{"id":"W4234556469","doi":"10.1093/nar/gky976","title":"Active site residue identity regulates cleavage preference of LAGLIDADG homing endonucleases","year":2018,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"CRISPR and Genetic Engineering","field":"Biochemistry, Genetics and Molecular Biology","cited_by":16,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; Western University","funders":"Argonne National Laboratory; Natural Sciences and Engineering Research Council of Canada; Industrial Macromolecular Crystallography Association Collaborative Access Team; Canadian Institutes of Health Research; Office of Science; U.S. Department of Energy","keywords":"Homing endonuclease; Biology; Active site; Cleavage (geology); DNA; Cleavage factor; Genome; Genetics; Cleavage and polyadenylation specificity factor; Reprogramming; Scissile bond; Endonuclease; Biochemistry; Computational biology; Enzyme; Polyadenylation; Gene; RNA","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":[0.0005249009,0.0001331832,0.000160275,0.0001296249,0.0001668364,0.00004555645,0.0004061272,0.000158199,0.0001395587],"category_scores_gemma":[0.0004279014,0.0001329851,0.00007107165,0.0002842536,0.0004145553,0.00001629446,0.0004680868,0.0002051912,0.00006492985],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002294003,"about_ca_system_score_gemma":0.00006945356,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001174651,"about_ca_topic_score_gemma":0.000193859,"domain_scores_codex":[0.9984179,0.000123913,0.0002057102,0.0003994647,0.0004202921,0.0004326863],"domain_scores_gemma":[0.9988562,0.00004804972,0.00004578085,0.0005676599,0.0003667863,0.0001154537],"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":[0.0002030598,0.00004680534,0.003157683,0.00004658693,0.00003896802,0.00000336625,0.0003226611,0.00001107564,0.9890836,0.0001978571,0.002014385,0.004873943],"study_design_scores_gemma":[0.0003049668,0.0004843779,0.05339911,0.00004442392,0.000007750258,0.000006133784,0.0002892861,0.0001141568,0.9397508,0.0002377471,0.005226695,0.0001345375],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9921136,0.0003394397,0.0009003925,0.00004262942,0.00007368842,0.0001894955,0.00003260208,0.00001828082,0.006289848],"genre_scores_gemma":[0.9975799,0.0001837977,0.001028671,0.00001509639,0.0003369745,0.00001137054,0.00002024377,0.00003210496,0.0007917804],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.05024143,"threshold_uncertainty_score":0.5422977,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03837344545888637,"score_gpt":0.3720029924082638,"score_spread":0.3336295469493774,"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."}}