LlewynLuo/RNAmd-v1
RNAmd v1 RNAmd is a public dataset of standardized RNA molecular-dynamics simulations, RNA dynamic labels, quality-control summaries and benchmark-ready metadata for compact functional and structured RNAs. This Hugging Face Dataset repository is the core archival mirror for RNAmd v1. It mirrors the analysis-ready metadata, labels, QC summaries, protocol files, website index and RNA-only structures. The canonical RNAmd release server remains the primary access point for processed… See the full description on the dataset page: https://huggingface.co/datasets/LlewynLuo/RNAmd-v1.
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1{2 "contact_entropy_mean": "0.1006121368244766",3 "contact_persistence_mean": "0.2156862745098039",4 "dynamic_qc_status": "ready",5 "dynamics_preview_gif_path": "",6 "dynamics_preview_mp4_path": "visualizations/dynamics_preview/6SY4.mp4",7 "dynamics_preview_status": "ready",8 "family_group": "aptamer_25_49",9 "high_quality_flag": "yes",10 "label_8class": "aptamer",11 "md_simulation_status": "complete_100ns",12 "method": "X-ray diffraction",13 "original_main_type": "aptamer",14 "p_adaptability_mean": "2.521740972995758",15 "p_rmsf_mean": "2.536158813370599",16 "pdb_id": "6SY4",17 "primary_xtc_100ps_rna_only_path": "trajectories/primary_xtc_100ps_rna_only/6SY4.xtc",18 "primary_xtc_status": "ready",19 "priority_tier": "Tier1_core_functional",20 "resolution": "2.7",21 "rfam": "",22 "rg_mean": "3.076740545549637",23 "rmsd_mean": "3.8366172313690186",24 "rna_only_pdb_path": "structures/rna_only_pdb/6SY4.pdb",25 "rna_type": "aptamer",26 "rna_type_confidence": "high",27 "rna_type_evidence": "aptamer",28 "rna_type_source": "RNAmd source annotation",29 "sequence": "CGGAGAAUGUUAUGGCGCG",30 "size_nt": "37.0",31 "source_pdb_url": "https://www.rcsb.org/structure/6SY4",32 "standardized_name": "",33 "traj_frames_used": "10",34 "traj_failed": "0",35 "rmsd_std": "1.2784913778305054",36 "rmsd_max": "4.294533729553223",37 "rg_std": "0.0033529345697991",38 "rg_min": "3.069684275246363",39 "rg_max": "3.080809400340214",40 "conformational_variability": "1.2818443124003045",41 "contact_persistence_std": "0.3841836514570928",42 "contact_entropy_max": "0.9709505944546686",43 "misato_frames_used": "10.0",44 "misato_failed": "0.0",45 "misato_p_atom_count": "18.0",46 "p_adaptability_std": "0.6844785257995167",47 "p_adaptability_min": "1.640379548072815",48 "p_adaptability_q25": "2.034199595451355",49 "p_adaptability_median": "2.394232273101806",50 "p_adaptability_q75": "2.797293484210968",51 "p_adaptability_max": "4.506405353546143",52 "p_rmsf_std": "0.3040198215277394",53 "p_rmsf_min": "2.0376455783843994",54 "p_rmsf_q25": "2.3456627130508423",55 "p_rmsf_median": "2.584425210952759",56 "p_rmsf_q75": "2.723663330078125",57 "p_rmsf_max": "3.0495779514312744",58 "p_high_adapt_frac_0p2nm": "1.0",59 "p_high_adapt_frac_0p4nm": "1.0",60 "base_centroid_adaptability_mean": "3.6472697989375447",61 "base_centroid_adaptability_std": "0.6644101911256171",62 "base_centroid_adaptability_min": "1.213317632675171",63 "base_centroid_adaptability_q25": "3.167600989341736",64 "base_centroid_adaptability_median": "3.6135038137435913",65 "base_centroid_adaptability_q75": "4.087591528892517",66 "base_centroid_adaptability_max": "6.063984394073486",67 "adjacent_p_distance_std_mean": "0.5247217863798141",68 "adjacent_p_distance_std_std": "0.3703503180818837",69 "adjacent_p_distance_std_min": "0.0272864587604999",70 "adjacent_p_distance_std_q25": "0.1052329763770103",71 "adjacent_p_distance_std_median": "0.709663987159729",72 "adjacent_p_distance_std_q75": "0.8228160738945007",73 "adjacent_p_distance_std_max": "1.080342173576355",74 "adjacent_p_distance_mean": "0.862507700920105",75 "long_contact_persistence_mean": "0.0283333333333333",76 "long_contact_persistence_std": "0.1026184951924142",77 "long_contact_persistence_min": "0.0",78 "long_contact_persistence_q25": "0.0",79 "long_contact_persistence_median": "0.0",80 "long_contact_persistence_q75": "0.0",81 "long_contact_persistence_max": "0.7",82 "long_contact_switching_mean": "0.068",83 "long_contact_switching_std": "0.181151869987588",84 "long_contact_switching_min": "0.0",85 "long_contact_switching_q25": "0.0",86 "long_contact_switching_median": "0.0",87 "long_contact_switching_q75": "0.0",88 "long_contact_switching_max": "0.96",89 "long_contact_entropy_mean": "0.0821512880871787",90 "long_contact_entropy_max": "0.9709505944546686",91 "stable_long_contact_frac": "0.0",92 "transient_long_contact_frac": "0.025",93 "initial_long_contact_frac": "0.05",94 "lost_initial_contact_frac": "0.025",95 "gained_contact_frac": "0.0"96}97