{"id":"W2949932581","doi":"10.1038/s41594-019-0246-6","title":"Structural basis of HMCES interactions with abasic DNA and multivalent substrate recognition","year":2019,"lang":"en","type":"article","venue":"Nature Structural & Molecular Biology","topic":"DNA Repair Mechanisms","field":"Biochemistry, Genetics and Molecular Biology","cited_by":64,"is_retracted":false,"has_abstract":false,"ca_institutions":"Princess Margaret Cancer Centre; Structural Genomics Consortium; University of Toronto","funders":"Biological and Environmental Research; U.S. National Library of Medicine; National Institute of Allergy and Infectious Diseases; National Institute of General Medical Sciences; Canadian Institutes of Health Research; Office of Science; Ontario Genomics; National Institutes of Health; National Center for Research Resources; Novartis Pharma; Ontario Genomics Institute; National Cancer Institute; European Federation of Pharmaceutical Industries and Associations; Wellcome Trust; Fundação de Amparo à Pesquisa do Estado de São Paulo; Genome Canada; University of Chicago; Pfizer; Argonne National Laboratory; U.S. Department of Energy","keywords":"AP site; DNA; DNA clamp; Biology; HMG-box; Duplex (building); DNA replication; Replication protein A; DNA ligase; DNA damage; DNA repair; Base pair; Chemistry; Biochemistry; Biophysics; DNA-binding protein; Reverse transcriptase; RNA; Gene; Transcription factor","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.00006997298,0.0002804874,0.0002769742,0.00009256117,0.00005368026,0.00001577736,0.0001782019,0.0004144724,0.00008016615],"category_scores_gemma":[0.00004941177,0.0002136891,0.000108177,0.0001171023,0.0001555172,0.00001211491,0.0001058468,0.0003457453,0.000004167716],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001612062,"about_ca_system_score_gemma":0.00004163698,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002589634,"about_ca_topic_score_gemma":0.00005235439,"domain_scores_codex":[0.9986599,0.0001225688,0.0002419614,0.0005744103,0.0001162631,0.0002848785],"domain_scores_gemma":[0.999172,0.00001693004,0.0001956544,0.0003483831,0.0001867356,0.00008033643],"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":[0.0002434429,0.000005879543,0.003777033,0.00003498376,0.0001491742,0.000004931773,0.00003164968,0.00001255591,0.9898065,0.0006255992,0.00001290569,0.005295371],"study_design_scores_gemma":[0.000860004,0.00070083,0.01343097,0.0000298405,0.00005276072,0.00018848,0.00008773376,0.0001310254,0.9823684,0.001573451,0.0002782499,0.0002983229],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9978481,0.0006233034,0.0001182418,0.0001505674,0.0004556651,0.0003733307,0.0001102378,0.00002240307,0.0002981727],"genre_scores_gemma":[0.9963681,0.00002673982,0.002654603,0.0002276159,0.00007782375,0.00001245717,0.0005145768,0.00002985182,0.00008829823],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.009653936,"threshold_uncertainty_score":0.871399,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005245630150452825,"score_gpt":0.264655769057158,"score_spread":0.2594101389067052,"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."}}