{"id":"W2488276626","doi":"10.1073/pnas.1524648113","title":"Saturation scanning of ubiquitin variants reveals a common hot spot for binding to USP2 and USP21","year":2016,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":42,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Canadian Cancer Society Research Institute; Canadian Institutes of Health Research; Israel Science Foundation; Government of Canada","keywords":"Proteases; Epitope; Ubiquitin; Proteasome; Biology; Computational biology; Enzyme; Biochemistry; Cell biology; Chemistry; Genetics; Antibody; 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":[0.0001446385,0.0001897516,0.0003176378,0.0001903449,0.0001454017,0.0002244084,0.0002101174,0.0001833311,0.0007443785],"category_scores_gemma":[0.0002121585,0.0001748267,0.0002615197,0.00014467,0.0001913218,0.0001200846,0.0002092495,0.0002570733,0.0001621365],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003124907,"about_ca_system_score_gemma":0.0001313504,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008574602,"about_ca_topic_score_gemma":0.001113386,"domain_scores_codex":[0.999871,0.00002018249,0.000006847717,0.00002479981,0.00004655222,0.00003058317],"domain_scores_gemma":[0.9998355,0.00005298274,0.00003269686,0.00002177352,0.0000226298,0.00003436678],"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":[0.0001072533,0.00001472212,0.0007243731,0.000009702899,0.000007159232,0.00008881833,0.00001818371,0.0001668001,0.9980195,0.0000705708,0.00001479467,0.0007582067],"study_design_scores_gemma":[0.00001020541,0.0002011064,0.01581722,0.000003181017,0.00001559607,0.000572309,0.00005368601,0.003377306,0.9794819,0.00006128931,0.0003992234,0.000007016558],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9983181,0.0001500712,0.001107508,0.00001139108,0.000002540353,0.000004876857,0.000028874,0.00001969347,0.00035705],"genre_scores_gemma":[0.9986046,0.00005833947,0.0008700813,0.00001905009,0.000001370718,0.000004061564,0.00009544711,0.000009239276,0.0003376921],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008574602,"threshold_uncertainty_score":0.002490163,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04300954105245741,"score_gpt":0.313444444063889,"score_spread":0.2704349030114316,"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."}}