Nucleic Acids","topic":"DNA and Nucleic Acid Chemistry","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University; Concordia University","funders":"Concordia University","keywords":"Core (optical fiber); Cleavage (geology); Catalysis; DNA; Enzyme; Computer science; Combinatorial chemistry; Computational biology; Chemistry; Biology; Biochemistry","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":[0.000380634,0.0005928345,0.0003880765,0.0001410577,0.0001139032,0.0003854508,0.0005803702,0.0004240774,0.0006913709],"category_scores_gemma":[0.0005845551,0.000287718,0.0006717706,0.000150423,0.0002927975,0.0003224614,0.0002178664,0.0004861071,0.0002398862],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002800341,"about_ca_system_score_gemma":0.0005409296,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001003063,"about_ca_topic_score_gemma":0.000535175,"domain_scores_codex":[0.9998215,0.0000312818,0.0000139982,0.00006051513,0.00005254467,0.00002025341],"domain_scores_gemma":[0.9997652,0.000108748,0.00003758556,0.00004541897,0.00002874168,0.00001429977],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.001411495,0.0002944746,0.00283344,0.0002327074,0.00004210122,0.0002654552,0.00007043059,0.1778696,0.7610355,0.002617286,0.0002606416,0.05306691],"study_design_scores_gemma":[0.00008312077,0.0006706244,0.0009809468,0.000008326441,0.00004999081,0.0001576934,0.000007179764,0.6233527,0.3728252,0.0005493778,0.001295153,0.00001969346],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6556959,0.0001828985,0.3399412,0.00007091905,0.00001702723,0.00006169392,0.0001469787,0.002207536,0.001675758],"genre_scores_gemma":[0.8252621,0.0001843813,0.172574,0.00003798593,0.000006173712,0.0001114539,0.0003882821,0.0002192265,0.00121637],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001003063,"threshold_uncertainty_score":0.002312899,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03325541737476362,"score_gpt":0.3010605185544716,"score_spread":0.267805101179708,"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."}}