{"id":"W2806750972","doi":"10.1101/338061","title":"Crystal structure of the MBD domain of MBD3 in complex with methylated CG DNA","year":2018,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Epigenetics and DNA Methylation","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Structural Genomics Consortium; University of Toronto","funders":"Ontario Ministry of Research, Innovation and Science; Ontario Genomics; Fundação de Amparo à Pesquisa do Estado de São Paulo; Genome Canada; Biological and Environmental Research; National Natural Science Foundation of China; University of Chicago; Pfizer; Novartis Pharma; Ontario Genomics Institute; European Federation of Pharmaceutical Industries and Associations; Merck KGaA; Argonne National Laboratory; U.S. Department of Energy","keywords":"DNA; DNA methylation; Biology; DNA-binding domain; Binding site; Molecular biology; Chemistry; Genetics; Gene; Gene expression; 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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0002318794,0.0003906921,0.0005780763,0.0002605794,0.0006665508,0.0005646023,0.0008844298,0.0004773051,0.002229463],"category_scores_gemma":[0.0004925358,0.0002513878,0.0002880781,0.0004646243,0.0003444118,0.0002186647,0.0003693494,0.001446963,0.0003251617],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.001731359,"about_ca_system_score_gemma":0.0006656278,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.008585591,"about_ca_topic_score_gemma":0.006500672,"domain_scores_codex":[0.999818,0.00001729677,0.000007974842,0.00004220056,0.00007635451,0.00003814499],"domain_scores_gemma":[0.9998502,0.00004719121,0.00002327515,0.000006824366,0.00002691943,0.00004565291],"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":[0.002295946,0.0008803664,0.0211109,0.0009319963,0.0003057217,0.003182796,0.0008091145,0.006663447,0.9352583,0.003425568,0.01066941,0.01446643],"study_design_scores_gemma":[0.0008735567,0.0006206058,0.09247406,0.0001850622,0.0002914207,0.002160766,0.001068775,0.1425468,0.7139422,0.001658262,0.04400148,0.0001769708],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.989329,0.002157482,0.002678223,0.0005730221,0.0001091165,0.00003248598,0.002238443,0.0001890213,0.002693175],"genre_scores_gemma":[0.9865046,0.001082359,0.004329176,0.0002612856,0.00002646406,0.00004744237,0.00544077,0.00007009495,0.00223781],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.008585591,"threshold_uncertainty_score":0.01707125,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0100862049918226,"score_gpt":0.2211323145428867,"score_spread":0.2110461095510641,"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."}}