{"id":"W2012716329","doi":"10.1016/j.jmb.2010.03.053","title":"Structure-Based Design of a Photocontrolled DNA Binding Protein","year":2010,"lang":"en","type":"article","venue":"Journal of Molecular Biology","topic":"Photoreceptor and optogenetics research","field":"Neuroscience","cited_by":47,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Leucine zipper; bZIP domain; DNA-binding domain; DNA; Chemistry; Fusion protein; Biophysics; Protein structure; Biochemistry; Zipper; Circular dichroism; Binding domain; Binding site; Crystallography; Biology; Transcription factor; Gene; Recombinant DNA","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":[0.0005107888,0.0001105835,0.0002957321,0.00029375,0.00004217008,0.00001652359,0.0004695207,0.0001440661,0.0001876184],"category_scores_gemma":[0.00144374,0.00008090426,0.0001390629,0.0002036979,0.0002004876,0.00002632689,0.00003805042,0.0004468454,0.000003035802],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001594763,"about_ca_system_score_gemma":0.000263771,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000002179455,"about_ca_topic_score_gemma":0.000001107848,"domain_scores_codex":[0.998524,0.0004302683,0.0003841404,0.0001557548,0.0002544997,0.000251365],"domain_scores_gemma":[0.9989898,0.0001939943,0.0003627376,0.0001844529,0.0001550424,0.0001140042],"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":[0.0004414303,0.00005304529,0.0001054824,0.000007328147,0.00001262657,0.00004173089,0.00001242925,0.00008404567,0.9985499,0.0002519212,0.000008447416,0.0004316217],"study_design_scores_gemma":[0.001699866,0.0007548395,0.00001999625,0.00001160132,0.000008458638,0.00005244695,0.000002394505,0.0005556492,0.9954227,0.001204436,0.0001920578,0.00007557684],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9829199,0.00001851236,0.01608622,0.00009106108,0.0002146593,0.000576834,0.00001327879,0.000004064423,0.00007543473],"genre_scores_gemma":[0.9932359,0.000002957473,0.00658741,0.00008916755,0.0000463224,0.00001180014,4.863597e-7,0.00001320399,0.00001272565],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01031599,"threshold_uncertainty_score":0.329918,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02676152727602648,"score_gpt":0.3249590201904846,"score_spread":0.2981974929144581,"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."}}