{"id":"W1987889857","doi":"10.1016/j.jmb.2010.11.016","title":"Concerted Dynamics Link Allosteric Sites in the PBX Homeodomain","year":2010,"lang":"en","type":"article","venue":"Journal of Molecular Biology","topic":"Genomics and Chromatin Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":33,"is_retracted":false,"has_abstract":false,"ca_institutions":"McGill University","funders":"Canada Foundation for Innovation; Natural Sciences and Engineering Research Council of Canada; McGill University","keywords":"Allosteric regulation; Cooperativity; Cooperative binding; Homeobox; Biophysics; Hox gene; DNA; Binding site; Biology; Transcription factor; Ternary complex; DNA binding site; Chemistry; Cell biology; Genetics; Gene; Biochemistry; Gene expression; Receptor; Enzyme","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":[0.0005831577,0.0001504807,0.0002183435,0.00008408284,0.00003776757,0.00002599707,0.0005659187,0.0002757782,0.00001311833],"category_scores_gemma":[0.0001674243,0.0001064956,0.0001562501,0.0001137939,0.0001437496,0.000002731661,0.00009396043,0.0004008682,0.000003074352],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001539371,"about_ca_system_score_gemma":0.00009580999,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000007039148,"about_ca_topic_score_gemma":0.000175482,"domain_scores_codex":[0.9989211,0.0001701165,0.0004130248,0.000166939,0.00009386584,0.0002349606],"domain_scores_gemma":[0.9991781,0.00003388444,0.0002937502,0.0003216099,0.0001163418,0.00005627798],"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":[0.00004532158,0.00004901396,0.00382221,0.000004998433,0.00004885769,0.00004925455,0.00004779857,0.00004567219,0.9918256,0.001500386,0.0001421765,0.002418672],"study_design_scores_gemma":[0.01859399,0.01440246,0.102124,0.0001353012,0.0005432693,0.01482701,0.002871447,0.01499121,0.6118917,0.05976026,0.1561429,0.003716414],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9917392,0.0004994359,0.005197538,0.001708687,0.0003095088,0.000101013,0.00001326048,0.000002014149,0.0004293284],"genre_scores_gemma":[0.9954333,0.0001446155,0.003135939,0.0009314705,0.0002323367,0.000003289233,0.0000806292,0.00001776119,0.00002062725],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.379934,"threshold_uncertainty_score":0.4342764,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005145501235834957,"score_gpt":0.2492579536020427,"score_spread":0.2441124523662077,"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."}}