{"id":"W2083267900","doi":"10.1021/bi0494572","title":"Computer Modeling of Polyleucine-Based Coiled Coil Dimers in a Realistic Membrane Environment:  Insight into Helix−Helix Interactions in Membrane Proteins","year":2004,"lang":"en","type":"article","venue":"Biochemistry","topic":"DNA and Nucleic Acid Chemistry","field":"Biochemistry, Genetics and Molecular Biology","cited_by":24,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Calgary","funders":"","keywords":"Hydrogen bond; Chemistry; Asparagine; Intramolecular force; Intermolecular force; Helix (gastropod); Crystallography; van der Waals force; Coiled coil; Molecular dynamics; Transmembrane domain; Membrane; Transmembrane protein; Protein structure; Alanine; Membrane protein; Protein folding; Random coil; Folding (DSP implementation); Threonine; Stereochemistry; Molecule; Circular dichroism; Amino acid; Computational chemistry; Biochemistry; Serine; Organic chemistry; Biology","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.000147018,0.000341208,0.0003670591,0.00009469119,0.00004850134,0.00001661099,0.0003355708,0.000282585,0.0000529977],"category_scores_gemma":[0.00006490809,0.0003702706,0.0001419816,0.0001908916,0.0001704357,0.000009848172,0.0001463033,0.0002873285,0.000006788006],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001651678,"about_ca_system_score_gemma":0.0002256553,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005154973,"about_ca_topic_score_gemma":0.0001122664,"domain_scores_codex":[0.9980984,0.00003294426,0.0006169572,0.0006472211,0.000235598,0.0003688628],"domain_scores_gemma":[0.9989999,0.00001485565,0.000172642,0.0006213346,0.00004692066,0.0001443504],"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":[0.0002256967,0.0004233501,0.0002751841,0.0003309746,0.00003636735,0.00002637027,0.0001403218,0.03797614,0.9603446,0.000004957729,0.00002367638,0.0001923666],"study_design_scores_gemma":[0.002708691,0.00007859177,0.00006035634,0.0003095583,0.00002318364,0.00001786601,0.00009597152,0.01050659,0.9855151,0.00002396956,0.0002838979,0.0003762857],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9955162,0.0004650442,0.002298,0.0002722115,0.00007291536,0.0002336612,0.00004393091,0.00002028639,0.001077767],"genre_scores_gemma":[0.9960007,0.0001146251,0.002871483,0.0001650291,0.000161772,0.00006907169,0.0004192543,0.00004576321,0.0001522687],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02746955,"threshold_uncertainty_score":0.9998749,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008352456883925878,"score_gpt":0.2244993861616591,"score_spread":0.2161469292777332,"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."}}