data_7EDN # _entry.id 7EDN # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _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 7EDN pdb_00007edn 10.2210/pdb7edn/pdb WWPDB D_1300021225 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7EDN _pdbx_database_status.recvd_initial_deposition_date 2021-03-16 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _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_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kondo, J.' 1 0000-0002-5682-3685 'Suzuki, C.' 2 ? # _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 'Crystal structure of the eukaryotic decoding site in complex with Ag(I)' _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 'Kondo, J.' 1 0000-0002-5682-3685 primary 'Suzuki, C.' 2 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 102.350 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 7EDN _cell.details ? _cell.formula_units_Z ? _cell.length_a 51.176 _cell.length_a_esd ? _cell.length_b 28.102 _cell.length_b_esd ? _cell.length_c 37.711 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 4 _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 ? # _symmetry.entry_id 7EDN _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # 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 (5'-R(P*UP*GP*CP*GP*UP*CP*GP*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3') ; 7371.408 1 ? ? ? ? 2 non-polymer syn 'SILVER ION' 107.868 2 ? ? ? ? 3 non-polymer syn 'CALCIUM ION' 40.078 1 ? ? ? ? # _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 UUGCGUCGCGUCGACGAAGUCGC _entity_poly.pdbx_seq_one_letter_code_can UUGCGUCGCGUCGACGAAGUCGC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 U n 1 3 G n 1 4 C n 1 5 G n 1 6 U n 1 7 C n 1 8 G n 1 9 C n 1 10 G n 1 11 U n 1 12 C n 1 13 G n 1 14 A n 1 15 C n 1 16 G n 1 17 A n 1 18 A n 1 19 G n 1 20 U n 1 21 C n 1 22 G n 1 23 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 23 _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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 7EDN _struct_ref.pdbx_db_accession 7EDN _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 7EDN _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 23 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 7EDN _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 23 _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 23 # 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 AG non-polymer . 'SILVER ION' ? 'Ag 1' 107.868 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # _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 7EDN _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 1.80 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 31.54 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'MOPS, MPD, spermine, calcium nitrate, silver nitrate, G418' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 4M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2017-12-23 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.1 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-1A' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL-1A _diffrn_source.pdbx_synchrotron_site 'Photon Factory' # _reflns.B_iso_Wilson_estimate 64.023 _reflns.entry_id 7EDN _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.600 _reflns.d_resolution_low 36.840 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 3135 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.200 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.374 _reflns.pdbx_Rmerge_I_obs 0.107 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 6.880 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 1.053 _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.128 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 10577 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.983 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split 2.600 2.680 ? 2.490 ? ? ? ? 268 98.200 ? ? ? ? 0.328 ? ? ? ? ? ? ? ? 3.392 ? ? ? ? 0.389 ? ? 1 1 0.941 ? ? 2.680 2.770 ? 2.690 ? ? ? ? 254 100.000 ? ? ? ? 0.325 ? ? ? ? ? ? ? ? 3.480 ? ? ? ? 0.385 ? ? 2 1 0.925 ? ? 2.770 2.860 ? 3.550 ? ? ? ? 267 100.00 ? ? ? ? 0.255 ? ? ? ? ? ? ? ? 3.453 ? ? ? ? 0.302 ? ? 3 1 0.939 ? ? 2.860 2.970 ? 4.690 ? ? ? ? 236 97.100 ? ? ? ? 0.127 ? ? ? ? ? ? ? ? 3.432 ? ? ? ? 0.151 ? ? 4 1 0.996 ? ? 2.970 3.090 ? 5.470 ? ? ? ? 248 100.000 ? ? ? ? 0.138 ? ? ? ? ? ? ? ? 3.266 ? ? ? ? 0.167 ? ? 5 1 0.983 ? ? 3.090 3.230 ? 7.050 ? ? ? ? 226 99.600 ? ? ? ? 0.133 ? ? ? ? ? ? ? ? 2.969 ? ? ? ? 0.170 ? ? 6 1 0.976 ? ? 3.230 3.390 ? 6.840 ? ? ? ? 215 96.800 ? ? ? ? 0.115 ? ? ? ? ? ? ? ? 3.102 ? ? ? ? 0.142 ? ? 7 1 0.987 ? ? 3.390 3.570 ? 7.810 ? ? ? ? 206 100.000 ? ? ? ? 0.134 ? ? ? ? ? ? ? ? 3.194 ? ? ? ? 0.162 ? ? 8 1 0.974 ? ? 3.570 3.790 ? 8.170 ? ? ? ? 192 96.500 ? ? ? ? 0.121 ? ? ? ? ? ? ? ? 3.172 ? ? ? ? 0.149 ? ? 9 1 0.978 ? ? 3.790 4.050 ? 9.860 ? ? ? ? 191 100.0 ? ? ? ? 0.108 ? ? ? ? ? ? ? ? 3.461 ? ? ? ? 0.128 ? ? 10 1 0.992 ? ? 4.050 4.380 ? 10.290 ? ? ? ? 163 98.800 ? ? ? ? 0.096 ? ? ? ? ? ? ? ? 3.687 ? ? ? ? 0.111 ? ? 11 1 0.990 ? ? 4.380 4.790 ? 10.190 ? ? ? ? 175 100.00 ? ? ? ? 0.096 ? ? ? ? ? ? ? ? 3.549 ? ? ? ? 0.113 ? ? 12 1 0.984 ? ? 4.790 5.360 ? 10.370 ? ? ? ? 134 97.100 ? ? ? ? 0.112 ? ? ? ? ? ? ? ? 3.642 ? ? ? ? 0.132 ? ? 13 1 0.968 ? ? 5.360 6.190 ? 10.610 ? ? ? ? 130 100.000 ? ? ? ? 0.100 ? ? ? ? ? ? ? ? 3.662 ? ? ? ? 0.118 ? ? 14 1 0.977 ? ? 6.190 7.580 ? 10.540 ? ? ? ? 105 100.000 ? ? ? ? 0.081 ? ? ? ? ? ? ? ? 3.429 ? ? ? ? 0.097 ? ? 15 1 0.985 ? ? 7.580 10.720 ? 10.920 ? ? ? ? 80 98.800 ? ? ? ? 0.105 ? ? ? ? ? ? ? ? 3.562 ? ? ? ? 0.123 ? ? 16 1 0.980 ? ? 10.720 36.840 ? 10.530 ? ? ? ? 45 95.700 ? ? ? ? 0.084 ? ? ? ? ? ? ? ? 3.222 ? ? ? ? 0.102 ? ? 17 1 0.979 ? ? # _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 116.130 _refine.B_iso_mean 70.2578 _refine.B_iso_min 35.190 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details 'The SF file contains friedel pairs under F_plus and F_minus columns.' _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 7EDN _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 2.6000 _refine.ls_d_res_low 36.8400 _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 3095 _refine.ls_number_reflns_R_free 308 _refine.ls_number_reflns_R_work 2787 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.0400 _refine.ls_percent_reflns_R_free 9.9500 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1939 _refine.ls_R_factor_R_free 0.2518 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1877 _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 'FLAT BULK SOLVENT MODEL' _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 1.390 _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 THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 3td0 _refine.pdbx_stereochemistry_target_values ML _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 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 34.1100 _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 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.3500 _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 ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id final _refine_hist.details ? _refine_hist.d_res_high 2.6000 _refine_hist.d_res_low 36.8400 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 473 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total 22 _refine_hist.pdbx_B_iso_mean_ligand 83.51 _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 470 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 2.6000 3.2700 1538 . 156 1382 98.0000 . . . 0.3412 0.0000 0.2476 . . . . . . . 2 . . . 'X-RAY DIFFRACTION' 3.2800 36.8400 1557 . 152 1405 98.0000 . . . 0.2267 0.0000 0.1715 . . . . . . . 2 . . . # _struct.entry_id 7EDN _struct.title 'Crystal structure of the eukaryotic decoding site in complex with Ag(I)' _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 7EDN _struct_keywords.text 'Metal-mediated base pair, Silver, Decoding site, Ribosomal RNA, 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 2 ? D N N 3 ? # 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 U 6 N3 ? ? ? 1_555 C AG . AG ? ? A U 6 A AG 102 1_555 ? ? ? ? ? ? ? 1.985 ? ? metalc2 metalc ? ? A G 8 N7 ? ? ? 1_555 B AG . AG ? ? A G 8 A AG 101 2_955 ? ? ? ? ? ? ? 2.113 ? ? metalc3 metalc ? ? A A 17 N1 ? ? ? 1_555 B AG . AG ? ? A A 17 A AG 101 1_555 ? ? ? ? ? ? ? 2.144 ? ? metalc4 metalc ? ? A A 18 OP2 ? ? ? 1_555 D CA . CA ? ? A A 18 A CA 103 1_555 ? ? ? ? ? ? ? 2.346 ? ? metalc5 metalc ? ? A G 19 OP1 ? ? ? 1_555 D CA . CA ? ? A G 19 A CA 103 1_555 ? ? ? ? ? ? ? 2.344 ? ? metalc6 metalc ? ? A U 20 N3 ? ? ? 1_555 C AG . AG ? ? A U 20 A AG 102 2_955 ? ? ? ? ? ? ? 2.498 ? ? hydrog1 hydrog ? ? A G 3 N1 ? ? ? 1_555 A C 23 O2 ? ? A G 3 A C 23 2_955 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog2 hydrog ? ? A C 4 N3 ? ? ? 1_555 A G 22 N1 ? ? A C 4 A G 22 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 4 N4 ? ? ? 1_555 A G 22 O6 ? ? A C 4 A G 22 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 4 O2 ? ? ? 1_555 A G 22 N2 ? ? A C 4 A G 22 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 21 N3 ? ? A G 5 A C 21 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 21 O2 ? ? A G 5 A C 21 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 21 N4 ? ? A G 5 A C 21 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 7 N3 ? ? ? 1_555 A G 19 N1 ? ? A C 7 A G 19 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 7 N4 ? ? ? 1_555 A G 19 O6 ? ? A C 7 A G 19 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 7 O2 ? ? ? 1_555 A G 19 N2 ? ? A C 7 A G 19 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 8 O6 ? ? ? 1_555 A A 17 N6 ? ? A G 8 A A 17 2_955 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog12 hydrog ? ? A C 9 N3 ? ? ? 1_555 A G 16 N1 ? ? A C 9 A G 16 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 9 N4 ? ? ? 1_555 A G 16 O6 ? ? A C 9 A G 16 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 9 O2 ? ? ? 1_555 A G 16 N2 ? ? A C 9 A G 16 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 10 N1 ? ? ? 1_555 A C 15 N3 ? ? A G 10 A C 15 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 10 N2 ? ? ? 1_555 A C 15 O2 ? ? A G 10 A C 15 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 10 O6 ? ? ? 1_555 A C 15 N4 ? ? A G 10 A C 15 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A U 11 N3 ? ? ? 1_555 A A 14 N1 ? ? A U 11 A A 14 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 11 O4 ? ? ? 1_555 A A 14 N6 ? ? A U 11 A A 14 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 12 N3 ? ? ? 1_555 A G 13 N1 ? ? A C 12 A G 13 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 12 N4 ? ? ? 1_555 A G 13 O6 ? ? A C 12 A G 13 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 12 O2 ? ? ? 1_555 A G 13 N2 ? ? A C 12 A G 13 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 13 N1 ? ? ? 1_555 A C 12 N3 ? ? A G 13 A C 12 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 13 N2 ? ? ? 1_555 A C 12 O2 ? ? A G 13 A C 12 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 13 O6 ? ? ? 1_555 A C 12 N4 ? ? A G 13 A C 12 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A A 14 N1 ? ? ? 1_555 A U 11 N3 ? ? A A 14 A U 11 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A A 14 N6 ? ? ? 1_555 A U 11 O4 ? ? A A 14 A U 11 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 15 N3 ? ? ? 1_555 A G 10 N1 ? ? A C 15 A G 10 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 15 N4 ? ? ? 1_555 A G 10 O6 ? ? A C 15 A G 10 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 15 O2 ? ? ? 1_555 A G 10 N2 ? ? A C 15 A G 10 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A G 16 N1 ? ? ? 1_555 A C 9 N3 ? ? A G 16 A C 9 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A G 16 N2 ? ? ? 1_555 A C 9 O2 ? ? A G 16 A C 9 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A G 16 O6 ? ? ? 1_555 A C 9 N4 ? ? A G 16 A C 9 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A A 17 N6 ? ? ? 1_555 A G 8 O6 ? ? A A 17 A G 8 2_955 ? ? ? ? ? ? 'A-G MISPAIR' ? ? ? hydrog35 hydrog ? ? A G 19 N1 ? ? ? 1_555 A C 7 N3 ? ? A G 19 A C 7 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A G 19 N2 ? ? ? 1_555 A C 7 O2 ? ? A G 19 A C 7 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A G 19 O6 ? ? ? 1_555 A C 7 N4 ? ? A G 19 A C 7 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 21 N3 ? ? ? 1_555 A G 5 N1 ? ? A C 21 A G 5 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A C 21 N4 ? ? ? 1_555 A G 5 O6 ? ? A C 21 A G 5 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A C 21 O2 ? ? ? 1_555 A G 5 N2 ? ? A C 21 A G 5 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 22 N1 ? ? ? 1_555 A C 4 N3 ? ? A G 22 A C 4 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 22 N2 ? ? ? 1_555 A C 4 O2 ? ? A G 22 A C 4 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog43 hydrog ? ? A G 22 O6 ? ? ? 1_555 A C 4 N4 ? ? A G 22 A C 4 2_955 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog44 hydrog ? ? A C 23 O2 ? ? ? 1_555 A G 3 N1 ? ? A C 23 A G 3 2_955 ? ? ? ? ? ? 'C-G PAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # _atom_sites.entry_id 7EDN _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.fract_transf_matrix[1][1] 0.019540 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004277 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.035585 _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] 0.027145 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol AG C CA N O P # 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 U 1 1 ? ? ? A . n A 1 2 U 2 2 2 U U A . n A 1 3 G 3 3 3 G G A . n A 1 4 C 4 4 4 C C A . n A 1 5 G 5 5 5 G G A . n A 1 6 U 6 6 6 U U A . n A 1 7 C 7 7 7 C C 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 G 10 10 10 G G A . n A 1 11 U 11 11 11 U U A . n A 1 12 C 12 12 12 C C A . n A 1 13 G 13 13 13 G G 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 G 16 16 16 G G A . n A 1 17 A 17 17 17 A A A . n A 1 18 A 18 18 18 A A A . n A 1 19 G 19 19 19 G G A . n A 1 20 U 20 20 20 U U A . n A 1 21 C 21 21 21 C C A . n A 1 22 G 22 22 22 G G A . n A 1 23 C 23 23 23 C C A . n # 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 AG 1 101 1 AG AG A . C 2 AG 1 102 2 AG AG A . D 3 CA 1 103 1 CA CA A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,C,D 1 2 A,B,C,D # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_955 -x+4,y,-z -1.0000000000 0.0000000000 0.0000000000 204.7040000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # 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 N3 ? A U 6 ? A U 6 ? 1_555 AG ? C AG . ? A AG 102 ? 1_555 N3 ? A U 20 ? A U 20 ? 1_555 87.2 ? 2 N7 ? A G 8 ? A G 8 ? 1_555 AG ? B AG . ? A AG 101 ? 2_955 N1 ? A A 17 ? A A 17 ? 1_555 67.3 ? 3 OP2 ? A A 18 ? A A 18 ? 1_555 CA ? D CA . ? A CA 103 ? 1_555 OP1 ? A G 19 ? A G 19 ? 1_555 72.3 ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2022-03-16 2 'Structure model' 1 1 2023-11-29 # _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 ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' pdbx_initial_refinement_model # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.17.1 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 7EDN _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id U _pdbx_unobs_or_zero_occ_residues.auth_seq_id 1 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id A _pdbx_unobs_or_zero_occ_residues.label_comp_id U _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # 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 AG AG AG N N 38 C OP3 O N N 39 C P P N N 40 C OP1 O N N 41 C OP2 O N N 42 C "O5'" O N N 43 C "C5'" C N N 44 C "C4'" C N R 45 C "O4'" O N N 46 C "C3'" C N S 47 C "O3'" O N N 48 C "C2'" C N R 49 C "O2'" O N N 50 C "C1'" C N R 51 C N1 N N N 52 C C2 C N N 53 C O2 O N N 54 C N3 N N N 55 C C4 C N N 56 C N4 N N N 57 C C5 C N N 58 C C6 C N N 59 C HOP3 H N N 60 C HOP2 H N N 61 C "H5'" H N N 62 C "H5''" H N N 63 C "H4'" H N N 64 C "H3'" H N N 65 C "HO3'" H N N 66 C "H2'" H N N 67 C "HO2'" H N N 68 C "H1'" H N N 69 C H41 H N N 70 C H42 H N N 71 C H5 H N N 72 C H6 H N N 73 CA CA CA N N 74 G OP3 O N N 75 G P P N N 76 G OP1 O N N 77 G OP2 O N N 78 G "O5'" O N N 79 G "C5'" C N N 80 G "C4'" C N R 81 G "O4'" O N N 82 G "C3'" C N S 83 G "O3'" O N N 84 G "C2'" C N R 85 G "O2'" O N N 86 G "C1'" C N R 87 G N9 N Y N 88 G C8 C Y N 89 G N7 N Y N 90 G C5 C Y N 91 G C6 C N N 92 G O6 O N N 93 G N1 N N N 94 G C2 C N N 95 G N2 N N N 96 G N3 N N N 97 G C4 C Y N 98 G HOP3 H N N 99 G HOP2 H N N 100 G "H5'" H N N 101 G "H5''" H N N 102 G "H4'" H N N 103 G "H3'" H N N 104 G "HO3'" H N N 105 G "H2'" H N N 106 G "HO2'" H N N 107 G "H1'" H N N 108 G H8 H N N 109 G H1 H N N 110 G H21 H N N 111 G H22 H N N 112 U OP3 O N N 113 U P P N N 114 U OP1 O N N 115 U OP2 O N N 116 U "O5'" O N N 117 U "C5'" C N N 118 U "C4'" C N R 119 U "O4'" O N N 120 U "C3'" C N S 121 U "O3'" O N N 122 U "C2'" C N R 123 U "O2'" O N N 124 U "C1'" C N R 125 U N1 N N N 126 U C2 C N N 127 U O2 O N N 128 U N3 N N N 129 U C4 C N N 130 U O4 O N N 131 U C5 C N N 132 U C6 C N N 133 U HOP3 H N N 134 U HOP2 H N N 135 U "H5'" H N N 136 U "H5''" H N N 137 U "H4'" H N N 138 U "H3'" H N N 139 U "HO3'" H N N 140 U "H2'" H N N 141 U "HO2'" H N N 142 U "H1'" H N N 143 U H3 H N N 144 U H5 H N N 145 U H6 H N N 146 # 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 U OP3 P sing N N 116 U OP3 HOP3 sing N N 117 U P OP1 doub N N 118 U P OP2 sing N N 119 U P "O5'" sing N N 120 U OP2 HOP2 sing N N 121 U "O5'" "C5'" sing N N 122 U "C5'" "C4'" sing N N 123 U "C5'" "H5'" sing N N 124 U "C5'" "H5''" sing N N 125 U "C4'" "O4'" sing N N 126 U "C4'" "C3'" sing N N 127 U "C4'" "H4'" sing N N 128 U "O4'" "C1'" sing N N 129 U "C3'" "O3'" sing N N 130 U "C3'" "C2'" sing N N 131 U "C3'" "H3'" sing N N 132 U "O3'" "HO3'" sing N N 133 U "C2'" "O2'" sing N N 134 U "C2'" "C1'" sing N N 135 U "C2'" "H2'" sing N N 136 U "O2'" "HO2'" sing N N 137 U "C1'" N1 sing N N 138 U "C1'" "H1'" sing N N 139 U N1 C2 sing N N 140 U N1 C6 sing N N 141 U C2 O2 doub N N 142 U C2 N3 sing N N 143 U N3 C4 sing N N 144 U N3 H3 sing N N 145 U C4 O4 doub N N 146 U C4 C5 sing N N 147 U C5 C6 doub N N 148 U C5 H5 sing N N 149 U C6 H6 sing N N 150 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 7EDN 'double helix' 7EDN 'a-form double helix' 7EDN 'mismatched base pair' 7EDN 'internal loop' # 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 3 1_555 A C 23 2_955 -2.349 -0.210 0.385 5.342 -4.453 10.938 1 A_G3:C23_A A 3 ? A 23 ? ? 1 1 A C 4 1_555 A G 22 2_955 0.045 -0.167 0.182 2.378 -11.462 -7.611 2 A_C4:G22_A A 4 ? A 22 ? 19 1 1 A G 5 1_555 A C 21 2_955 0.583 -0.398 0.031 3.455 -15.739 3.199 3 A_G5:C21_A A 5 ? A 21 ? 19 1 1 A C 7 1_555 A G 19 2_955 0.615 0.253 0.444 -8.073 -6.106 -1.434 4 A_C7:G19_A A 7 ? A 19 ? 19 1 1 A G 8 1_555 A A 17 2_955 -0.544 -4.814 -0.249 5.356 11.452 107.042 5 A_G8:A17_A A 8 ? A 17 ? ? ? 1 A C 9 1_555 A G 16 2_955 -0.001 -0.107 0.083 7.815 -11.151 2.026 6 A_C9:G16_A A 9 ? A 16 ? 19 1 1 A G 10 1_555 A C 15 2_955 -0.337 -0.337 0.142 -0.869 -25.592 -1.636 7 A_G10:C15_A A 10 ? A 15 ? 19 1 1 A U 11 1_555 A A 14 2_955 0.625 -0.232 0.308 -4.188 -20.645 0.789 8 A_U11:A14_A A 11 ? A 14 ? 20 1 1 A C 12 1_555 A G 13 2_955 -0.193 -0.512 -0.049 4.699 -22.592 -3.644 9 A_C12:G13_A A 12 ? A 13 ? 19 1 1 A G 13 1_555 A C 12 2_955 0.193 -0.512 -0.049 -4.699 -22.592 -3.644 10 A_G13:C12_A A 13 ? A 12 ? 19 1 1 A A 14 1_555 A U 11 2_955 -0.625 -0.232 0.308 4.188 -20.645 0.789 11 A_A14:U11_A A 14 ? A 11 ? 20 1 1 A C 15 1_555 A G 10 2_955 0.337 -0.337 0.142 0.869 -25.592 -1.636 12 A_C15:G10_A A 15 ? A 10 ? 19 1 1 A G 16 1_555 A C 9 2_955 0.001 -0.107 0.083 -7.815 -11.151 2.026 13 A_G16:C9_A A 16 ? A 9 ? 19 1 1 A A 17 1_555 A G 8 2_955 0.544 4.814 0.249 -5.356 -11.452 -107.042 14 A_A17:G8_A A 17 ? A 8 ? ? ? 1 A G 19 1_555 A C 7 2_955 -0.615 0.253 0.444 8.073 -6.106 -1.434 15 A_G19:C7_A A 19 ? A 7 ? 19 1 1 A C 21 1_555 A G 5 2_955 -0.583 -0.398 0.031 -3.455 -15.739 3.199 16 A_C21:G5_A A 21 ? A 5 ? 19 1 1 A G 22 1_555 A C 4 2_955 -0.045 -0.167 0.182 -2.378 -11.462 -7.611 17 A_G22:C4_A A 22 ? A 4 ? 19 1 1 A C 23 1_555 A G 3 2_955 2.349 -0.210 0.385 -5.342 -4.453 10.938 18 A_C23:G3_A A 23 ? A 3 ? ? 1 # 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 3 1_555 A C 23 2_955 A C 4 1_555 A G 22 2_955 -0.716 -1.445 3.282 -1.189 3.350 43.555 -2.259 0.850 3.185 4.506 1.599 43.693 1 AA_G3C4:G22C23_AA A 3 ? A 23 ? A 4 ? A 22 ? 1 A C 4 1_555 A G 22 2_955 A G 5 1_555 A C 21 2_955 0.463 -1.687 3.109 0.815 8.317 28.993 -4.739 -0.743 2.549 16.192 -1.587 30.148 2 AA_C4G5:C21G22_AA A 4 ? A 22 ? A 5 ? A 21 ? 1 A G 5 1_555 A C 21 2_955 A C 7 1_555 A G 19 2_955 -0.024 -3.095 6.380 0.204 14.718 72.800 -3.438 0.032 5.756 12.278 -0.171 74.071 3 AA_G5C7:G19C21_AA A 5 ? A 21 ? A 7 ? A 19 ? 1 A C 7 1_555 A G 19 2_955 A G 8 1_555 A A 17 2_955 1.125 -3.032 -1.428 -169.161 8.845 142.928 -1.503 -0.304 -1.760 4.437 84.854 176.632 4 AA_C7G8:A17G19_AA A 7 ? A 19 ? A 8 ? A 17 ? 1 A G 8 1_555 A A 17 2_955 A C 9 1_555 A G 16 2_955 -1.732 -2.102 -2.083 137.302 -109.554 16.117 -1.707 0.046 -0.335 -55.942 -70.112 175.696 5 AA_G8C9:G16A17_AA A 8 ? A 17 ? A 9 ? A 16 ? 1 A C 9 1_555 A G 16 2_955 A G 10 1_555 A C 15 2_955 -0.156 -1.216 3.414 0.288 12.146 32.989 -3.804 0.301 2.805 20.541 -0.487 35.096 6 AA_C9G10:C15G16_AA A 9 ? A 16 ? A 10 ? A 15 ? 1 A G 10 1_555 A C 15 2_955 A U 11 1_555 A A 14 2_955 0.136 -1.056 3.236 -1.627 9.667 34.497 -3.033 -0.442 2.838 15.907 2.677 35.822 7 AA_G10U11:A14C15_AA A 10 ? A 15 ? A 11 ? A 14 ? 1 A U 11 1_555 A A 14 2_955 A C 12 1_555 A G 13 2_955 0.052 -0.730 2.899 2.751 7.196 29.529 -2.623 0.374 2.646 13.824 -5.285 30.496 8 AA_U11C12:G13A14_AA A 11 ? A 14 ? A 12 ? A 13 ? 1 A C 12 1_555 A G 13 2_955 A G 13 1_555 A C 12 2_955 0.000 -1.497 3.443 0.000 13.778 35.708 -3.980 0.000 2.705 21.507 0.000 38.193 9 AA_C12G13:C12G13_AA A 12 ? A 13 ? A 13 ? A 12 ? 1 A G 13 1_555 A C 12 2_955 A A 14 1_555 A U 11 2_955 -0.052 -0.730 2.899 -2.751 7.196 29.529 -2.623 -0.374 2.646 13.824 5.285 30.496 10 AA_G13A14:U11C12_AA A 13 ? A 12 ? A 14 ? A 11 ? 1 A A 14 1_555 A U 11 2_955 A C 15 1_555 A G 10 2_955 -0.136 -1.056 3.236 1.627 9.667 34.497 -3.033 0.442 2.838 15.907 -2.677 35.822 11 AA_A14C15:G10U11_AA A 14 ? A 11 ? A 15 ? A 10 ? 1 A C 15 1_555 A G 10 2_955 A G 16 1_555 A C 9 2_955 0.156 -1.216 3.414 -0.288 12.146 32.989 -3.804 -0.301 2.805 20.541 0.487 35.096 12 AA_C15G16:C9G10_AA A 15 ? A 10 ? A 16 ? A 9 ? 1 A G 16 1_555 A C 9 2_955 A A 17 1_555 A G 8 2_955 0.335 -2.056 2.724 4.304 0.609 77.173 -1.661 -0.165 2.723 0.488 -3.448 77.276 13 AA_G16A17:G8C9_AA A 16 ? A 9 ? A 17 ? A 8 ? 1 A A 17 1_555 A G 8 2_955 A G 19 1_555 A C 7 2_955 -1.761 0.761 2.969 -3.372 10.057 -5.986 -12.233 -11.201 0.346 -57.498 -19.279 -12.176 14 AA_A17G19:C7G8_AA A 17 ? A 8 ? A 19 ? A 7 ? 1 A G 19 1_555 A C 7 2_955 A C 21 1_555 A G 5 2_955 0.024 -3.095 6.380 -0.204 14.718 72.800 -3.438 -0.032 5.756 12.278 0.171 74.071 15 AA_G19C21:G5C7_AA A 19 ? A 7 ? A 21 ? A 5 ? 1 A C 21 1_555 A G 5 2_955 A G 22 1_555 A C 4 2_955 -0.463 -1.687 3.109 -0.815 8.317 28.993 -4.739 0.743 2.549 16.192 1.587 30.148 16 AA_C21G22:C4G5_AA A 21 ? A 5 ? A 22 ? A 4 ? 1 A G 22 1_555 A C 4 2_955 A C 23 1_555 A G 3 2_955 0.716 -1.445 3.282 1.189 3.350 43.555 -2.259 -0.850 3.185 4.506 -1.599 43.693 17 AA_G22C23:G3C4_AA A 22 ? A 4 ? A 23 ? A 3 ? # _pdbx_audit_support.funding_organization 'Ministry of Education, Culture, Sports, Science and Technology (Japan)' _pdbx_audit_support.country Japan _pdbx_audit_support.grant_number 24245037 _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id AG _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id AG _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_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SILVER ION' AG 3 'CALCIUM ION' CA # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3TD0 _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #