{"id":"W4387516815","doi":"10.1093/nar/gkad809","title":"Atomistic structure of the SARS-CoV-2 pseudoknot in solution from SAXS-driven molecular dynamics","year":2023,"lang":"en","type":"article","venue":"Nucleic Acids Research","topic":"RNA and protein synthesis mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Biological and Environmental Research; National Institute of General Medical Sciences; Brookhaven National Laboratory; Canadian Institutes of Health Research; Office of Science; New York University Abu Dhabi; Cornell University; York University; U.S. Department of Energy; National Institutes of Health; National Science Foundation","keywords":"Pseudoknot; Small-angle X-ray scattering; Molecular dynamics; Biology; Bent molecular geometry; Scattering; Crystallography; Biophysics; Physics; RNA; Materials science; Chemistry; Genetics; Gene; Optics","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001758456,0.0004366073,0.0004217289,0.0002156817,0.0005865026,0.0005418487,0.0006535423,0.0006560039,0.002100948],"category_scores_gemma":[0.0003053917,0.0003509627,0.0003440154,0.000306753,0.0005361057,0.0005041062,0.0002739519,0.001145639,0.0002421626],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001313239,"about_ca_system_score_gemma":0.001212654,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00589754,"about_ca_topic_score_gemma":0.005301425,"domain_scores_codex":[0.999909,0.00001067956,0.000005491046,0.00001733238,0.00003970408,0.00001780906],"domain_scores_gemma":[0.9998951,0.00002654225,0.0000128826,0.00001276221,0.0000250154,0.00002766469],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.000578003,0.000382314,0.004736642,0.0002618737,0.0001503833,0.000886521,0.0005758102,0.6481874,0.3179428,0.01524599,0.002514442,0.008537737],"study_design_scores_gemma":[0.0000556303,0.00007957077,0.002207308,0.00001153721,0.00001223153,0.00004556037,0.00004986706,0.9804611,0.01453966,0.001568859,0.0009381882,0.00003050601],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9679584,0.0002113753,0.0251065,0.0004518824,0.00004960357,0.00006822645,0.00126175,0.0004239205,0.004468364],"genre_scores_gemma":[0.9665233,0.0005556075,0.02846069,0.00009295973,0.00001228605,0.0001000926,0.002895241,0.0001273251,0.001232403],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00589754,"threshold_uncertainty_score":0.01172644,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03239626857893157,"score_gpt":0.3220679753133857,"score_spread":0.2896717067344541,"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."}}