{"id":"W2104816241","doi":"10.1093/protein/gzp082","title":"Reengineering natural design by rational design and in vivo library selection: the HLH subdomain in bHLHZ proteins is a unique requirement for DNA-binding function","year":2010,"lang":"en","type":"article","venue":"Protein Engineering Design and Selection","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; University of Toronto; Ontario Innovation Trust","keywords":"Leucine zipper; Mutant; Biology; Genetics; DNA-binding protein; Computational biology; Transcription factor; 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":[0.00109255,0.0006755501,0.0007785084,0.0004675593,0.0002811838,0.0008481187,0.000807502,0.0004630907,0.0008380756],"category_scores_gemma":[0.0009041392,0.0004168009,0.0004886395,0.0005503039,0.0005755312,0.0004919696,0.0007364475,0.001114888,0.0006383373],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006868859,"about_ca_system_score_gemma":0.0005970001,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004020542,"about_ca_topic_score_gemma":0.0008607473,"domain_scores_codex":[0.9994327,0.0001535375,0.00006074307,0.0001169789,0.0001317312,0.0001042138],"domain_scores_gemma":[0.9996005,0.00009866307,0.00009170381,0.00006742883,0.00007702193,0.00006467533],"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":[0.0001562251,0.000229413,0.0004752048,0.0002060014,0.00005161328,0.0002388701,0.0001092272,0.006291693,0.9748633,0.002110644,0.0001459198,0.0151219],"study_design_scores_gemma":[0.00007068887,0.001146397,0.0007334542,0.00002031882,0.00009726925,0.0004371229,0.00009604055,0.009742829,0.9724442,0.0008308934,0.01435164,0.00002920004],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6976777,0.002630648,0.2922676,0.0003132177,0.00007787981,0.001044311,0.0006310019,0.0007327733,0.004624872],"genre_scores_gemma":[0.7635161,0.004694662,0.2247725,0.0002600239,0.00002689431,0.0006749262,0.001320041,0.0003062604,0.004428645],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00109255,"threshold_uncertainty_score":0.005778015,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.006733209985789913,"score_gpt":0.1868745527821353,"score_spread":0.1801413427963454,"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."}}