data_8T5O # _entry.id 8T5O # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.402 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8T5O pdb_00008t5o 10.2210/pdb8t5o/pdb WWPDB D_1000274794 ? ? EMDB EMD-41059 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2025-02-19 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8T5O _pdbx_database_status.recvd_initial_deposition_date 2023-06-14 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type PDB 'crystal structure of device' 8SYK unspecified EMDB 'Cryo-EM structure of RNA device 43 full-length, holo state' EMD-41059 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email wangyunx@mail.nih.gov _pdbx_contact_author.name_first Yun-Xing _pdbx_contact_author.name_last Wang _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-2175-0148 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Stagno, J.R.' 1 0000-0002-6464-7829 'Deme, J.C.' 2 0000-0001-8811-9871 'Lee, Y.-T.' 3 0000-0001-8123-6207 'Wang, Y.-X.' 4 0000-0002-2175-0148 'Lea, S.M.' 5 0000-0001-9287-8053 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Cryo-EM structure of RNA device 43 full-length, holo state' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Stagno, J.R.' 1 0000-0002-6464-7829 primary 'Deme, J.C.' 2 0000-0001-8811-9871 primary 'Lee, Y.-T.' 3 0000-0001-8123-6207 primary 'Wang, Y.-X.' 4 0000-0002-2175-0148 primary 'Lea, S.M.' 5 0000-0001-9287-8053 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn 'RNA Device 43' 40005.895 1 ? ? ? ? 2 non-polymer syn TETRACYCLINE 444.435 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 15 ? ? ? ? 4 water nat water 18.015 2 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;GUGAGGUGCAGGUACAUCCAGCUGAUGAGUCCCAAAUAGGACAAAAAGGGAGAGGUGAAGAAUACGACCACCUAGGCUCG AAAGAGCCUAAAACAUACCUUUCCUGGAUUCCACUGCUAUCCAC ; _entity_poly.pdbx_seq_one_letter_code_can ;GUGAGGUGCAGGUACAUCCAGCUGAUGAGUCCCAAAUAGGACAAAAAGGGAGAGGUGAAGAAUACGACCACCUAGGCUCG AAAGAGCCUAAAACAUACCUUUCCUGGAUUCCACUGCUAUCCAC ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 TETRACYCLINE TAC 3 'MAGNESIUM ION' MG 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 U n 1 3 G n 1 4 A n 1 5 G n 1 6 G n 1 7 U n 1 8 G n 1 9 C n 1 10 A n 1 11 G n 1 12 G n 1 13 U n 1 14 A n 1 15 C n 1 16 A n 1 17 U n 1 18 C n 1 19 C n 1 20 A n 1 21 G n 1 22 C n 1 23 U n 1 24 G n 1 25 A n 1 26 U n 1 27 G n 1 28 A n 1 29 G n 1 30 U n 1 31 C n 1 32 C n 1 33 C n 1 34 A n 1 35 A n 1 36 A n 1 37 U n 1 38 A n 1 39 G n 1 40 G n 1 41 A n 1 42 C n 1 43 A n 1 44 A n 1 45 A n 1 46 A n 1 47 A n 1 48 G n 1 49 G n 1 50 G n 1 51 A n 1 52 G n 1 53 A n 1 54 G n 1 55 G n 1 56 U n 1 57 G n 1 58 A n 1 59 A n 1 60 G n 1 61 A n 1 62 A n 1 63 U n 1 64 A n 1 65 C n 1 66 G n 1 67 A n 1 68 C n 1 69 C n 1 70 A n 1 71 C n 1 72 C n 1 73 U n 1 74 A n 1 75 G n 1 76 G n 1 77 C n 1 78 U n 1 79 C n 1 80 G n 1 81 A n 1 82 A n 1 83 A n 1 84 G n 1 85 A n 1 86 G n 1 87 C n 1 88 C n 1 89 U n 1 90 A n 1 91 A n 1 92 A n 1 93 A n 1 94 C n 1 95 A n 1 96 U n 1 97 A n 1 98 C n 1 99 C n 1 100 U n 1 101 U n 1 102 U n 1 103 C n 1 104 C n 1 105 U n 1 106 G n 1 107 G n 1 108 A n 1 109 U n 1 110 U n 1 111 C n 1 112 C n 1 113 A n 1 114 C n 1 115 U n 1 116 G n 1 117 C n 1 118 U n 1 119 A n 1 120 U n 1 121 C n 1 122 C n 1 123 A n 1 124 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 124 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 TAC non-polymer . TETRACYCLINE ? 'C22 H24 N2 O8' 444.435 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 G 1 1 ? ? ? A . n A 1 2 U 2 2 ? ? ? A . n A 1 3 G 3 3 ? ? ? A . n A 1 4 A 4 4 ? ? ? A . n A 1 5 G 5 5 5 G G A . n A 1 6 G 6 6 6 G G A . n A 1 7 U 7 7 7 U U A . n A 1 8 G 8 8 8 G G A . n A 1 9 C 9 9 9 C C A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 G 12 12 12 G G A . n A 1 13 U 13 13 13 U U A . n A 1 14 A 14 14 14 A A A . n A 1 15 C 15 15 15 C C A . n A 1 16 A 16 16 16 A A A . n A 1 17 U 17 17 17 U U A . n A 1 18 C 18 18 18 C C A . n A 1 19 C 19 19 19 C C A . n A 1 20 A 20 20 20 A A A . n A 1 21 G 21 21 21 G G A . n A 1 22 C 22 22 22 C C A . n A 1 23 U 23 23 23 U U A . n A 1 24 G 24 24 24 G G A . n A 1 25 A 25 25 25 A A A . n A 1 26 U 26 26 26 U U A . n A 1 27 G 27 27 27 G G A . n A 1 28 A 28 28 28 A A A . n A 1 29 G 29 29 29 G G A . n A 1 30 U 30 30 30 U U A . n A 1 31 C 31 31 31 C C A . n A 1 32 C 32 32 32 C C A . n A 1 33 C 33 33 33 C C A . n A 1 34 A 34 34 34 A A A . n A 1 35 A 35 35 35 A A A . n A 1 36 A 36 36 36 A A A . n A 1 37 U 37 37 37 U U A . n A 1 38 A 38 38 38 A A A . n A 1 39 G 39 39 39 G G A . n A 1 40 G 40 40 40 G G A . n A 1 41 A 41 41 41 A A A . n A 1 42 C 42 42 42 C C A . n A 1 43 A 43 43 43 A A A . n A 1 44 A 44 44 44 A A A . n A 1 45 A 45 45 45 A A A . n A 1 46 A 46 46 46 A A A . n A 1 47 A 47 47 47 A A A . n A 1 48 G 48 48 48 G G A . n A 1 49 G 49 49 49 G G A . n A 1 50 G 50 50 50 G G A . n A 1 51 A 51 51 51 A A A . n A 1 52 G 52 52 52 G G A . n A 1 53 A 53 53 53 A A A . n A 1 54 G 54 54 54 G G A . n A 1 55 G 55 55 55 G G A . n A 1 56 U 56 56 56 U U A . n A 1 57 G 57 57 57 G G A . n A 1 58 A 58 58 58 A A A . n A 1 59 A 59 59 59 A A A . n A 1 60 G 60 60 60 G G A . n A 1 61 A 61 61 61 A A A . n A 1 62 A 62 62 62 A A A . n A 1 63 U 63 63 63 U U A . n A 1 64 A 64 64 64 A A A . n A 1 65 C 65 65 65 C C A . n A 1 66 G 66 66 66 G G A . n A 1 67 A 67 67 67 A A A . n A 1 68 C 68 68 68 C C A . n A 1 69 C 69 69 69 C C A . n A 1 70 A 70 70 70 A A A . n A 1 71 C 71 71 71 C C A . n A 1 72 C 72 72 72 C C A . n A 1 73 U 73 73 73 U U A . n A 1 74 A 74 74 74 A A A . n A 1 75 G 75 75 75 G G A . n A 1 76 G 76 76 76 G G A . n A 1 77 C 77 77 77 C C A . n A 1 78 U 78 78 78 U U A . n A 1 79 C 79 79 79 C C A . n A 1 80 G 80 80 80 G G A . n A 1 81 A 81 81 81 A A A . n A 1 82 A 82 82 82 A A A . n A 1 83 A 83 83 83 A A A . n A 1 84 G 84 84 84 G G A . n A 1 85 A 85 85 85 A A A . n A 1 86 G 86 86 86 G G A . n A 1 87 C 87 87 87 C C A . n A 1 88 C 88 88 88 C C A . n A 1 89 U 89 89 89 U U A . n A 1 90 A 90 90 90 A A A . n A 1 91 A 91 91 91 A A A . n A 1 92 A 92 92 92 A A A . n A 1 93 A 93 93 93 A A A . n A 1 94 C 94 94 94 C C A . n A 1 95 A 95 95 95 A A A . n A 1 96 U 96 96 96 U U A . n A 1 97 A 97 97 97 A A A . n A 1 98 C 98 98 98 C C A . n A 1 99 C 99 99 99 C C A . n A 1 100 U 100 100 100 U U A . n A 1 101 U 101 101 101 U U A . n A 1 102 U 102 102 102 U U A . n A 1 103 C 103 103 103 C C A . n A 1 104 C 104 104 104 C C A . n A 1 105 U 105 105 105 U U A . n A 1 106 G 106 106 106 G G A . n A 1 107 G 107 107 107 G G A . n A 1 108 A 108 108 108 A A A . n A 1 109 U 109 109 109 U U A . n A 1 110 U 110 110 110 U U A . n A 1 111 C 111 111 111 C C A . n A 1 112 C 112 112 112 C C A . n A 1 113 A 113 113 ? ? ? A . n A 1 114 C 114 114 ? ? ? A . n A 1 115 U 115 115 115 U U A . n A 1 116 G 116 116 116 G G A . n A 1 117 C 117 117 117 C C A . n A 1 118 U 118 118 ? ? ? A . n A 1 119 A 119 119 ? ? ? A . n A 1 120 U 120 120 ? ? ? A . n A 1 121 C 121 121 ? ? ? A . n A 1 122 C 122 122 ? ? ? A . n A 1 123 A 123 123 ? ? ? A . n A 1 124 C 124 124 ? ? ? A . n # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id TAC _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id TAC _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 TAC 1 301 301 TAC TAC A . C 3 MG 1 302 1 MG MG A . D 3 MG 1 303 2 MG MG A . E 3 MG 1 304 3 MG MG A . F 3 MG 1 305 4 MG MG A . G 3 MG 1 306 5 MG MG A . H 3 MG 1 307 6 MG MG A . I 3 MG 1 308 7 MG MG A . J 3 MG 1 309 8 MG MG A . K 3 MG 1 310 9 MG MG A . L 3 MG 1 311 10 MG MG A . M 3 MG 1 312 11 MG MG A . N 3 MG 1 313 12 MG MG A . O 3 MG 1 314 13 MG MG A . P 3 MG 1 315 14 MG MG A . Q 3 MG 1 316 15 MG MG A . R 4 HOH 1 401 2 HOH HOH A . R 4 HOH 2 402 1 HOH HOH A . # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8T5O _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB ? _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8T5O _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 8T5O _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 89.71 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8T5O _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high . _refine.ls_d_res_low ? _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work ? _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method NONE _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id ? _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.0022 ? 2698 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.3543 ? 4205 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.0244 ? 561 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.0014 ? 119 ? f_plane_restr ? ? 'ELECTRON MICROSCOPY' ? 17.2866 ? 1343 ? f_dihedral_angle_d ? ? # _struct.entry_id 8T5O _struct.title 'Cryo-EM structure of RNA device 43, holo state' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8T5O _struct_keywords.text 'RNA device, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 3 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 3 ? J N N 3 ? K N N 3 ? L N N 3 ? M N N 3 ? N N N 3 ? O N N 3 ? P N N 3 ? Q N N 3 ? R N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8T5O _struct_ref.pdbx_db_accession 8T5O _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8T5O _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 124 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8T5O _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 124 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 124 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'electron microscopy' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? A A 35 "O2'" ? ? ? 1_555 F MG . MG ? ? A A 35 A MG 305 1_555 ? ? ? ? ? ? ? 2.931 ? ? metalc2 metalc ? ? A G 52 O6 ? ? ? 1_555 L MG . MG ? ? A G 52 A MG 311 1_555 ? ? ? ? ? ? ? 1.962 ? ? metalc3 metalc ? ? A A 53 OP1 ? ? ? 1_555 D MG . MG ? ? A A 53 A MG 303 1_555 ? ? ? ? ? ? ? 1.947 ? ? metalc4 metalc ? ? A A 53 OP2 ? ? ? 1_555 D MG . MG ? ? A A 53 A MG 303 1_555 ? ? ? ? ? ? ? 2.101 ? ? metalc5 metalc ? ? A A 53 "O5'" ? ? ? 1_555 D MG . MG ? ? A A 53 A MG 303 1_555 ? ? ? ? ? ? ? 2.678 ? ? metalc6 metalc ? ? A A 53 OP1 ? ? ? 1_555 M MG . MG ? ? A A 53 A MG 312 1_555 ? ? ? ? ? ? ? 2.590 ? ? metalc7 metalc ? ? A G 54 OP2 ? ? ? 1_555 D MG . MG ? ? A G 54 A MG 303 1_555 ? ? ? ? ? ? ? 2.962 ? ? metalc8 metalc ? ? A G 54 OP2 ? ? ? 1_555 M MG . MG ? ? A G 54 A MG 312 1_555 ? ? ? ? ? ? ? 2.289 ? ? metalc9 metalc ? ? A G 60 OP2 ? ? ? 1_555 Q MG . MG ? ? A G 60 A MG 316 1_555 ? ? ? ? ? ? ? 2.538 ? ? metalc10 metalc ? ? A G 66 OP2 ? ? ? 1_555 C MG . MG ? ? A G 66 A MG 302 1_555 ? ? ? ? ? ? ? 1.957 ? ? metalc11 metalc ? ? A A 91 OP1 ? ? ? 1_555 K MG . MG ? ? A A 91 A MG 310 1_555 ? ? ? ? ? ? ? 2.266 ? ? metalc12 metalc ? ? A A 91 OP2 ? ? ? 1_555 K MG . MG ? ? A A 91 A MG 310 1_555 ? ? ? ? ? ? ? 1.870 ? ? metalc13 metalc ? ? A A 91 "O5'" ? ? ? 1_555 K MG . MG ? ? A A 91 A MG 310 1_555 ? ? ? ? ? ? ? 2.975 ? ? metalc14 metalc ? ? B TAC . O11 ? ? ? 1_555 C MG . MG ? ? A TAC 301 A MG 302 1_555 ? ? ? ? ? ? ? 1.900 ? ? metalc15 metalc ? ? B TAC . O12 ? ? ? 1_555 C MG . MG ? ? A TAC 301 A MG 302 1_555 ? ? ? ? ? ? ? 1.818 ? ? metalc16 metalc ? ? D MG . MG ? ? ? 1_555 R HOH . O ? ? A MG 303 A HOH 402 1_555 ? ? ? ? ? ? ? 1.823 ? ? metalc17 metalc ? ? K MG . MG ? ? ? 1_555 R HOH . O ? ? A MG 310 A HOH 402 1_555 ? ? ? ? ? ? ? 2.438 ? ? metalc18 metalc ? ? M MG . MG ? ? ? 1_555 R HOH . O ? ? A MG 312 A HOH 401 1_555 ? ? ? ? ? ? ? 1.890 ? ? metalc19 metalc ? ? M MG . MG ? ? ? 1_555 R HOH . O ? ? A MG 312 A HOH 402 1_555 ? ? ? ? ? ? ? 1.828 ? ? hydrog1 hydrog ? ? A U 7 O4 ? ? ? 1_555 A C 117 N4 ? ? A U 7 A C 117 1_555 ? ? ? ? ? ? 'U-C MISPAIR' ? ? ? hydrog2 hydrog ? ? A G 8 N1 ? ? ? 1_555 A C 117 O2 ? ? A G 8 A C 117 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog3 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 116 N1 ? ? A C 9 A G 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 116 O6 ? ? A C 9 A G 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 116 N2 ? ? A C 9 A G 116 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A A 10 N6 ? ? ? 1_555 A U 115 O2 ? ? A A 10 A U 115 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog7 hydrog ? ? A G 11 O6 ? ? ? 1_555 A C 112 N4 ? ? A G 11 A C 112 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog8 hydrog ? ? A G 12 N1 ? ? ? 1_555 A C 111 N3 ? ? A G 12 A C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 12 N2 ? ? ? 1_555 A C 111 O2 ? ? A G 12 A C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 12 O6 ? ? ? 1_555 A C 111 N4 ? ? A G 12 A C 111 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 13 N3 ? ? ? 1_555 A A 35 N7 ? ? A U 13 A A 35 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog12 hydrog ? ? A U 13 O2 ? ? ? 1_555 A A 35 N6 ? ? A U 13 A A 35 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog13 hydrog ? ? A C 15 N4 ? ? ? 1_555 A C 33 O2 ? ? A C 15 A C 33 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog14 hydrog ? ? A C 15 O2 ? ? ? 1_555 A C 33 N4 ? ? A C 15 A C 33 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog15 hydrog ? ? A A 16 N1 ? ? ? 1_555 A U 109 N3 ? ? A A 16 A U 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 16 N6 ? ? ? 1_555 A U 109 O4 ? ? A A 16 A U 109 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A U 17 N3 ? ? ? 1_555 A A 108 N1 ? ? A U 17 A A 108 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A U 17 O4 ? ? ? 1_555 A A 108 N6 ? ? A U 17 A A 108 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 18 N4 ? ? ? 1_555 A G 107 O6 ? ? A C 18 A G 107 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog20 hydrog ? ? A C 19 O2 ? ? ? 1_555 A G 106 N2 ? ? A C 19 A G 106 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog21 hydrog ? ? A A 20 N1 ? ? ? 1_555 A U 105 N3 ? ? A A 20 A U 105 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A A 20 N6 ? ? ? 1_555 A U 105 O4 ? ? A A 20 A U 105 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 21 N1 ? ? ? 1_555 A C 104 N3 ? ? A G 21 A C 104 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 21 N2 ? ? ? 1_555 A C 104 O2 ? ? A G 21 A C 104 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 21 O6 ? ? ? 1_555 A C 104 N4 ? ? A G 21 A C 104 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 22 N3 ? ? ? 1_555 A G 27 N1 ? ? A C 22 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 22 N4 ? ? ? 1_555 A G 27 O6 ? ? A C 22 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 22 O2 ? ? ? 1_555 A G 27 N2 ? ? A C 22 A G 27 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 24 N2 ? ? ? 1_555 A A 45 N1 ? ? A G 24 A A 45 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog30 hydrog ? ? A A 28 N6 ? ? ? 1_555 A A 43 N3 ? ? A A 28 A A 43 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog31 hydrog ? ? A G 29 N1 ? ? ? 1_555 A C 42 N3 ? ? A G 29 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 29 N2 ? ? ? 1_555 A C 42 O2 ? ? A G 29 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 29 O6 ? ? ? 1_555 A C 42 N4 ? ? A G 29 A C 42 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A U 30 N3 ? ? ? 1_555 A A 41 N1 ? ? A U 30 A A 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A U 30 O4 ? ? ? 1_555 A A 41 N6 ? ? A U 30 A A 41 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 31 N3 ? ? ? 1_555 A G 40 N1 ? ? A C 31 A G 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 31 N4 ? ? ? 1_555 A G 40 O6 ? ? A C 31 A G 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 31 O2 ? ? ? 1_555 A G 40 N2 ? ? A C 31 A G 40 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 32 N3 ? ? ? 1_555 A G 39 N1 ? ? A C 32 A G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 32 N4 ? ? ? 1_555 A G 39 O6 ? ? A C 32 A G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A C 32 O2 ? ? ? 1_555 A G 39 N2 ? ? A C 32 A G 39 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A A 35 N3 ? ? ? 1_555 A U 37 N3 ? ? A A 35 A U 37 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog43 hydrog ? ? A U 37 N3 ? ? ? 1_555 A U 110 O2 ? ? A U 37 A U 110 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog44 hydrog ? ? A U 37 O4 ? ? ? 1_555 A U 110 N3 ? ? A U 37 A U 110 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog45 hydrog ? ? A A 38 N6 ? ? ? 1_555 A U 110 O2 ? ? A A 38 A U 110 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog46 hydrog ? ? A A 38 N7 ? ? ? 1_555 A U 110 N3 ? ? A A 38 A U 110 1_555 ? ? ? ? ? ? 'REVERSED HOOGSTEEN' ? ? ? hydrog47 hydrog ? ? A A 44 N6 ? ? ? 1_555 A C 103 O2 ? ? A A 44 A C 103 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog48 hydrog ? ? A A 45 N6 ? ? ? 1_555 A C 103 O2 ? ? A A 45 A C 103 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog49 hydrog ? ? A A 46 N1 ? ? ? 1_555 A U 102 N3 ? ? A A 46 A U 102 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog50 hydrog ? ? A A 46 N6 ? ? ? 1_555 A U 102 O4 ? ? A A 46 A U 102 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog51 hydrog ? ? A A 47 N1 ? ? ? 1_555 A U 101 N3 ? ? A A 47 A U 101 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog52 hydrog ? ? A A 47 N6 ? ? ? 1_555 A U 101 O4 ? ? A A 47 A U 101 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog53 hydrog ? ? A G 48 N1 ? ? ? 1_555 A U 100 O2 ? ? A G 48 A U 100 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog54 hydrog ? ? A G 48 O6 ? ? ? 1_555 A U 100 N3 ? ? A G 48 A U 100 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog55 hydrog ? ? A G 49 N1 ? ? ? 1_555 A C 99 N3 ? ? A G 49 A C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog56 hydrog ? ? A G 49 N2 ? ? ? 1_555 A C 99 O2 ? ? A G 49 A C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog57 hydrog ? ? A G 49 O6 ? ? ? 1_555 A C 99 N4 ? ? A G 49 A C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog58 hydrog ? ? A G 50 N1 ? ? ? 1_555 A C 98 N3 ? ? A G 50 A C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog59 hydrog ? ? A G 50 N2 ? ? ? 1_555 A C 98 O2 ? ? A G 50 A C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog60 hydrog ? ? A G 50 O6 ? ? ? 1_555 A C 98 N4 ? ? A G 50 A C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog61 hydrog ? ? A A 51 N1 ? ? ? 1_555 A A 97 N6 ? ? A A 51 A A 97 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog62 hydrog ? ? A G 52 N2 ? ? ? 1_555 A U 96 O4 ? ? A G 52 A U 96 1_555 ? ? ? ? ? ? 'G-U MISPAIR' ? ? ? hydrog63 hydrog ? ? A A 53 N1 ? ? ? 1_555 A A 93 N6 ? ? A A 53 A A 93 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog64 hydrog ? ? A A 53 N6 ? ? ? 1_555 A A 93 N7 ? ? A A 53 A A 93 1_555 ? ? ? ? ? ? TYPE_5_PAIR ? ? ? hydrog65 hydrog ? ? A G 54 N1 ? ? ? 1_555 A C 72 N3 ? ? A G 54 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog66 hydrog ? ? A G 54 N2 ? ? ? 1_555 A C 72 O2 ? ? A G 54 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog67 hydrog ? ? A G 54 O6 ? ? ? 1_555 A C 72 N4 ? ? A G 54 A C 72 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog68 hydrog ? ? A G 55 N1 ? ? ? 1_555 A C 71 N3 ? ? A G 55 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog69 hydrog ? ? A G 55 N2 ? ? ? 1_555 A C 71 O2 ? ? A G 55 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog70 hydrog ? ? A G 55 O6 ? ? ? 1_555 A C 71 N4 ? ? A G 55 A C 71 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog71 hydrog ? ? A U 56 N3 ? ? ? 1_555 A A 70 N1 ? ? A U 56 A A 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog72 hydrog ? ? A U 56 O4 ? ? ? 1_555 A A 70 N6 ? ? A U 56 A A 70 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog73 hydrog ? ? A G 57 N1 ? ? ? 1_555 A C 69 N3 ? ? A G 57 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog74 hydrog ? ? A G 57 N2 ? ? ? 1_555 A C 69 O2 ? ? A G 57 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog75 hydrog ? ? A G 57 O6 ? ? ? 1_555 A C 69 N4 ? ? A G 57 A C 69 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog76 hydrog ? ? A A 58 N1 ? ? ? 1_555 A C 68 N4 ? ? A A 58 A C 68 1_555 ? ? ? ? ? ? 'A-C MISPAIR' ? ? ? hydrog77 hydrog ? ? A A 64 N1 ? ? ? 1_555 A A 93 N6 ? ? A A 64 A A 93 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog78 hydrog ? ? A A 64 N6 ? ? ? 1_555 A A 93 N1 ? ? A A 64 A A 93 1_555 ? ? ? ? ? ? TYPE_1_PAIR ? ? ? hydrog79 hydrog ? ? A C 65 N4 ? ? ? 1_555 A C 94 O2 ? ? A C 65 A C 94 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog80 hydrog ? ? A C 65 O2 ? ? ? 1_555 A C 94 N4 ? ? A C 65 A C 94 1_555 ? ? ? ? ? ? TYPE_15_PAIR ? ? ? hydrog81 hydrog ? ? A G 66 O6 ? ? ? 1_555 A C 94 N4 ? ? A G 66 A C 94 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog82 hydrog ? ? A G 66 O6 ? ? ? 1_555 A A 95 N6 ? ? A G 66 A A 95 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog83 hydrog ? ? A U 73 N3 ? ? ? 1_555 A A 90 N1 ? ? A U 73 A A 90 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog84 hydrog ? ? A U 73 O4 ? ? ? 1_555 A A 90 N6 ? ? A U 73 A A 90 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog85 hydrog ? ? A A 74 N1 ? ? ? 1_555 A U 89 N3 ? ? A A 74 A U 89 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog86 hydrog ? ? A A 74 N6 ? ? ? 1_555 A U 89 O4 ? ? A A 74 A U 89 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog87 hydrog ? ? A G 75 N1 ? ? ? 1_555 A C 88 N3 ? ? A G 75 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog88 hydrog ? ? A G 75 N2 ? ? ? 1_555 A C 88 O2 ? ? A G 75 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog89 hydrog ? ? A G 75 O6 ? ? ? 1_555 A C 88 N4 ? ? A G 75 A C 88 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog90 hydrog ? ? A G 76 N1 ? ? ? 1_555 A C 87 N3 ? ? A G 76 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog91 hydrog ? ? A G 76 N2 ? ? ? 1_555 A C 87 O2 ? ? A G 76 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog92 hydrog ? ? A G 76 O6 ? ? ? 1_555 A C 87 N4 ? ? A G 76 A C 87 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog93 hydrog ? ? A C 77 N3 ? ? ? 1_555 A G 86 N1 ? ? A C 77 A G 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog94 hydrog ? ? A C 77 N4 ? ? ? 1_555 A G 86 O6 ? ? A C 77 A G 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog95 hydrog ? ? A C 77 O2 ? ? ? 1_555 A G 86 N2 ? ? A C 77 A G 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog96 hydrog ? ? A U 78 N3 ? ? ? 1_555 A A 85 N1 ? ? A U 78 A A 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog97 hydrog ? ? A U 78 O4 ? ? ? 1_555 A A 85 N6 ? ? A U 78 A A 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog98 hydrog ? ? A C 79 N3 ? ? ? 1_555 A G 84 N1 ? ? A C 79 A G 84 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog99 hydrog ? ? A G 80 N2 ? ? ? 1_555 A A 83 N7 ? ? A G 80 A A 83 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog100 hydrog ? ? A G 80 N3 ? ? ? 1_555 A A 83 N6 ? ? A G 80 A A 83 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 OP2 ? A A 53 ? A A 53 ? 1_555 78.1 ? 2 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 "O5'" ? A A 53 ? A A 53 ? 1_555 62.7 ? 3 OP2 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 "O5'" ? A A 53 ? A A 53 ? 1_555 60.9 ? 4 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 OP2 ? A G 54 ? A G 54 ? 1_555 77.1 ? 5 OP2 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 OP2 ? A G 54 ? A G 54 ? 1_555 134.3 ? 6 "O5'" ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 OP2 ? A G 54 ? A G 54 ? 1_555 73.6 ? 7 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 121.6 ? 8 OP2 ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 160.2 ? 9 "O5'" ? A A 53 ? A A 53 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 127.9 ? 10 OP2 ? A G 54 ? A G 54 ? 1_555 MG ? D MG . ? A MG 303 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 59.7 ? 11 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 OP2 ? A G 54 ? A G 54 ? 1_555 80.5 ? 12 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 O ? R HOH . ? A HOH 401 ? 1_555 63.9 ? 13 OP2 ? A G 54 ? A G 54 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 O ? R HOH . ? A HOH 401 ? 1_555 107.3 ? 14 OP1 ? A A 53 ? A A 53 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 94.7 ? 15 OP2 ? A G 54 ? A G 54 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 76.7 ? 16 O ? R HOH . ? A HOH 401 ? 1_555 MG ? M MG . ? A MG 312 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 156.5 ? 17 OP2 ? A G 66 ? A G 66 ? 1_555 MG ? C MG . ? A MG 302 ? 1_555 O11 ? B TAC . ? A TAC 301 ? 1_555 100.6 ? 18 OP2 ? A G 66 ? A G 66 ? 1_555 MG ? C MG . ? A MG 302 ? 1_555 O12 ? B TAC . ? A TAC 301 ? 1_555 172.3 ? 19 O11 ? B TAC . ? A TAC 301 ? 1_555 MG ? C MG . ? A MG 302 ? 1_555 O12 ? B TAC . ? A TAC 301 ? 1_555 72.0 ? 20 OP1 ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 OP2 ? A A 91 ? A A 91 ? 1_555 76.0 ? 21 OP1 ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 "O5'" ? A A 91 ? A A 91 ? 1_555 54.5 ? 22 OP2 ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 "O5'" ? A A 91 ? A A 91 ? 1_555 56.4 ? 23 OP1 ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 90.2 ? 24 OP2 ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 148.9 ? 25 "O5'" ? A A 91 ? A A 91 ? 1_555 MG ? K MG . ? A MG 310 ? 1_555 O ? R HOH . ? A HOH 402 ? 1_555 134.8 ? # _pdbx_entry_details.entry_id 8T5O _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.has_protein_modification N # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O4 A U 78 ? ? H61 A A 85 ? ? 1.60 2 1 "O2'" A U 63 ? ? OP2 A C 65 ? ? 2.03 3 1 N4 A C 79 ? ? O6 A G 84 ? ? 2.15 # _space_group_symop.id 1 _space_group_symop.operation_xyz x,y,z # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 8T5O _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol ? # _em_3d_reconstruction.entry_id 8T5O _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 2.98 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 369486 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 6.8 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Synthetic RNA device containing hammerhead ribozyme and tetracycline-binding aptamer' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 8T5O _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'TFS KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 500 _em_imaging.nominal_defocus_max 2000 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen ? # _em_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material GOLD _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R1.2/1.3' _em_sample_support.details '30 s, 30 mA on both sides' _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_vitrification.entry_id 8T5O _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 100 _em_vitrification.temp ? _em_vitrification.chamber_temperature 284 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 8T5O _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A G 1 ? A G 1 2 1 Y 1 A U 2 ? A U 2 3 1 Y 1 A G 3 ? A G 3 4 1 Y 1 A A 4 ? A A 4 5 1 Y 1 A A 113 ? A A 113 6 1 Y 1 A C 114 ? A C 114 7 1 Y 1 A U 118 ? A U 118 8 1 Y 1 A A 119 ? A A 119 9 1 Y 1 A U 120 ? A U 120 10 1 Y 1 A C 121 ? A C 121 11 1 Y 1 A C 122 ? A C 122 12 1 Y 1 A A 123 ? A A 123 13 1 Y 1 A C 124 ? A C 124 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 MG MG MG N N 114 TAC C1 C N N 115 TAC O1 O N N 116 TAC C2 C N N 117 TAC C21 C N N 118 TAC O21 O N N 119 TAC N21 N N N 120 TAC C3 C N N 121 TAC O3 O N N 122 TAC C4 C N S 123 TAC N4 N N N 124 TAC C42 C N N 125 TAC C43 C N N 126 TAC C41 C N S 127 TAC C5 C N N 128 TAC C51 C N S 129 TAC C6 C N S 130 TAC C62 C N N 131 TAC O6 O N N 132 TAC C61 C Y N 133 TAC C7 C Y N 134 TAC C8 C Y N 135 TAC C9 C Y N 136 TAC C10 C Y N 137 TAC O10 O N N 138 TAC C1A C Y N 139 TAC C11 C N N 140 TAC O11 O N N 141 TAC C1B C N N 142 TAC C12 C N N 143 TAC O12 O N N 144 TAC C1C C N S 145 TAC O1C O N N 146 TAC HN21 H N N 147 TAC HN22 H N N 148 TAC HO3 H N N 149 TAC H4 H N N 150 TAC H421 H N N 151 TAC H422 H N N 152 TAC H423 H N N 153 TAC H431 H N N 154 TAC H432 H N N 155 TAC H433 H N N 156 TAC H41 H N N 157 TAC H51A H N N 158 TAC H52 H N N 159 TAC H51 H N N 160 TAC H621 H N N 161 TAC H622 H N N 162 TAC H623 H N N 163 TAC HO6 H N N 164 TAC H7 H N N 165 TAC H8 H N N 166 TAC H9 H N N 167 TAC HO1 H N N 168 TAC HO2 H N N 169 TAC HOC H N N 170 U OP3 O N N 171 U P P N N 172 U OP1 O N N 173 U OP2 O N N 174 U "O5'" O N N 175 U "C5'" C N N 176 U "C4'" C N R 177 U "O4'" O N N 178 U "C3'" C N S 179 U "O3'" O N N 180 U "C2'" C N R 181 U "O2'" O N N 182 U "C1'" C N R 183 U N1 N N N 184 U C2 C N N 185 U O2 O N N 186 U N3 N N N 187 U C4 C N N 188 U O4 O N N 189 U C5 C N N 190 U C6 C N N 191 U HOP3 H N N 192 U HOP2 H N N 193 U "H5'" H N N 194 U "H5''" H N N 195 U "H4'" H N N 196 U "H3'" H N N 197 U "HO3'" H N N 198 U "H2'" H N N 199 U "HO2'" H N N 200 U "H1'" H N N 201 U H3 H N N 202 U H5 H N N 203 U H6 H N N 204 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 TAC C1 O1 doub N N 118 TAC C1 C2 sing N N 119 TAC C1 C1C sing N N 120 TAC C2 C21 sing N N 121 TAC C2 C3 doub N N 122 TAC C21 O21 doub N N 123 TAC C21 N21 sing N N 124 TAC N21 HN21 sing N N 125 TAC N21 HN22 sing N N 126 TAC C3 O3 sing N N 127 TAC C3 C4 sing N N 128 TAC O3 HO3 sing N N 129 TAC C4 N4 sing N N 130 TAC C4 C41 sing N N 131 TAC C4 H4 sing N N 132 TAC N4 C42 sing N N 133 TAC N4 C43 sing N N 134 TAC C42 H421 sing N N 135 TAC C42 H422 sing N N 136 TAC C42 H423 sing N N 137 TAC C43 H431 sing N N 138 TAC C43 H432 sing N N 139 TAC C43 H433 sing N N 140 TAC C41 C5 sing N N 141 TAC C41 C1C sing N N 142 TAC C41 H41 sing N N 143 TAC C5 C51 sing N N 144 TAC C5 H51A sing N N 145 TAC C5 H52 sing N N 146 TAC C51 C6 sing N N 147 TAC C51 C1B sing N N 148 TAC C51 H51 sing N N 149 TAC C6 C62 sing N N 150 TAC C6 O6 sing N N 151 TAC C6 C61 sing N N 152 TAC C62 H621 sing N N 153 TAC C62 H622 sing N N 154 TAC C62 H623 sing N N 155 TAC O6 HO6 sing N N 156 TAC C61 C7 doub Y N 157 TAC C61 C1A sing Y N 158 TAC C7 C8 sing Y N 159 TAC C7 H7 sing N N 160 TAC C8 C9 doub Y N 161 TAC C8 H8 sing N N 162 TAC C9 C10 sing Y N 163 TAC C9 H9 sing N N 164 TAC C10 O10 sing N N 165 TAC C10 C1A doub Y N 166 TAC O10 HO1 sing N N 167 TAC C1A C11 sing N N 168 TAC C11 O11 doub N N 169 TAC C11 C1B sing N N 170 TAC C1B C12 doub N N 171 TAC C12 O12 sing N N 172 TAC C12 C1C sing N N 173 TAC O12 HO2 sing N N 174 TAC C1C O1C sing N N 175 TAC O1C HOC sing N N 176 U OP3 P sing N N 177 U OP3 HOP3 sing N N 178 U P OP1 doub N N 179 U P OP2 sing N N 180 U P "O5'" sing N N 181 U OP2 HOP2 sing N N 182 U "O5'" "C5'" sing N N 183 U "C5'" "C4'" sing N N 184 U "C5'" "H5'" sing N N 185 U "C5'" "H5''" sing N N 186 U "C4'" "O4'" sing N N 187 U "C4'" "C3'" sing N N 188 U "C4'" "H4'" sing N N 189 U "O4'" "C1'" sing N N 190 U "C3'" "O3'" sing N N 191 U "C3'" "C2'" sing N N 192 U "C3'" "H3'" sing N N 193 U "O3'" "HO3'" sing N N 194 U "C2'" "O2'" sing N N 195 U "C2'" "C1'" sing N N 196 U "C2'" "H2'" sing N N 197 U "O2'" "HO2'" sing N N 198 U "C1'" N1 sing N N 199 U "C1'" "H1'" sing N N 200 U N1 C2 sing N N 201 U N1 C6 sing N N 202 U C2 O2 doub N N 203 U C2 N3 sing N N 204 U N3 C4 sing N N 205 U N3 H3 sing N N 206 U C4 O4 doub N N 207 U C4 C5 sing N N 208 U C5 C6 doub N N 209 U C5 H5 sing N N 210 U C6 H6 sing N N 211 # _em_admin.current_status REL _em_admin.deposition_date 2023-06-14 _em_admin.deposition_site RCSB _em_admin.entry_id 8T5O _em_admin.last_update 2025-02-19 _em_admin.map_release_date 2025-02-19 _em_admin.title 'Cryo-EM structure of RNA device 43, holo state' # loop_ _em_buffer_component.buffer_id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.id _em_buffer_component.name 1 10 mM ? 1 Bis-Tris 1 100 mM ? 2 'potassium chloride' 1 1 mM ? 3 'magnesium chloride' # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.units MEGADALTONS _em_entity_assembly_molwt.value 0.040229 # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 32630 _em_entity_assembly_naturalsource.organism 'synthetic construct' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 32630 _em_entity_assembly_recombinant.organism 'synthetic construct' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 50.9 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'FEI FALCON IV (4k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version 'PARTICLE SELECTION' ? 1 1 ? ? ? ? 'MODEL REFINEMENT' ? 2 ? ? ? PHENIX 1.21rc1_4924 'IMAGE ACQUISITION' ? 3 ? ? 1 ? ? MASKING ? 4 ? ? ? ? ? 'CTF CORRECTION' ? 5 1 ? ? ? ? 'LAYERLINE INDEXING' ? 6 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 7 ? ? ? ? ? 'MODEL FITTING' ? 8 ? ? ? ? ? OTHER ? 9 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? ? ? CLASSIFICATION ? 12 1 ? ? ? ? RECONSTRUCTION ? 13 1 ? ? ? ? 'VOLUME SELECTION' ? 14 1 1 1 ? ? 'SERIES ALIGNMENT' ? 15 1 1 1 ? ? 'MOLECULAR REPLACEMENT' ? 16 1 1 1 ? ? 'LATTICE DISTORTION CORRECTION' ? 17 1 1 1 ? ? 'SYMMETRY DETERMINATION' ? 18 1 1 1 ? ? 'CRYSTALLOGRAPHY MERGING' ? 19 1 1 1 ? ? # _em_specimen.concentration 1.5 _em_specimen.details 'in vitro transcribed RNA' _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8T5O 'double helix' 8T5O 'a-form double helix' 8T5O 'parallel strands' 8T5O 'hairpin loop' 8T5O tetraloop 8T5O 'mismatched base pair' 8T5O 'internal loop' 8T5O 'three-way junction' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 8 1_555 A C 117 1_555 -3.276 -1.011 0.638 17.379 -13.266 4.565 1 A_G8:C117_A A 8 ? A 117 ? ? ? 1 A C 9 1_555 A G 116 1_555 -0.194 -0.319 -0.356 21.120 -37.181 -16.421 2 A_C9:G116_A A 9 ? A 116 ? 19 1 1 A A 10 1_555 A U 115 1_555 -4.115 -0.596 -0.782 -13.791 -10.713 18.727 3 A_A10:U115_A A 10 ? A 115 ? ? ? 1 A G 11 1_555 A C 112 1_555 -2.309 -0.375 -0.259 -0.199 -16.330 -25.457 4 A_G11:C112_A A 11 ? A 112 ? ? 1 1 A G 12 1_555 A C 111 1_555 -0.355 -0.542 0.023 0.053 -18.607 -7.364 5 A_G12:C111_A A 12 ? A 111 ? 19 1 1 A U 13 1_555 A A 35 1_555 4.449 -1.895 -0.353 -5.512 -12.052 -97.271 6 A_U13:A35_A A 13 ? A 35 ? 24 4 1 A A 38 1_555 A U 110 1_555 -4.479 -2.761 1.186 8.494 28.948 -96.640 7 A_A38:U110_A A 38 ? A 110 ? 24 4 1 A A 16 1_555 A U 109 1_555 -0.328 -0.085 -0.291 8.083 -21.971 -0.690 8 A_A16:U109_A A 16 ? A 109 ? 20 1 1 A U 17 1_555 A A 108 1_555 -0.088 -0.444 -0.348 12.493 -20.745 -11.299 9 A_U17:A108_A A 17 ? A 108 ? 20 1 1 A C 18 1_555 A G 107 1_555 0.915 -0.602 -0.434 10.161 -41.396 -14.475 10 A_C18:G107_A A 18 ? A 107 ? ? 1 1 A C 19 1_555 A G 106 1_555 0.150 0.598 0.408 1.139 -26.844 0.343 11 A_C19:G106_A A 19 ? A 106 ? ? 1 1 A A 20 1_555 A U 105 1_555 -0.413 -0.274 0.498 1.497 -8.206 -10.052 12 A_A20:U105_A A 20 ? A 105 ? 20 1 1 A G 21 1_555 A C 104 1_555 -0.049 -0.339 0.511 -11.738 -13.161 -3.556 13 A_G21:C104_A A 21 ? A 104 ? 19 1 1 A C 22 1_555 A G 27 1_555 0.780 -0.297 0.130 0.330 5.501 4.592 14 A_C22:G27_A A 22 ? A 27 ? 19 1 1 A A 64 1_555 A A 93 1_555 -1.707 -1.630 0.075 37.990 34.313 160.096 15 A_A64:A93_A A 64 ? A 93 ? 1 2 1 A C 65 1_555 A C 94 1_555 -1.597 -0.945 0.025 -9.045 -23.655 -179.228 16 A_C65:C94_A A 65 ? A 94 ? 15 2 1 A G 66 1_555 A A 95 1_555 2.706 -5.550 -1.158 10.062 13.918 136.986 17 A_G66:A95_A A 66 ? A 95 ? ? 3 1 A G 52 1_555 A U 96 1_555 4.881 0.167 -0.066 -15.481 -13.067 -43.785 18 A_G52:U96_A A 52 ? A 96 ? ? 1 1 A A 51 1_555 A A 97 1_555 1.828 1.532 -0.110 -18.440 -14.472 -9.696 19 A_A51:A97_A A 51 ? A 97 ? ? 1 1 A G 50 1_555 A C 98 1_555 -0.062 0.054 -0.018 -15.244 -24.141 -2.720 20 A_G50:C98_A A 50 ? A 98 ? 19 1 1 A G 49 1_555 A C 99 1_555 -0.368 -0.294 0.171 0.028 -17.135 3.270 21 A_G49:C99_A A 49 ? A 99 ? 19 1 1 A G 48 1_555 A U 100 1_555 -1.686 -0.107 0.052 3.257 -14.210 6.392 22 A_G48:U100_A A 48 ? A 100 ? 28 1 1 A A 47 1_555 A U 101 1_555 0.108 -0.301 0.230 7.171 -16.445 -3.739 23 A_A47:U101_A A 47 ? A 101 ? 20 1 1 A A 46 1_555 A U 102 1_555 0.341 0.011 0.619 -0.970 -6.064 -3.537 24 A_A46:U102_A A 46 ? A 102 ? 20 1 1 A A 45 1_555 A G 24 1_555 -4.413 3.105 -0.147 42.662 -45.678 79.796 25 A_A45:G24_A A 45 ? A 24 ? ? ? 1 A A 44 1_555 A C 103 1_555 -6.407 -3.165 -1.208 -18.647 -1.420 -46.013 26 A_A44:C103_A A 44 ? A 103 ? ? ? 1 A A 43 1_555 A A 28 1_555 6.584 -4.509 0.873 1.361 -15.786 -5.420 27 A_A43:A28_A A 43 ? A 28 ? ? 6 1 A C 42 1_555 A G 29 1_555 0.067 -0.356 0.158 8.805 -17.034 -4.592 28 A_C42:G29_A A 42 ? A 29 ? 19 1 1 A A 41 1_555 A U 30 1_555 0.434 -0.315 -0.070 -5.669 -15.720 -9.789 29 A_A41:U30_A A 41 ? A 30 ? 20 1 1 A G 40 1_555 A C 31 1_555 -0.772 -0.360 0.200 2.530 -14.523 5.189 30 A_G40:C31_A A 40 ? A 31 ? 19 1 1 A G 39 1_555 A C 32 1_555 0.332 0.106 -0.245 -3.617 -6.309 -14.854 31 A_G39:C32_A A 39 ? A 32 ? 19 1 1 A C 15 1_555 A C 33 1_555 2.077 2.167 0.195 7.665 3.221 171.140 32 A_C15:C33_A A 15 ? A 33 ? 15 2 1 A C 68 1_555 A A 58 1_555 -1.851 0.611 -0.285 30.567 -29.598 -3.250 33 A_C68:A58_A A 68 ? A 58 ? ? ? 1 A C 69 1_555 A G 57 1_555 0.443 -0.033 0.044 5.489 -25.165 -8.606 34 A_C69:G57_A A 69 ? A 57 ? 19 1 1 A A 70 1_555 A U 56 1_555 0.732 -0.034 0.505 -7.426 -24.459 0.043 35 A_A70:U56_A A 70 ? A 56 ? 20 1 1 A C 71 1_555 A G 55 1_555 0.530 -0.275 0.534 0.754 -17.975 1.145 36 A_C71:G55_A A 71 ? A 55 ? 19 1 1 A C 72 1_555 A G 54 1_555 0.834 -0.538 0.212 -1.279 -14.556 -6.691 37 A_C72:G54_A A 72 ? A 54 ? 19 1 1 A U 73 1_555 A A 90 1_555 0.367 -0.091 0.026 -3.031 -12.286 13.507 38 A_U73:A90_A A 73 ? A 90 ? 20 1 1 A A 74 1_555 A U 89 1_555 0.189 -0.279 0.318 -3.775 -14.424 3.852 39 A_A74:U89_A A 74 ? A 89 ? 20 1 1 A G 75 1_555 A C 88 1_555 -0.354 -0.285 0.233 -1.338 -16.436 1.778 40 A_G75:C88_A A 75 ? A 88 ? 19 1 1 A G 76 1_555 A C 87 1_555 -1.281 -0.354 0.296 -10.199 -11.351 -2.433 41 A_G76:C87_A A 76 ? A 87 ? 19 1 1 A C 77 1_555 A G 86 1_555 0.757 -0.139 0.535 0.755 -0.957 4.059 42 A_C77:G86_A A 77 ? A 86 ? 19 1 1 A U 78 1_555 A A 85 1_555 -1.067 -0.287 -1.220 25.309 -13.052 -15.273 43 A_U78:A85_A A 78 ? A 85 ? 20 1 1 A C 79 1_555 A G 84 1_555 0.324 -0.714 0.979 -7.959 34.287 -7.662 44 A_C79:G84_A A 79 ? A 84 ? ? 1 1 A G 80 1_555 A A 83 1_555 6.268 -4.002 0.706 31.424 19.011 -7.933 45 A_G80:A83_A A 80 ? A 83 ? 11 9 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 8 1_555 A C 117 1_555 A C 9 1_555 A G 116 1_555 -0.529 -0.956 3.130 0.633 6.130 46.043 -1.699 0.721 2.979 7.796 -0.804 46.431 1 AA_G8C9:G116C117_AA A 8 ? A 117 ? A 9 ? A 116 ? 1 A C 9 1_555 A G 116 1_555 A A 10 1_555 A U 115 1_555 2.663 -2.461 3.883 -2.332 24.759 22.216 -7.765 -4.983 0.621 48.639 4.581 33.229 2 AA_C9A10:U115G116_AA A 9 ? A 116 ? A 10 ? A 115 ? 1 A A 10 1_555 A U 115 1_555 A G 11 1_555 A C 112 1_555 0.039 -1.336 2.896 -8.648 6.536 44.728 -2.195 -0.691 2.635 8.442 11.170 45.957 3 AA_A10G11:C112U115_AA A 10 ? A 115 ? A 11 ? A 112 ? 1 A G 11 1_555 A C 112 1_555 A G 12 1_555 A C 111 1_555 0.946 -1.859 3.227 -5.548 4.361 43.923 -2.837 -1.734 2.905 5.785 7.361 44.458 4 AA_G11G12:C111C112_AA A 11 ? A 112 ? A 12 ? A 111 ? 1 A G 12 1_555 A C 111 1_555 A U 13 1_555 A A 35 1_555 -1.793 -2.241 3.351 2.453 6.065 93.047 -1.654 1.279 3.197 4.175 -1.688 93.224 5 AA_G12U13:A35C111_AA A 12 ? A 111 ? A 13 ? A 35 ? 1 A U 13 1_555 A A 35 1_555 A A 38 1_555 A U 110 1_555 3.852 -3.185 4.456 43.525 -73.673 -165.824 1.754 2.026 4.044 37.025 21.874 -169.608 6 AA_U13A38:U110A35_AA A 13 ? A 35 ? A 38 ? A 110 ? 1 A A 38 1_555 A U 110 1_555 A A 16 1_555 A U 109 1_555 1.825 -1.463 3.738 -11.428 18.110 82.825 -1.535 -1.635 3.201 13.491 8.514 85.063 7 AA_A38A16:U109U110_AA A 38 ? A 110 ? A 16 ? A 109 ? 1 A A 16 1_555 A U 109 1_555 A U 17 1_555 A A 108 1_555 -0.793 -1.382 3.108 -1.977 3.072 35.691 -2.658 1.022 3.020 4.996 3.216 35.871 8 AA_A16U17:A108U109_AA A 16 ? A 109 ? A 17 ? A 108 ? 1 A U 17 1_555 A A 108 1_555 A C 18 1_555 A G 107 1_555 -0.614 -1.614 3.507 -2.002 13.927 36.852 -4.038 0.675 2.771 21.109 3.034 39.360 9 AA_U17C18:G107A108_AA A 17 ? A 108 ? A 18 ? A 107 ? 1 A C 18 1_555 A G 107 1_555 A C 19 1_555 A G 106 1_555 -0.278 -1.980 3.549 -1.435 15.597 25.013 -6.971 0.263 2.005 32.286 2.971 29.446 10 AA_C18C19:G106G107_AA A 18 ? A 107 ? A 19 ? A 106 ? 1 A C 19 1_555 A G 106 1_555 A A 20 1_555 A U 105 1_555 -0.186 -1.830 3.069 -5.666 7.616 25.601 -5.529 -0.831 2.419 16.483 12.263 27.277 11 AA_C19A20:U105G106_AA A 19 ? A 106 ? A 20 ? A 105 ? 1 A A 20 1_555 A U 105 1_555 A G 21 1_555 A C 104 1_555 0.629 -2.024 3.519 0.697 10.439 39.093 -4.104 -0.832 2.917 15.270 -1.019 40.416 12 AA_A20G21:C104U105_AA A 20 ? A 105 ? A 21 ? A 104 ? 1 A G 21 1_555 A C 104 1_555 A C 22 1_555 A G 27 1_555 1.266 -0.305 3.460 8.059 9.692 35.288 -1.867 -0.817 3.458 15.395 -12.800 37.404 13 AA_G21C22:G27C104_AA A 21 ? A 104 ? A 22 ? A 27 ? 1 A A 64 1_555 A A 93 1_555 A C 65 1_555 A C 94 1_555 -0.127 0.477 3.279 -0.161 -7.837 -131.501 -0.206 -0.071 3.292 4.296 -0.088 -131.622 14 AA_A64C65:C94A93_AA A 64 ? A 93 ? A 65 ? A 94 ? 1 A C 65 1_555 A C 94 1_555 A G 66 1_555 A A 95 1_555 -3.855 0.591 2.863 -1.553 -13.736 -165.859 -0.276 -1.945 2.865 6.920 -0.783 -165.962 15 AA_C65G66:A95C94_AA A 65 ? A 94 ? A 66 ? A 95 ? 1 A G 66 1_555 A A 95 1_555 A G 52 1_555 A U 96 1_555 -2.198 -2.700 0.960 -168.364 40.726 53.150 -1.550 0.279 1.772 20.803 86.001 173.936 16 AA_G66G52:U96A95_AA A 66 ? A 95 ? A 52 ? A 96 ? 1 A G 52 1_555 A U 96 1_555 A A 51 1_555 A A 97 1_555 1.456 1.586 -3.369 -6.521 -15.113 -42.527 -3.286 2.416 -2.460 19.964 -8.614 -45.463 17 AA_G52A51:A97U96_AA A 52 ? A 96 ? A 51 ? A 97 ? 1 A A 51 1_555 A A 97 1_555 A G 50 1_555 A C 98 1_555 0.309 1.297 -3.270 -4.519 -7.552 -37.974 -2.822 0.989 -2.915 11.419 -6.833 -38.944 18 AA_A51G50:C98A97_AA A 51 ? A 97 ? A 50 ? A 98 ? 1 A G 50 1_555 A C 98 1_555 A G 49 1_555 A C 99 1_555 0.374 1.683 -3.587 -2.092 -7.697 -36.260 -3.719 0.879 -3.151 12.186 -3.312 -37.098 19 AA_G50G49:C99C98_AA A 50 ? A 98 ? A 49 ? A 99 ? 1 A G 49 1_555 A C 99 1_555 A G 48 1_555 A U 100 1_555 0.191 1.328 -3.366 3.416 -3.742 -35.749 -2.679 -0.180 -3.219 6.058 5.530 -36.095 20 AA_G49G48:U100C99_AA A 49 ? A 99 ? A 48 ? A 100 ? 1 A G 48 1_555 A U 100 1_555 A A 47 1_555 A U 101 1_555 -0.868 1.734 -3.176 1.465 -11.145 -26.227 -5.713 -2.051 -2.218 23.249 3.056 -28.495 21 AA_G48A47:U101U100_AA A 48 ? A 100 ? A 47 ? A 101 ? 1 A A 47 1_555 A U 101 1_555 A A 46 1_555 A U 102 1_555 0.154 1.129 -3.120 -1.939 -9.511 -30.051 -3.673 0.608 -2.634 17.770 -3.623 -31.545 22 AA_A47A46:U102U101_AA A 47 ? A 101 ? A 46 ? A 102 ? 1 A A 46 1_555 A U 102 1_555 A A 45 1_555 A G 24 1_555 -0.860 -2.387 -3.593 3.307 18.688 -89.548 2.055 -0.670 -3.135 -13.146 2.326 -91.118 23 AA_A46A45:G24U102_AA A 46 ? A 102 ? A 45 ? A 24 ? 1 A A 45 1_555 A G 24 1_555 A A 44 1_555 A C 103 1_555 -0.695 4.367 -1.974 28.203 -32.517 18.029 1.631 -2.503 -4.229 -51.620 -44.772 46.501 24 AA_A45A44:C103G24_AA A 45 ? A 24 ? A 44 ? A 103 ? 1 A A 44 1_555 A C 103 1_555 A A 43 1_555 A A 28 1_555 -0.235 1.244 -4.077 -13.587 0.902 -15.367 -2.981 7.106 -3.272 -2.765 -41.673 -20.505 25 AA_A44A43:A28C103_AA A 44 ? A 103 ? A 43 ? A 28 ? 1 A A 43 1_555 A A 28 1_555 A C 42 1_555 A G 29 1_555 -0.336 0.858 -3.693 0.302 -6.851 -65.392 -1.103 -0.323 -3.597 6.323 0.279 -65.711 26 AA_A43C42:G29A28_AA A 43 ? A 28 ? A 42 ? A 29 ? 1 A C 42 1_555 A G 29 1_555 A A 41 1_555 A U 30 1_555 -0.666 1.520 -2.931 -1.146 -3.227 -26.894 -3.954 -1.168 -2.758 6.903 -2.452 -27.107 27 AA_C42A41:U30G29_AA A 42 ? A 29 ? A 41 ? A 30 ? 1 A A 41 1_555 A U 30 1_555 A G 40 1_555 A C 31 1_555 0.820 1.689 -3.432 -2.310 -10.463 -41.626 -3.331 1.347 -2.897 14.437 -3.187 -42.924 28 AA_A41G40:C31U30_AA A 41 ? A 30 ? A 40 ? A 31 ? 1 A G 40 1_555 A C 31 1_555 A G 39 1_555 A C 32 1_555 -0.822 1.911 -3.026 4.299 -4.793 -22.372 -6.124 -3.283 -2.372 12.037 10.797 -23.268 29 AA_G40G39:C32C31_AA A 40 ? A 31 ? A 39 ? A 32 ? 1 A G 39 1_555 A C 32 1_555 A C 15 1_555 A C 33 1_555 2.542 2.247 -0.041 -79.621 153.257 -98.611 -1.025 1.324 -0.567 -77.410 -40.216 -175.246 30 AA_G39C15:C33C32_AA A 39 ? A 32 ? A 15 ? A 33 ? 1 A C 68 1_555 A A 58 1_555 A C 69 1_555 A G 57 1_555 -0.084 -1.469 3.813 -5.902 10.386 47.479 -2.663 -0.403 3.426 12.666 7.198 48.874 31 AA_C68C69:G57A58_AA A 68 ? A 58 ? A 69 ? A 57 ? 1 A C 69 1_555 A G 57 1_555 A A 70 1_555 A U 56 1_555 -0.249 -1.712 3.496 -4.334 16.800 30.325 -5.284 -0.209 2.279 29.297 7.558 34.836 32 AA_C69A70:U56G57_AA A 69 ? A 57 ? A 70 ? A 56 ? 1 A A 70 1_555 A U 56 1_555 A C 71 1_555 A G 55 1_555 -0.155 -1.555 3.079 -2.542 -3.345 29.883 -2.328 -0.204 3.232 -6.446 4.898 30.170 33 AA_A70C71:G55U56_AA A 70 ? A 56 ? A 71 ? A 55 ? 1 A C 71 1_555 A G 55 1_555 A C 72 1_555 A G 54 1_555 -0.135 -1.655 3.249 0.435 2.475 36.892 -2.935 0.271 3.134 3.905 -0.686 36.975 34 AA_C71C72:G54G55_AA A 71 ? A 55 ? A 72 ? A 54 ? 1 A C 72 1_555 A G 54 1_555 A U 73 1_555 A A 90 1_555 -1.205 -2.817 3.453 1.691 2.538 9.487 -20.584 9.846 2.368 14.849 -9.895 9.964 35 AA_C72U73:A90G54_AA A 72 ? A 54 ? A 73 ? A 90 ? 1 A U 73 1_555 A A 90 1_555 A A 74 1_555 A U 89 1_555 -0.554 -1.432 3.234 -2.412 11.345 30.686 -4.341 0.600 2.591 20.540 4.366 32.756 36 AA_U73A74:U89A90_AA A 73 ? A 90 ? A 74 ? A 89 ? 1 A A 74 1_555 A U 89 1_555 A G 75 1_555 A C 88 1_555 0.139 -1.366 3.087 0.647 7.862 30.268 -3.866 -0.149 2.659 14.743 -1.214 31.256 37 AA_A74G75:C88U89_AA A 74 ? A 89 ? A 75 ? A 88 ? 1 A G 75 1_555 A C 88 1_555 A G 76 1_555 A C 87 1_555 0.401 -2.251 3.249 -0.672 9.567 27.502 -6.323 -0.927 2.339 19.390 1.362 29.096 38 AA_G75G76:C87C88_AA A 75 ? A 88 ? A 76 ? A 87 ? 1 A G 76 1_555 A C 87 1_555 A C 77 1_555 A G 86 1_555 0.117 -1.363 2.978 -0.505 3.261 42.453 -2.171 -0.207 2.869 4.495 0.697 42.575 39 AA_G76C77:G86C87_AA A 76 ? A 87 ? A 77 ? A 86 ? 1 A C 77 1_555 A G 86 1_555 A U 78 1_555 A A 85 1_555 -0.757 -1.531 2.239 12.436 5.699 21.527 -4.405 3.751 1.193 13.629 -29.737 25.462 40 AA_C77U78:A85G86_AA A 77 ? A 86 ? A 78 ? A 85 ? 1 A U 78 1_555 A A 85 1_555 A C 79 1_555 A G 84 1_555 -0.294 -1.971 4.210 -19.305 28.314 49.987 -3.644 -0.846 2.778 29.841 20.346 59.977 41 AA_U78C79:G84A85_AA A 78 ? A 85 ? A 79 ? A 84 ? 1 A C 79 1_555 A G 84 1_555 A G 80 1_555 A A 83 1_555 -1.844 -0.756 1.750 3.292 -8.389 32.311 -0.569 3.489 1.696 -14.720 -5.777 33.512 42 AA_C79G80:A83G84_AA A 79 ? A 84 ? A 80 ? A 83 ? # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Cancer Institute (NIH/NCI)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _space_group.crystal_system triclinic _space_group.name_H-M_alt 'P 1' _space_group.IT_number 1 _space_group.name_Hall 'P 1' _space_group.id 1 # _atom_sites.entry_id 8T5O _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C H MG N O P # loop_ #