{"id":"W4412933707","doi":"10.1093/genetics/iyaf153","title":"Residues neighboring an SH3-binding motif participate in the interaction in vivo","year":2025,"lang":"en","type":"article","venue":"Genetics","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Centre hospitalier de l'Université Laval; Centre hospitalier universitaire de Québec; Université Laval","funders":"Fonds de Recherche du Québec - Santé; Natural Sciences and Engineering Research Council of Canada; University of California, San Francisco; Lawyers Trust Fund of Illinois; Canadian Institutes of Health Research; Alliance de recherche numérique du Canada; Human Frontier Science Program","keywords":"SH3 domain; Binding site; Biology; Mutant; Plasma protein binding; Sequence motif; Saccharomyces cerevisiae; Binding selectivity; Complementation; Protein-fragment complementation assay; Protein–protein interaction; DNA-binding protein; Genetics; Structural motif; Transcription factor; Cell biology; Biochemistry; Kinase; DNA; Gene; Proto-oncogene tyrosine-protein kinase Src","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":[0.0001918214,0.0004203243,0.0002375879,0.0001242497,0.0002205124,0.0003132791,0.000278775,0.0002927626,0.001813056],"category_scores_gemma":[0.0001566755,0.0002019004,0.0002259493,0.0001165894,0.0003291844,0.0002015077,0.0002832,0.0003668455,0.0008874785],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002930354,"about_ca_system_score_gemma":0.0001943198,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005859422,"about_ca_topic_score_gemma":0.0009054862,"domain_scores_codex":[0.99981,0.00003170728,0.00001236553,0.00005715786,0.00005293558,0.00003585242],"domain_scores_gemma":[0.9998738,0.00003662584,0.00003159071,0.00002136285,0.000009365397,0.00002723214],"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":[0.00003205906,0.000009876134,0.0003098262,0.00001042444,0.000004131755,0.00002666007,0.000004274749,0.00008988348,0.9987004,0.0001076354,0.00001119489,0.0006936727],"study_design_scores_gemma":[0.00001280205,0.00007600645,0.007648235,0.000003150767,0.00001843727,0.0003215286,0.00002483319,0.001889716,0.9876903,0.000182078,0.002127864,0.000004895073],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9837692,0.0004692002,0.01373049,0.0000747812,0.00001821292,0.00001589639,0.0001347617,0.0001118496,0.001675614],"genre_scores_gemma":[0.9945075,0.0001369648,0.004158115,0.00003107524,0.000003864532,0.00001587024,0.0001611989,0.00001927979,0.0009660575],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001813056,"threshold_uncertainty_score":0.006065249,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02757336704055047,"score_gpt":0.3065703462483766,"score_spread":0.2789969792078261,"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."}}