{"id":"W1966790304","doi":"10.1021/bi061864l","title":"Conformational Coupling between the Cytoplasmic Carboxylic Acid and the Retinal in a Fungal Light-Driven Proton Pump","year":2006,"lang":"en","type":"article","venue":"Biochemistry","topic":"Photoreceptor and optogenetics research","field":"Neuroscience","cited_by":20,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Guelph","funders":"","keywords":"Bacteriorhodopsin; Rhodopsin; Neurospora; Aspartic acid; Photoprotein; Protonation; Retinal; Chemistry; Biophysics; Photochemistry; Biology; Stereochemistry; Biochemistry; Mutant; Amino acid; Membrane; Neurospora crassa","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0003130035,0.000107912,0.0001071725,0.00002578274,0.0001907615,0.000101331,0.0003344818,0.00007433104,0.00002617312],"category_scores_gemma":[0.0001563398,0.00006527374,0.00003636553,0.000160932,0.0003357325,0.000038953,0.0001252781,0.0002840676,0.000009900075],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004483551,"about_ca_system_score_gemma":0.00009117927,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002908924,"about_ca_topic_score_gemma":0.000002438193,"domain_scores_codex":[0.9989257,0.00004020848,0.0002009573,0.0002159822,0.0003644193,0.0002527315],"domain_scores_gemma":[0.9994637,0.000203371,0.00006106695,0.0001994662,0.00002874354,0.00004359429],"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":[0.00007156096,0.00001295223,0.01959264,0.00003467581,0.000002037859,0.000002839955,0.0001085138,0.00002300713,0.9799094,0.000117155,0.00008156969,0.00004365623],"study_design_scores_gemma":[0.0006966636,0.00001142445,0.004004913,0.00001791338,0.000003856299,0.00001887856,0.00004215844,0.004572675,0.9898421,0.0001190112,0.0005852697,0.00008517969],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.994189,0.00009072395,0.000007649599,0.0007235345,0.00002459723,0.0004605381,0.00002763682,0.00001536287,0.004460939],"genre_scores_gemma":[0.9994346,0.00002543368,0.00001098201,0.00005580437,0.0001773414,0.0001291378,0.00000860699,0.000007862262,0.0001502327],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01558773,"threshold_uncertainty_score":0.2661786,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01837832279006059,"score_gpt":0.2657512693709658,"score_spread":0.2473729465809052,"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."}}