{"id":"W2035991134","doi":"10.1371/journal.pone.0024109","title":"RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design","year":2011,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":414,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hospital for Sick Children","funders":"International AIDS Vaccine Initiative; Bill and Melinda Gates Foundation; Howard Hughes Medical Institute","keywords":"Protein design; Computer science; Protein engineering; Loop modeling; Protein domain; Interface (matter); Suite; Structural motif; Protein structure; Protein structure prediction; Chemistry; Parallel computing","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.002555815,0.001930061,0.002378064,0.001138216,0.000988483,0.00253097,0.006857426,0.001592767,0.01258024],"category_scores_gemma":[0.003428385,0.00222842,0.002249927,0.00133249,0.0005456897,0.001843787,0.002584363,0.004592316,0.0127779],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0006510498,"about_ca_system_score_gemma":0.002372284,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00219273,"about_ca_topic_score_gemma":0.002667199,"domain_scores_codex":[0.998862,0.0003565305,0.00009649463,0.0001580421,0.0003970878,0.0001298896],"domain_scores_gemma":[0.9991364,0.0003086071,0.00007362651,0.0001858387,0.0001987863,0.00009675338],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"design_other","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0007331563,0.000301724,0.001967381,0.003559702,0.001209403,0.001110163,0.0006446313,0.1819726,0.0378422,0.184831,0.2231475,0.3626804],"study_design_scores_gemma":[0.0004186413,0.0001417198,0.0003960332,0.0003338487,0.0001589144,0.0009171132,0.00007144576,0.3311442,0.02170096,0.0961859,0.5482599,0.000271286],"study_design_candidate":"simulation_or_modeling","study_design_consensus":null,"genre_codex":"methods","genre_gemma":"empirical","genre_scores_codex":[0.002169401,0.001218945,0.9496473,0.0002159214,0.0001363829,0.0001298928,0.002483584,0.04065251,0.003346048],"genre_scores_gemma":[0.01417886,0.001870742,0.9629722,0.0002868894,0.00005631738,0.001183481,0.007902144,0.009022824,0.002526507],"genre_candidate":"empirical","genre_consensus":null,"teacher_disagreement_score":0.01258024,"threshold_uncertainty_score":0.04208511,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0809229044926166,"score_gpt":0.253177050277921,"score_spread":0.1722541457853044,"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."}}