{"id":"W4322490033","doi":"10.1038/s41467-023-36590-1","title":"Structure and mechanism of a tripartite ATP-independent periplasmic TRAP transporter","year":2023,"lang":"en","type":"article","venue":"Nature Communications","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":36,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Centre for Antibiotic Resistance Research, University of Gothenburg; Maurice Wilkins Centre for Molecular Biodiscovery; Biomolecular Interaction Centre, University of Canterbury; Stockholms Universitet; Kempestiftelserna; Göteborgs Universitet; Umeå Universitet; Ministero dell’Istruzione, dell’Università e della Ricerca; Knut och Alice Wallenbergs Stiftelse; Australian Cancer Research Foundation; University of Otago; Royal Society Te Apārangi; Ministry of Business, Innovation and Employment; Kempe Foundation; Royal Society; Canterbury Medical Research Foundation; University of Lethbridge; VINNOVA; Australian Nuclear Science and Technology Organisation; Australian Institute of Nuclear Science and Engineering; Science for Life Laboratory; Australian Synchrotron; Marsden Fund; Harvard University","keywords":"Periplasmic space; Transporter; Transport protein; ATP-binding cassette transporter; Biochemistry; Chemistry; Biophysics; Docking (animal); Membrane transport protein; Binding site; Sialic acid; Biology; Escherichia coli","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00007790686,0.00009663471,0.0001177226,0.00006733505,0.00007826719,0.000009008287,0.0004300104,0.0005451731,0.00001068762],"category_scores_gemma":[0.00001429178,0.00008861523,0.00005042165,0.0001659972,0.0001239539,0.000001883181,0.0001798718,0.0002834646,0.000001713094],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000003549706,"about_ca_system_score_gemma":0.0000296729,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000005532505,"about_ca_topic_score_gemma":0.0002700407,"domain_scores_codex":[0.9994332,0.0000329592,0.0001606423,0.0001780926,0.0000665488,0.0001285524],"domain_scores_gemma":[0.9990143,0.000009495945,0.00006196821,0.0008224347,0.00005583683,0.00003596623],"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":[0.0000190199,0.00002157643,0.0003794744,0.000008354139,0.00003667158,4.043368e-7,0.0001026461,0.000001474108,0.9936129,0.004278218,0.0002694269,0.001269803],"study_design_scores_gemma":[0.000692376,0.0002196653,0.02179653,0.00001392085,0.00005179627,0.00002303559,0.0001436863,0.0001905681,0.8637908,0.001166539,0.1116871,0.0002239836],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9959789,0.001629709,0.0000435576,0.001762959,0.0001227988,0.0001486978,0.0001699257,0.00002556479,0.0001178704],"genre_scores_gemma":[0.9958466,0.002435624,0.001064741,0.0001345023,0.00003135109,0.00001139661,0.0003540038,0.00001341383,0.0001083842],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1298221,"threshold_uncertainty_score":0.4204874,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01086093224211826,"score_gpt":0.2584791863051148,"score_spread":0.2476182540629965,"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."}}