{"id":"W2950976435","doi":"10.1101/669846","title":"A Protein Engineering Approach for Uncovering Cryptic Ubiquitin-binding Sites: from a Ubiquitin-Variant Inhibitor of APC/C to K48 Chain Binding","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph; University of Toronto","funders":"National Institutes of Health; Österreichische Forschungsförderungsgesellschaft; European Commission; American Lebanese Syrian Associated Charities; Genome Canada; Deutsche Forschungsgemeinschaft; Austrian Science Fund; Howard Hughes Medical Institute","keywords":"Ubiquitin; Ubiquitin ligase; Biochemistry; Ubiquitin-conjugating enzyme; Ubiquitin-Protein Ligases; Deubiquitinating enzyme; Cell biology; Binding site; Plasma protein binding; Biology; 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":[0.0001663153,0.000325299,0.000229316,0.0002014829,0.0001613954,0.0003482281,0.0003188952,0.0002653985,0.000544399],"category_scores_gemma":[0.0001192211,0.0001745661,0.0002493038,0.0001409309,0.0002143908,0.0001256441,0.000191085,0.000515671,0.0002315932],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003661428,"about_ca_system_score_gemma":0.0002589365,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005870711,"about_ca_topic_score_gemma":0.0006512766,"domain_scores_codex":[0.9998893,0.00001209978,0.0000114006,0.00002494424,0.0000420129,0.00002032547],"domain_scores_gemma":[0.9999264,0.000010504,0.00002605542,0.000009691114,0.00001149144,0.00001581223],"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":[0.00003492075,0.00002989081,0.0001250573,0.00001652725,0.000005817173,0.00004902137,0.000005780672,0.0004972463,0.997806,0.0002778704,0.00003533922,0.001116419],"study_design_scores_gemma":[0.000009283704,0.00009107817,0.0002940659,0.00000196198,0.000012002,0.0001255286,0.000006435241,0.00366327,0.9940571,0.00005284177,0.001683085,0.000003426167],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.942383,0.001085404,0.05297594,0.0002349523,0.00005078492,0.0001362251,0.0002864021,0.0001994591,0.00264789],"genre_scores_gemma":[0.9745665,0.00061258,0.02245766,0.00008236065,0.000007551256,0.00004454271,0.000219055,0.00004442125,0.001965508],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0005870711,"threshold_uncertainty_score":0.002656519,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01430196225596023,"score_gpt":0.2129165138765143,"score_spread":0.198614551620554,"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."}}