{"id":"W2594874402","doi":"10.1002/pro.3155","title":"Structural and functional characterization of a ubiquitin variant engineered for tight and specific binding to an alpha‐helical ubiquitin interacting motif","year":2017,"lang":"en","type":"article","venue":"Protein Science","topic":"Ubiquitin and proteasome pathways","field":"Biochemistry, Genetics and Molecular Biology","cited_by":22,"is_retracted":false,"has_abstract":true,"ca_institutions":"Lunenfeld-Tanenbaum Research Institute; University of Toronto; Mount Sinai Hospital","funders":"Canadian Institutes of Health Research","keywords":"Ubiquitin; Proteome; Binding selectivity; Phage display; Computational biology; Protein–protein interaction; Motif (music); Ubiquitin ligase; Biology; Plasma protein binding; Structural motif; Yeast; Cell biology; Chemistry; Genetics; Biochemistry; Gene; Physics; Peptide","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":[0.0005426147,0.0001145104,0.0001165492,0.00007302167,0.0004381962,0.0002047914,0.0002213138,0.00004338253,0.00001436118],"category_scores_gemma":[0.0003957279,0.0001056239,0.00002138478,0.00005819038,0.0002227694,0.00005389256,0.0002156913,0.00005826979,8.836194e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001053817,"about_ca_system_score_gemma":0.00005668716,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000006419947,"about_ca_topic_score_gemma":0.000003226824,"domain_scores_codex":[0.9989942,0.00002123314,0.0001765995,0.000429422,0.0001504528,0.0002281323],"domain_scores_gemma":[0.9993018,0.00001232183,0.0001445749,0.0002663082,0.0001344818,0.0001405103],"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":[0.00008175257,0.000008836092,0.0003162027,0.00002969201,0.000003362997,8.283868e-7,0.0001272022,0.000001692733,0.9901626,0.0008325094,0.000001965092,0.008433427],"study_design_scores_gemma":[0.0002965518,0.0002908656,0.01874915,0.00005516436,0.000003133478,0.00003510262,0.00003774764,0.001370911,0.9781885,0.00008662397,0.0007464195,0.0001398227],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9908723,0.00002389017,0.008021688,0.0002175229,0.0001321209,0.0005977394,0.00006242962,0.000007969727,0.00006436314],"genre_scores_gemma":[0.9933257,0.000005422275,0.006232275,0.00003058386,0.0002051101,0.000068444,0.00003897585,0.00001070653,0.00008281713],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01843295,"threshold_uncertainty_score":0.430722,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03281252052556446,"score_gpt":0.2797219305395968,"score_spread":0.2469094100140324,"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."}}