{"id":"W2056176287","doi":"10.1110/ps.073105408","title":"Side chain burial and hydrophobic core packing in protein folding transition states","year":2008,"lang":"en","type":"article","venue":"Protein Science","topic":"Protein Structure and Dynamics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":15,"is_retracted":false,"has_abstract":true,"ca_institutions":"McGill University","funders":"","keywords":"Side chain; Folding (DSP implementation); Folding funnel; Protein folding; Contact order; Lattice protein; Chemistry; Phi value analysis; Native state; Chemical physics; Globular protein; Downhill folding; Hydrophobic effect; Crystallography; Chain (unit); Limiting; Biophysics; Physics; Biology; Biochemistry; Organic chemistry; Polymer","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":[0.0007295531,0.000437437,0.0004832394,0.000470949,0.0005514175,0.0009157599,0.0004141793,0.0007954604,0.000629242],"category_scores_gemma":[0.002761286,0.0004697489,0.0004789547,0.0002938039,0.001366114,0.00191764,0.0007790271,0.0008094087,0.0002152472],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0005713954,"about_ca_system_score_gemma":0.0003069025,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005532704,"about_ca_topic_score_gemma":0.0004718452,"domain_scores_codex":[0.9997973,0.00005887434,0.00001322203,0.00005215569,0.00003477003,0.00004362129],"domain_scores_gemma":[0.9985019,0.0007438809,0.0003961928,0.0001237237,0.00006457211,0.0001698693],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.001133103,0.0003398533,0.01996059,0.0002807644,0.0001211024,0.00114679,0.0007037903,0.5799796,0.3147824,0.06375673,0.0005235737,0.01727165],"study_design_scores_gemma":[0.00007638431,0.0005487437,0.01396289,0.00002108567,0.00005428616,0.000425508,0.0001319336,0.8718756,0.03905635,0.07318643,0.0005751009,0.00008568828],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9810032,0.0005831703,0.01728729,0.0001417394,0.0000124691,0.000008012003,0.00002080174,0.0001025384,0.000840847],"genre_scores_gemma":[0.9987642,0.0001691158,0.0008679477,0.00001483719,0.000006010934,0.000008320965,0.0000216812,0.00001440383,0.000133617],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0009157599,"threshold_uncertainty_score":0.004145801,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0112129525072155,"score_gpt":0.2406726126486498,"score_spread":0.2294596601414343,"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."}}