data_6E84 # _entry.id 6E84 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 6E84 pdb_00006e84 10.2210/pdb6e84/pdb WWPDB D_1000235874 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.details . _pdbx_database_related.db_id 6E81 _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6E84 _pdbx_database_status.recvd_initial_deposition_date 2018-07-27 _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.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Sjekloca, L.' 1 0000-0002-4508-1743 ;Ferre-D'Amare, A.R. ; 2 0000-0003-4549-1619 # _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 US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Cell Chem Biol' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2451-9456 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 26 _citation.language ? _citation.page_first 1159 _citation.page_last ? _citation.title 'Binding between G Quadruplexes at the Homodimer Interface of the Corn RNA Aptamer Strongly Activates Thioflavin T Fluorescence.' _citation.year 2019 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.chembiol.2019.04.012 _citation.pdbx_database_id_PubMed 31178406 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sjekloca, L.' 1 ? primary ;Ferre-D'Amare, A.R. ; 2 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 6E84 _cell.details ? _cell.formula_units_Z ? _cell.length_a 128.611 _cell.length_a_esd ? _cell.length_b 128.611 _cell.length_b_esd ? _cell.length_c 40.843 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 18 _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 6E84 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' _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 (36-MER)' 11794.100 1 ? ? ? ? 2 non-polymer syn 'POTASSIUM ION' 39.098 1 ? ? ? ? 3 non-polymer syn '1-methyl-4-[(Z)-(3-methyl-1,3-benzothiazol-2(3H)-ylidene)methyl]quinolin-1-ium' 305.417 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 GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC _entity_poly.pdbx_seq_one_letter_code_can GGCGCGAGGAAGGAGGUCUGAGGAGGUCACUGCGCC _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 G n 1 2 G n 1 3 C n 1 4 G n 1 5 C n 1 6 G n 1 7 A n 1 8 G n 1 9 G n 1 10 A n 1 11 A n 1 12 G n 1 13 G n 1 14 A n 1 15 G n 1 16 G n 1 17 U n 1 18 C n 1 19 U n 1 20 G n 1 21 A n 1 22 G n 1 23 G n 1 24 A n 1 25 G n 1 26 G n 1 27 U n 1 28 C n 1 29 A n 1 30 C n 1 31 U n 1 32 G n 1 33 C n 1 34 G n 1 35 C n 1 36 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 36 _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 6E84 _struct_ref.pdbx_db_accession 6E84 _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 6E84 _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 36 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 6E84 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 36 _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 36 # 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 J0D non-polymer . '1-methyl-4-[(Z)-(3-methyl-1,3-benzothiazol-2(3H)-ylidene)methyl]quinolin-1-ium' 'Thiazole orange' 'C19 H17 N2 S 1' 305.417 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 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 6E84 _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 2.75 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 55.35 _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 294 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '20 % PEG 4000, 5% PEG 400, 10% glycerol, 0.2 M ammonium acetate pH 6.7, 0.1 M sodium citrate pH 5.6, 0.5 mM thiazole orange' _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 ? # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS3 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-04-28 _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 _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 'ALS BEAMLINE 5.0.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 5.0.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate 80.050 _reflns.entry_id 6E84 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.850 _reflns.d_resolution_low 38.350 _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 3104 _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 100.000 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 18.900 _reflns.pdbx_Rmerge_I_obs 0.086 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 16.300 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects 65 _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 0.088 _reflns.pdbx_Rpim_I_all 0.020 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 58519 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1.000 _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_R_split 2.850 2.920 ? ? ? ? ? ? 244 100.000 ? ? ? ? 1.049 ? ? ? ? ? ? ? ? 18.000 ? ? ? ? 1.079 0.250 ? 1 1 0.684 ? 12.750 38.350 ? ? ? ? ? ? 42 98.000 ? ? ? ? 0.028 ? ? ? ? ? ? ? ? 15.500 ? ? ? ? 0.028 0.007 ? 2 1 1.000 ? # _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 382.080 _refine.B_iso_mean 130.8393 _refine.B_iso_min 45.830 _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 6E84 _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 2.9010 _refine.ls_d_res_low 38.3460 _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 2937 _refine.ls_number_reflns_R_free 293 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.7300 _refine.ls_percent_reflns_R_free 9.9800 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2401 _refine.ls_R_factor_R_free 0.2931 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2345 _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.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 1.510 _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 6E81 _refine.pdbx_stereochemistry_target_values ? _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 25.6700 _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 0.3800 _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.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 2.9010 _refine_hist.d_res_low 38.3460 _refine_hist.pdbx_number_atoms_ligand 23 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 808 _refine_hist.pdbx_number_residues_total 36 _refine_hist.pdbx_B_iso_mean_ligand 72.19 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 785 # 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 'X-RAY DIFFRACTION' ? 0.008 ? 905 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.451 ? 1410 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.063 ? 180 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.009 ? 38 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 20.792 ? 431 ? f_dihedral_angle_d ? ? # 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_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' 2.9011 3.6547 1447 . 144 1303 100.0000 . . . 0.3639 0.0000 0.2948 . . . . . . 2 . . . 'X-RAY DIFFRACTION' 3.6547 38.3495 1490 . 149 1341 100.0000 . . . 0.2712 0.0000 0.2148 . . . . . . 2 . . . # _struct.entry_id 6E84 _struct.title 'Crystal structure of the Corn aptamer in complex with TO' _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 6E84 _struct_keywords.text 'polyribonucleotide, fluorigenic aptamer, G-quadruplex, thiazole orange, 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 ? # 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 G 12 O6 ? ? ? 1_555 B K . K ? ? A G 12 A K 101 1_555 ? ? ? ? ? ? ? 3.140 ? ? metalc2 metalc ? ? A G 13 O6 ? ? ? 1_555 B K . K ? ? A G 13 A K 101 1_555 ? ? ? ? ? ? ? 2.691 ? ? metalc3 metalc ? ? A G 15 O6 ? ? ? 1_555 B K . K ? ? A G 15 A K 101 1_555 ? ? ? ? ? ? ? 2.592 ? ? metalc4 metalc ? ? A G 16 O6 ? ? ? 1_555 B K . K ? ? A G 16 A K 101 1_555 ? ? ? ? ? ? ? 3.080 ? ? metalc5 metalc ? ? A G 22 O6 ? ? ? 1_555 B K . K ? ? A G 22 A K 101 1_555 ? ? ? ? ? ? ? 2.652 ? ? metalc6 metalc ? ? A G 23 O6 ? ? ? 1_555 B K . K ? ? A G 23 A K 101 1_555 ? ? ? ? ? ? ? 3.246 ? ? metalc7 metalc ? ? A G 25 O6 ? ? ? 1_555 B K . K ? ? A G 25 A K 101 1_555 ? ? ? ? ? ? ? 2.816 ? ? metalc8 metalc ? ? A G 26 O6 ? ? ? 1_555 B K . K ? ? A G 26 A K 101 1_555 ? ? ? ? ? ? ? 3.041 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A C 36 N3 ? ? A G 1 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A C 36 O2 ? ? A G 1 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A C 36 N4 ? ? A G 1 A C 36 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N2 ? ? ? 1_555 A C 35 O2 ? ? A G 2 A C 35 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog5 hydrog ? ? A G 4 N1 ? ? ? 1_555 A C 33 N3 ? ? A G 4 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 4 N2 ? ? ? 1_555 A C 33 O2 ? ? A G 4 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 4 O6 ? ? ? 1_555 A C 33 N4 ? ? A G 4 A C 33 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 5 N3 ? ? ? 1_555 A G 32 N1 ? ? A C 5 A G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 5 N4 ? ? ? 1_555 A G 32 O6 ? ? A C 5 A G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 5 O2 ? ? ? 1_555 A G 32 N2 ? ? A C 5 A G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 6 N7 ? ? ? 1_555 A A 14 N6 ? ? A G 6 A A 14 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog12 hydrog ? ? A A 7 N6 ? ? ? 1_555 A A 14 N7 ? ? A A 7 A A 14 1_555 ? ? ? ? ? ? 'A-A MISPAIR' ? ? ? hydrog13 hydrog ? ? A G 9 N1 ? ? ? 1_555 A C 18 N3 ? ? A G 9 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 9 N2 ? ? ? 1_555 A C 18 O2 ? ? A G 9 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 9 O6 ? ? ? 1_555 A C 18 N4 ? ? A G 9 A C 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 12 N1 ? ? ? 1_555 A G 15 O6 ? ? A G 12 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A G 12 N2 ? ? ? 1_555 A G 15 N7 ? ? A G 12 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A G 12 N7 ? ? ? 1_555 A G 25 N2 ? ? A G 12 A G 25 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A G 12 O6 ? ? ? 1_555 A G 25 N1 ? ? A G 12 A G 25 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog20 hydrog ? ? A G 13 N1 ? ? ? 1_555 A G 15 O6 ? ? A G 13 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A G 13 N2 ? ? ? 1_555 A G 15 N7 ? ? A G 13 A G 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A G 13 N1 ? ? ? 1_555 A G 16 O6 ? ? A G 13 A G 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A G 13 N2 ? ? ? 1_555 A G 16 N7 ? ? A G 13 A G 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A G 13 N7 ? ? ? 1_555 A G 26 N2 ? ? A G 13 A G 26 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A G 13 O6 ? ? ? 1_555 A G 26 N1 ? ? A G 13 A G 26 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A G 15 N1 ? ? ? 1_555 A G 22 O6 ? ? A G 15 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog27 hydrog ? ? A G 15 N2 ? ? ? 1_555 A G 22 N7 ? ? A G 15 A G 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog28 hydrog ? ? A G 16 N1 ? ? ? 1_555 A G 23 O6 ? ? A G 16 A G 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog29 hydrog ? ? A G 16 N2 ? ? ? 1_555 A G 23 N7 ? ? A G 16 A G 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog30 hydrog ? ? A C 18 O2 ? ? ? 1_555 A G 20 N2 ? ? A C 18 A G 20 1_555 ? ? ? ? ? ? 'C-G PAIR' ? ? ? hydrog31 hydrog ? ? A G 20 N2 ? ? ? 1_555 A C 28 O2 ? ? A G 20 A C 28 1_555 ? ? ? ? ? ? 'G-C PAIR' ? ? ? hydrog32 hydrog ? ? A A 21 N6 ? ? ? 1_555 A U 27 O4 ? ? A A 21 A U 27 1_555 ? ? ? ? ? ? 'A-U PAIR' ? ? ? hydrog33 hydrog ? ? A G 22 N1 ? ? ? 1_555 A G 25 O6 ? ? A G 22 A G 25 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog34 hydrog ? ? A G 22 N2 ? ? ? 1_555 A G 25 N7 ? ? A G 22 A G 25 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog35 hydrog ? ? A G 23 N1 ? ? ? 1_555 A G 26 O6 ? ? A G 23 A G 26 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog36 hydrog ? ? A G 23 N2 ? ? ? 1_555 A G 26 N7 ? ? A G 23 A G 26 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A K 101 ? 8 'binding site for residue K A 101' AC2 Software A J0D 102 ? 7 'binding site for residue J0D A 102' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 8 G A 12 ? G A 12 . ? 1_555 ? 2 AC1 8 G A 13 ? G A 13 . ? 1_555 ? 3 AC1 8 G A 15 ? G A 15 . ? 1_555 ? 4 AC1 8 G A 16 ? G A 16 . ? 1_555 ? 5 AC1 8 G A 22 ? G A 22 . ? 1_555 ? 6 AC1 8 G A 23 ? G A 23 . ? 1_555 ? 7 AC1 8 G A 25 ? G A 25 . ? 1_555 ? 8 AC1 8 G A 26 ? G A 26 . ? 1_555 ? 9 AC2 7 G A 12 ? G A 12 . ? 4_555 ? 10 AC2 7 G A 12 ? G A 12 . ? 1_555 ? 11 AC2 7 G A 15 ? G A 15 . ? 1_555 ? 12 AC2 7 G A 15 ? G A 15 . ? 4_555 ? 13 AC2 7 G A 22 ? G A 22 . ? 4_555 ? 14 AC2 7 G A 25 ? G A 25 . ? 1_555 ? 15 AC2 7 G A 25 ? G A 25 . ? 4_555 ? # _atom_sites.entry_id 6E84 _atom_sites.fract_transf_matrix[1][1] 0.007775 _atom_sites.fract_transf_matrix[1][2] 0.004489 _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] 0.008978 _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] 0.024484 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C K N O P S # 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 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 G 6 6 6 G G A . n A 1 7 A 7 7 7 A A A . n A 1 8 G 8 8 8 G G A . n A 1 9 G 9 9 9 G G A . n A 1 10 A 10 10 10 A A A . n A 1 11 A 11 11 11 A A A . n A 1 12 G 12 12 12 G G 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 G 15 15 15 G G A . n A 1 16 G 16 16 16 G G 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 U 19 19 19 U U A . n A 1 20 G 20 20 20 G G A . n A 1 21 A 21 21 21 A A A . n A 1 22 G 22 22 22 G G A . n A 1 23 G 23 23 23 G G A . n A 1 24 A 24 24 24 A A A . n A 1 25 G 25 25 25 G G A . n A 1 26 G 26 26 26 G G A . n A 1 27 U 27 27 27 U U A . n A 1 28 C 28 28 28 C C A . n A 1 29 A 29 29 29 A A A . n A 1 30 C 30 30 30 C C A . n A 1 31 U 31 31 31 U U A . n A 1 32 G 32 32 32 G G A . n A 1 33 C 33 33 33 C C A . n A 1 34 G 34 34 34 G G A . n A 1 35 C 35 35 35 C C A . n A 1 36 C 36 36 36 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 K 1 101 1 K K A . C 3 J0D 1 102 1 J0D MBQ 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 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C # 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' 4_555 y,x,-z -0.5000000000 0.8660254038 0.0000000000 0.0000000000 0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id J0D _pdbx_struct_special_symmetry.auth_seq_id 102 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id J0D _pdbx_struct_special_symmetry.label_seq_id . # 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 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 13 ? A G 13 ? 1_555 77.7 ? 2 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 15 ? A G 15 ? 1_555 76.7 ? 3 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 15 ? A G 15 ? 1_555 82.9 ? 4 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 16 ? A G 16 ? 1_555 159.0 ? 5 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 16 ? A G 16 ? 1_555 88.5 ? 6 O6 ? A G 15 ? A G 15 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 16 ? A G 16 ? 1_555 85.9 ? 7 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 22 ? A G 22 ? 1_555 108.4 ? 8 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 22 ? A G 22 ? 1_555 170.1 ? 9 O6 ? A G 15 ? A G 15 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 22 ? A G 22 ? 1_555 105.9 ? 10 O6 ? A G 16 ? A G 16 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 22 ? A G 22 ? 1_555 87.6 ? 11 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 23 ? A G 23 ? 1_555 138.3 ? 12 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 23 ? A G 23 ? 1_555 105.0 ? 13 O6 ? A G 15 ? A G 15 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 23 ? A G 23 ? 1_555 144.8 ? 14 O6 ? A G 16 ? A G 16 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 23 ? A G 23 ? 1_555 60.5 ? 15 O6 ? A G 22 ? A G 22 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 23 ? A G 23 ? 1_555 65.2 ? 16 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 68.1 ? 17 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 110.4 ? 18 O6 ? A G 15 ? A G 15 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 137.8 ? 19 O6 ? A G 16 ? A G 16 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 132.4 ? 20 O6 ? A G 22 ? A G 22 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 66.3 ? 21 O6 ? A G 23 ? A G 23 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 25 ? A G 25 ? 1_555 72.3 ? 22 O6 ? A G 12 ? A G 12 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 93.9 ? 23 O6 ? A G 13 ? A G 13 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 55.4 ? 24 O6 ? A G 15 ? A G 15 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 138.3 ? 25 O6 ? A G 16 ? A G 16 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 91.2 ? 26 O6 ? A G 22 ? A G 22 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 115.6 ? 27 O6 ? A G 23 ? A G 23 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 58.9 ? 28 O6 ? A G 25 ? A G 25 ? 1_555 K ? B K . ? A K 101 ? 1_555 O6 ? A G 26 ? A G 26 ? 1_555 68.4 ? # 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 2019-07-31 2 'Structure model' 1 1 2019-08-28 3 'Structure model' 1 2 2023-10-11 # _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' 'Database references' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 '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' citation 2 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond 4 3 'Structure model' database_2 5 3 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 3 'Structure model' '_database_2.pdbx_DOI' 4 3 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 1.8221 _pdbx_refine_tls.origin_y 23.9700 _pdbx_refine_tls.origin_z 7.1348 _pdbx_refine_tls.T[1][1] 0.2342 _pdbx_refine_tls.T[2][2] 1.7129 _pdbx_refine_tls.T[3][3] 0.6205 _pdbx_refine_tls.T[1][2] -0.6335 _pdbx_refine_tls.T[1][3] 0.0008 _pdbx_refine_tls.T[2][3] -0.3018 _pdbx_refine_tls.L[1][1] 0.2038 _pdbx_refine_tls.L[2][2] 0.0275 _pdbx_refine_tls.L[3][3] 0.3009 _pdbx_refine_tls.L[1][2] -0.0707 _pdbx_refine_tls.L[1][3] 0.0898 _pdbx_refine_tls.L[2][3] -0.0138 _pdbx_refine_tls.S[1][1] 0.2034 _pdbx_refine_tls.S[2][2] -0.0958 _pdbx_refine_tls.S[3][3] 0.1333 _pdbx_refine_tls.S[1][2] -0.4164 _pdbx_refine_tls.S[1][3] -0.1207 _pdbx_refine_tls.S[2][3] -0.0795 _pdbx_refine_tls.S[2][1] 0.0366 _pdbx_refine_tls.S[3][1] 0.5816 _pdbx_refine_tls.S[3][2] -1.5486 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.selection_details _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection 'X-RAY DIFFRACTION' 1 1 A 1 A 36 all ? ? ? ? ? 'X-RAY DIFFRACTION' 2 1 D 1 D 1 all ? ? ? ? ? 'X-RAY DIFFRACTION' 3 1 C 1 C 1 all ? ? ? ? ? # _pdbx_phasing_MR.entry_id 6E84 _pdbx_phasing_MR.method_rotation ? _pdbx_phasing_MR.method_translation ? _pdbx_phasing_MR.model_details ? _pdbx_phasing_MR.R_factor ? _pdbx_phasing_MR.R_rigid_body ? _pdbx_phasing_MR.correlation_coeff_Fo_to_Fc ? _pdbx_phasing_MR.correlation_coeff_Io_to_Ic ? _pdbx_phasing_MR.d_res_high_rotation 4.720 _pdbx_phasing_MR.d_res_low_rotation 64.290 _pdbx_phasing_MR.d_res_high_translation 4.720 _pdbx_phasing_MR.d_res_low_translation 64.290 _pdbx_phasing_MR.packing ? _pdbx_phasing_MR.reflns_percent_rotation ? _pdbx_phasing_MR.reflns_percent_translation ? _pdbx_phasing_MR.sigma_F_rotation ? _pdbx_phasing_MR.sigma_F_translation ? _pdbx_phasing_MR.sigma_I_rotation ? _pdbx_phasing_MR.sigma_I_translation ? # _phasing.method MR # 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 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.5.27 2 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? 2.7.16 3 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.24 4 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DIALS ? ? ? . 5 # 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 "O2'" A A 10 ? ? "O2'" A G 26 ? ? 2.05 2 1 "O2'" A A 7 ? ? "O2'" A C 30 ? ? 2.16 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N3 A G 15 ? ? C4 A G 15 ? ? C5 A G 15 ? ? 125.05 128.60 -3.55 0.50 N 2 1 N3 A G 15 ? ? C4 A G 15 ? ? N9 A G 15 ? ? 130.20 126.00 4.20 0.60 N 3 1 N1 A G 16 ? ? C6 A G 16 ? ? O6 A G 16 ? ? 115.37 119.90 -4.53 0.60 N 4 1 C5 A G 16 ? ? C6 A G 16 ? ? O6 A G 16 ? ? 133.75 128.60 5.15 0.60 N 5 1 N1 A A 21 ? ? C6 A A 21 ? ? N6 A A 21 ? ? 122.79 118.60 4.19 0.60 N 6 1 "O4'" A G 23 ? ? "C1'" A G 23 ? ? N9 A G 23 ? ? 113.52 108.50 5.02 0.70 N 7 1 C5 A G 25 ? ? C6 A G 25 ? ? N1 A G 25 ? ? 108.15 111.50 -3.35 0.50 N # 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 J0D C01 C N N 111 J0D C03 C Y N 112 J0D C04 C Y N 113 J0D C05 C Y N 114 J0D C06 C Y N 115 J0D C07 C Y N 116 J0D C08 C Y N 117 J0D C10 C N N 118 J0D C11 C N N 119 J0D C12 C Y N 120 J0D C13 C Y N 121 J0D C14 C Y N 122 J0D C16 C Y N 123 J0D C17 C Y N 124 J0D C18 C Y N 125 J0D C19 C Y N 126 J0D C20 C Y N 127 J0D C21 C Y N 128 J0D C22 C N N 129 J0D N02 N N N 130 J0D N15 N Y N 131 J0D S09 S N N 132 J0D H1 H N N 133 J0D H2 H N N 134 J0D H3 H N N 135 J0D H4 H N N 136 J0D H5 H N N 137 J0D H6 H N N 138 J0D H7 H N N 139 J0D H8 H N N 140 J0D H10 H N N 141 J0D H11 H N N 142 J0D H12 H N N 143 J0D H13 H N N 144 J0D H14 H N N 145 J0D H15 H N N 146 J0D H16 H N N 147 J0D H17 H N N 148 J0D H18 H N N 149 K K K N N 150 U OP3 O N N 151 U P P N N 152 U OP1 O N N 153 U OP2 O N N 154 U "O5'" O N N 155 U "C5'" C N N 156 U "C4'" C N R 157 U "O4'" O N N 158 U "C3'" C N S 159 U "O3'" O N N 160 U "C2'" C N R 161 U "O2'" O N N 162 U "C1'" C N R 163 U N1 N N N 164 U C2 C N N 165 U O2 O N N 166 U N3 N N N 167 U C4 C N N 168 U O4 O N N 169 U C5 C N N 170 U C6 C N N 171 U HOP3 H N N 172 U HOP2 H N N 173 U "H5'" H N N 174 U "H5''" H N N 175 U "H4'" H N N 176 U "H3'" H N N 177 U "HO3'" H N N 178 U "H2'" H N N 179 U "HO2'" H N N 180 U "H1'" H N N 181 U H3 H N N 182 U H5 H N N 183 U H6 H N N 184 # 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 J0D C22 N15 sing N N 116 J0D C14 N15 doub Y N 117 J0D C14 C13 sing Y N 118 J0D N15 C16 sing Y N 119 J0D C13 C12 doub Y N 120 J0D S09 C08 sing N N 121 J0D S09 C10 sing N N 122 J0D C07 C08 doub Y N 123 J0D C07 C06 sing Y N 124 J0D C16 C17 doub Y N 125 J0D C16 C21 sing Y N 126 J0D C08 C03 sing Y N 127 J0D C12 C21 sing Y N 128 J0D C12 C11 sing N N 129 J0D C17 C18 sing Y N 130 J0D C06 C05 doub Y N 131 J0D C21 C20 doub Y N 132 J0D C10 C11 doub N Z 133 J0D C10 N02 sing N N 134 J0D C03 N02 sing N N 135 J0D C03 C04 doub Y N 136 J0D C18 C19 doub Y N 137 J0D C05 C04 sing Y N 138 J0D N02 C01 sing N N 139 J0D C20 C19 sing Y N 140 J0D C01 H1 sing N N 141 J0D C01 H2 sing N N 142 J0D C01 H3 sing N N 143 J0D C04 H4 sing N N 144 J0D C05 H5 sing N N 145 J0D C06 H6 sing N N 146 J0D C07 H7 sing N N 147 J0D C11 H8 sing N N 148 J0D C13 H10 sing N N 149 J0D C14 H11 sing N N 150 J0D C17 H12 sing N N 151 J0D C18 H13 sing N N 152 J0D C19 H14 sing N N 153 J0D C20 H15 sing N N 154 J0D C22 H16 sing N N 155 J0D C22 H17 sing N N 156 J0D C22 H18 sing N N 157 U OP3 P sing N N 158 U OP3 HOP3 sing N N 159 U P OP1 doub N N 160 U P OP2 sing N N 161 U P "O5'" sing N N 162 U OP2 HOP2 sing N N 163 U "O5'" "C5'" sing N N 164 U "C5'" "C4'" sing N N 165 U "C5'" "H5'" sing N N 166 U "C5'" "H5''" sing N N 167 U "C4'" "O4'" sing N N 168 U "C4'" "C3'" sing N N 169 U "C4'" "H4'" sing N N 170 U "O4'" "C1'" sing N N 171 U "C3'" "O3'" sing N N 172 U "C3'" "C2'" sing N N 173 U "C3'" "H3'" sing N N 174 U "O3'" "HO3'" sing N N 175 U "C2'" "O2'" sing N N 176 U "C2'" "C1'" sing N N 177 U "C2'" "H2'" sing N N 178 U "O2'" "HO2'" sing N N 179 U "C1'" N1 sing N N 180 U "C1'" "H1'" sing N N 181 U N1 C2 sing N N 182 U N1 C6 sing N N 183 U C2 O2 doub N N 184 U C2 N3 sing N N 185 U N3 C4 sing N N 186 U N3 H3 sing N N 187 U C4 O4 doub N N 188 U C4 C5 sing N N 189 U C5 C6 doub N N 190 U C5 H5 sing N N 191 U C6 H6 sing N N 192 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 6E84 'double helix' 6E84 'hairpin loop' 6E84 'mismatched base pair' 6E84 'quadruple helix' # 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 1 1_555 A C 36 1_555 -0.556 0.356 0.387 1.744 1.165 2.834 1 A_G1:C36_A A 1 ? A 36 ? 19 1 1 A G 2 1_555 A C 35 1_555 0.592 0.460 -0.172 -5.731 -15.070 19.150 2 A_G2:C35_A A 2 ? A 35 ? ? 1 1 A G 4 1_555 A C 33 1_555 -0.114 -1.127 1.034 -15.782 -7.595 -9.211 3 A_G4:C33_A A 4 ? A 33 ? 19 1 1 A C 5 1_555 A G 32 1_555 0.883 -0.436 0.402 14.952 -5.371 9.230 4 A_C5:G32_A A 5 ? A 32 ? 19 1 1 A G 6 1_555 A A 14 1_555 5.175 -6.123 0.471 -51.806 -25.151 134.133 5 A_G6:A14_A A 6 ? A 14 ? ? ? 1 A G 9 1_555 A C 18 1_555 -0.157 -0.409 -0.633 -25.093 -1.027 2.798 6 A_G9:C18_A A 9 ? A 18 ? 19 1 1 A G 13 1_555 A G 26 1_555 -1.121 -2.934 -0.550 -2.902 4.505 99.254 7 A_G13:G26_A A 13 ? A 26 ? 6 3 1 A G 12 1_555 A G 25 1_555 -1.399 -3.129 -1.489 -5.484 -3.107 88.874 8 A_G12:G25_A A 12 ? A 25 ? 6 3 1 A G 15 1_555 A G 22 1_555 2.620 3.546 -0.340 -9.046 7.823 -77.884 9 A_G15:G22_A A 15 ? A 22 ? 6 3 1 A G 16 1_555 A G 23 1_555 1.573 3.853 0.500 -8.304 4.264 -86.192 10 A_G16:G23_A A 16 ? A 23 ? 6 3 1 A U 27 1_555 A A 21 1_555 -0.423 1.793 -0.485 -17.836 3.148 -48.228 11 A_U27:A21_A A 27 ? A 21 ? ? ? 1 A C 28 1_555 A G 20 1_555 1.530 0.078 -0.047 30.508 10.888 14.045 12 A_C28:G20_A A 28 ? A 20 ? ? 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 1 1_555 A C 36 1_555 A G 2 1_555 A C 35 1_555 0.326 -1.274 3.408 4.884 10.643 39.913 -2.929 0.059 3.004 15.200 -6.974 41.528 1 AA_G1G2:C35C36_AA A 1 ? A 36 ? A 2 ? A 35 ? 1 A G 2 1_555 A C 35 1_555 A G 4 1_555 A C 33 1_555 -0.384 -4.192 6.027 -11.274 16.948 52.124 -6.139 -0.687 4.555 18.505 12.310 55.697 2 AA_G2G4:C33C35_AA A 2 ? A 35 ? A 4 ? A 33 ? 1 A G 4 1_555 A C 33 1_555 A C 5 1_555 A G 32 1_555 2.923 -1.237 2.553 10.843 -7.415 40.342 -1.009 -3.019 3.363 -10.423 -15.241 42.342 3 AA_G4C5:G32C33_AA A 4 ? A 33 ? A 5 ? A 32 ? 1 A C 5 1_555 A G 32 1_555 A G 6 1_555 A A 14 1_555 -0.147 3.093 4.417 28.450 6.001 -32.559 -4.954 3.454 3.027 -8.828 41.851 -43.388 4 AA_C5G6:A14G32_AA A 5 ? A 32 ? A 6 ? A 14 ? 1 A G 9 1_555 A C 18 1_555 A G 13 1_555 A G 26 1_555 6.643 0.897 0.254 32.697 -138.225 8.940 0.914 -3.407 0.675 -86.089 -20.364 142.160 5 AA_G9G13:G26C18_AA A 9 ? A 18 ? A 13 ? A 26 ? 1 A G 12 1_555 A G 25 1_555 A G 15 1_555 A G 22 1_555 1.580 3.056 0.819 -10.915 15.052 -175.971 -1.531 0.789 0.810 -7.530 -5.461 -176.024 6 AA_G12G15:G22G25_AA A 12 ? A 25 ? A 15 ? A 22 ? 1 A G 15 1_555 A G 22 1_555 A G 16 1_555 A G 23 1_555 -0.178 -1.394 3.135 1.841 2.438 25.606 -3.761 0.880 2.972 5.477 -4.135 25.784 7 AA_G15G16:G23G22_AA A 15 ? A 22 ? A 16 ? A 23 ? 1 A G 16 1_555 A G 23 1_555 A U 27 1_555 A A 21 1_555 1.762 -0.562 3.944 14.795 3.070 -155.127 0.276 0.959 3.895 -1.571 7.573 -155.346 8 AA_G16U27:A21G23_AA A 16 ? A 23 ? A 27 ? A 21 ? 1 A U 27 1_555 A A 21 1_555 A C 28 1_555 A G 20 1_555 1.157 1.152 2.240 -2.561 7.618 13.345 -0.135 -5.746 2.293 29.533 9.927 15.569 9 AA_U27C28:G20A21_AA A 27 ? A 21 ? A 28 ? A 20 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'POTASSIUM ION' K 3 '1-methyl-4-[(Z)-(3-methyl-1,3-benzothiazol-2(3H)-ylidene)methyl]quinolin-1-ium' J0D # _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 6E81 _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 'equilibrium centrifugation' _pdbx_struct_assembly_auth_evidence.details ? #