data_6U8U # _entry.id 6U8U # _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 6U8U pdb_00006u8u 10.2210/pdb6u8u/pdb WWPDB D_1000244214 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6U8U _pdbx_database_status.recvd_initial_deposition_date 2019-09-05 _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 'Szostak, J.W.' 1 ? 'Zhang, W.' 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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 49 _citation.language ? _citation.page_first 646 _citation.page_last 656 _citation.title 'Structural interpretation of the effects of threo-nucleotides on nonenzymatic template-directed polymerization.' _citation.year 2021 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkaa1215 _citation.pdbx_database_id_PubMed 33347562 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zhang, W.' 1 ? primary 'Kim, S.C.' 2 ? primary 'Tam, C.P.' 3 ? primary 'Lelyveld, V.S.' 4 ? primary 'Bala, S.' 5 ? primary 'Chaput, J.C.' 6 ? primary 'Szostak, J.W.' 7 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 120.00 _cell.angle_gamma_esd ? _cell.entry_id 6U8U _cell.details ? _cell.formula_units_Z ? _cell.length_a 43.956 _cell.length_a_esd ? _cell.length_b 43.956 _cell.length_b_esd ? _cell.length_c 84.516 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 12 _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 6U8U _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 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(*(LCC)P*(LCC)P*(LCC)P*(LCG)P*AP*CP*UP*UP*AP*AP*GP*UP*CP*G)-3') ; 4512.804 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 3 non-polymer syn ;2-amino-3-[(R)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1-[(S)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1H-imidazol-3-ium ; 714.459 2 ? ? ? ? 4 water nat water 18.015 10 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(LCC)(LCC)(LCC)(LCG)ACUUAAGUCG' _entity_poly.pdbx_seq_one_letter_code_can NNNGACUUAAGUCG _entity_poly.pdbx_strand_id A,B _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 LCC n 1 2 LCC n 1 3 LCC n 1 4 LCG n 1 5 A n 1 6 C n 1 7 U n 1 8 U n 1 9 A n 1 10 A n 1 11 G n 1 12 U n 1 13 C n 1 14 G 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 14 _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 6U8U _struct_ref.pdbx_db_accession 6U8U _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 6U8U A 1 ? 14 ? 6U8U 1 ? 14 ? 1 14 2 1 6U8U B 1 ? 14 ? 6U8U 1 ? 14 ? 1 14 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 LCC 'RNA linking' . '[(1R,3R,4R,7S)-7-HYDROXY-3-(5-METHYLCYTOSIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H16 N3 O8 P' 349.234 LCG 'RNA linking' n '[(1R,3R,4R,7S)-7-HYDROXY-3-(GUANIN-9-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE' ? 'C11 H14 N5 O8 P' 375.231 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 Q1V non-polymer . ;2-amino-3-[(R)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1-[(S)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1H-imidazol-3-ium ; ? 'C21 H26 N13 O12 P2 1' 714.459 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 6U8U _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 2.45 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 49.70 _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, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '10 % w/v Polyethylene glycol 6,000, 50 mM HEPES; pH 7.0, 200 mM Ammonium acetate, 150 mM Magnesium acetate' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 99 _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 CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MAR CCD 130 mm' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-06-15 _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 8.2.2' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6U8U _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.40 _reflns.d_resolution_low 50 _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 4009 _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 99.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 10.2 _reflns.pdbx_Rmerge_I_obs 0.059 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 37.2 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.818 _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 0.06 _reflns.pdbx_Rpim_I_all 0.02 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 1.0 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.40 _reflns_shell.d_res_low 2.49 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 3.1 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 387 _reflns_shell.percent_possible_all 100 _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 0.709 _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 10.6 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 0.566 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.745 _reflns_shell.pdbx_Rpim_I_all 0.228 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.958 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] 0.01 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][2] 0.01 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] -0.02 _refine.B_iso_max ? _refine.B_iso_mean 53.86 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6U8U _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 2.40 _refine.ls_d_res_low 50 _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 3789 _refine.ls_number_reflns_R_free 163 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 97.94 _refine.ls_percent_reflns_R_free 4.1 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.218 _refine.ls_R_factor_R_free 0.267 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.216 _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 ? _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 6C8D _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details random _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 694 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 10 _refine_hist.number_atoms_total 706 _refine_hist.d_res_high 2.40 _refine_hist.d_res_low 50 # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 2.40 _refine_ls_shell.d_res_low 2.46 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 8 _refine_ls_shell.number_reflns_R_work 275 _refine_ls_shell.percent_reflns_obs 98.26 _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 0.293 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.308 _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 ? # _struct.entry_id 6U8U _struct.title ;RNA duplex bound with TNA 3'-3' imidazolium dimer ; _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 6U8U _struct_keywords.text 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 1 ? C N N 2 ? D N N 3 ? E N N 2 ? F N N 3 ? G N N 4 ? H N N 4 ? # 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 covale1 covale both ? A LCC 1 "O3'" ? ? ? 1_555 A LCC 2 P ? ? A LCC 1 A LCC 2 1_555 ? ? ? ? ? ? ? 1.614 ? ? covale2 covale both ? A LCC 2 "O3'" ? ? ? 1_555 A LCC 3 P ? ? A LCC 2 A LCC 3 1_555 ? ? ? ? ? ? ? 1.674 ? ? covale3 covale both ? A LCC 3 "O3'" ? ? ? 1_555 A LCG 4 P ? ? A LCC 3 A LCG 4 1_555 ? ? ? ? ? ? ? 1.628 ? ? covale4 covale both ? A LCG 4 "O3'" ? ? ? 1_555 A A 5 P ? ? A LCG 4 A A 5 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale5 covale both ? B LCC 1 "O3'" ? ? ? 1_555 B LCC 2 P ? ? B LCC 1 B LCC 2 1_555 ? ? ? ? ? ? ? 1.629 ? ? covale6 covale both ? B LCC 2 "O3'" ? ? ? 1_555 B LCC 3 P ? ? B LCC 2 B LCC 3 1_555 ? ? ? ? ? ? ? 1.635 ? ? covale7 covale both ? B LCC 3 "O3'" ? ? ? 1_555 B LCG 4 P ? ? B LCC 3 B LCG 4 1_555 ? ? ? ? ? ? ? 1.646 ? ? covale8 covale both ? B LCG 4 "O3'" ? ? ? 1_555 B A 5 P ? ? B LCG 4 B A 5 1_555 ? ? ? ? ? ? ? 1.631 ? ? metalc1 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 A HOH 202 1_555 ? ? ? ? ? ? ? 2.074 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 A HOH 205 1_555 ? ? ? ? ? ? ? 1.921 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 A HOH 206 1_555 ? ? ? ? ? ? ? 2.053 ? ? metalc4 metalc ? ? G HOH . O ? ? ? 1_555 E MG . MG ? ? A HOH 203 B MG 101 1_555 ? ? ? ? ? ? ? 2.190 ? ? metalc5 metalc ? ? E MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 101 B HOH 201 1_555 ? ? ? ? ? ? ? 2.246 ? ? metalc6 metalc ? ? E MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 101 B HOH 203 1_555 ? ? ? ? ? ? ? 2.005 ? ? metalc7 metalc ? ? E MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 101 B HOH 204 1_555 ? ? ? ? ? ? ? 1.852 ? ? hydrog1 hydrog ? ? A LCG 4 N1 ? ? ? 1_555 B C 13 N3 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A LCG 4 N2 ? ? ? 1_555 B C 13 O2 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A LCG 4 O6 ? ? ? 1_555 B C 13 N4 ? ? A LCG 4 B C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 12 N3 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 12 O4 ? ? A A 5 B U 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 6 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 7 N3 ? ? ? 1_555 B A 10 N1 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 7 O4 ? ? ? 1_555 B A 10 N6 ? ? A U 7 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 9 N1 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 9 N6 ? ? A U 8 B A 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 9 N1 ? ? ? 1_555 B U 8 N3 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 9 N6 ? ? ? 1_555 B U 8 O4 ? ? A A 9 B U 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 7 N3 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 7 O4 ? ? A A 10 B U 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 6 N3 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 6 O2 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 6 N4 ? ? A G 11 B C 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 12 B A 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 13 N3 ? ? ? 1_555 B LCG 4 N1 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 13 N4 ? ? ? 1_555 B LCG 4 O6 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 13 O2 ? ? ? 1_555 B LCG 4 N2 ? ? A C 13 B LCG 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? 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 MG 101 ? 4 'binding site for residue MG A 101' AC2 Software A Q1V 102 ? 6 'binding site for residue Q1V A 102' AC3 Software B MG 101 ? 5 'binding site for residue MG B 101' AC4 Software B Q1V 102 ? 4 'binding site for residue Q1V B 102' AC5 Software A LCC 1 ? 5 'binding site for residues LCC A 1 and LCC A 2' AC6 Software A LCC 2 ? 7 'binding site for residues LCC A 2 and LCC A 3' AC7 Software A LCC 3 ? 8 'binding site for residues LCC A 3 and LCG A 4' AC8 Software B LCC 1 ? 2 'binding site for residues LCC B 1 and LCC B 2' AC9 Software B LCC 2 ? 4 'binding site for residues LCC B 2 and LCC B 3' AD1 Software B LCC 3 ? 5 'binding site for residues LCC B 3 and LCG B 4' AD2 Software B LCG 4 ? 7 'binding site for Di-nucleotide LCG B 4 and A B 5' # 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 4 HOH G . ? HOH A 201 . ? 1_555 ? 2 AC1 4 HOH G . ? HOH A 202 . ? 1_555 ? 3 AC1 4 HOH G . ? HOH A 205 . ? 1_555 ? 4 AC1 4 HOH G . ? HOH A 206 . ? 1_555 ? 5 AC2 6 LCC A 1 ? LCC A 1 . ? 4_645 ? 6 AC2 6 LCC A 1 ? LCC A 1 . ? 1_555 ? 7 AC2 6 LCC A 2 ? LCC A 2 . ? 1_555 ? 8 AC2 6 LCC A 3 ? LCC A 3 . ? 1_555 ? 9 AC2 6 G B 14 ? G B 14 . ? 2_745 ? 10 AC2 6 G B 14 ? G B 14 . ? 1_555 ? 11 AC3 5 HOH G . ? HOH A 203 . ? 1_555 ? 12 AC3 5 C B 6 ? C B 6 . ? 1_555 ? 13 AC3 5 HOH H . ? HOH B 201 . ? 1_555 ? 14 AC3 5 HOH H . ? HOH B 203 . ? 1_555 ? 15 AC3 5 HOH H . ? HOH B 204 . ? 1_555 ? 16 AC4 4 G A 14 ? G A 14 . ? 1_555 ? 17 AC4 4 LCC B 1 ? LCC B 1 . ? 1_555 ? 18 AC4 4 LCC B 2 ? LCC B 2 . ? 1_555 ? 19 AC4 4 LCC B 3 ? LCC B 3 . ? 1_555 ? 20 AC5 5 LCC A 3 ? LCC A 3 . ? 1_555 ? 21 AC5 5 Q1V D . ? Q1V A 102 . ? 1_555 ? 22 AC5 5 Q1V D . ? Q1V A 102 . ? 4_645 ? 23 AC5 5 C B 13 ? C B 13 . ? 2_745 ? 24 AC5 5 G B 14 ? G B 14 . ? 2_745 ? 25 AC6 7 LCC A 1 ? LCC A 1 . ? 1_555 ? 26 AC6 7 LCG A 4 ? LCG A 4 . ? 2_745 ? 27 AC6 7 LCG A 4 ? LCG A 4 . ? 1_555 ? 28 AC6 7 Q1V D . ? Q1V A 102 . ? 1_555 ? 29 AC6 7 C B 13 ? C B 13 . ? 2_745 ? 30 AC6 7 G B 14 ? G B 14 . ? 1_555 ? 31 AC6 7 G B 14 ? G B 14 . ? 2_745 ? 32 AC7 8 LCC A 2 ? LCC A 2 . ? 1_555 ? 33 AC7 8 A A 5 ? A A 5 . ? 2_745 ? 34 AC7 8 A A 5 ? A A 5 . ? 1_555 ? 35 AC7 8 Q1V D . ? Q1V A 102 . ? 1_555 ? 36 AC7 8 C B 13 ? C B 13 . ? 2_745 ? 37 AC7 8 C B 13 ? C B 13 . ? 1_555 ? 38 AC7 8 G B 14 ? G B 14 . ? 1_555 ? 39 AC7 8 G B 14 ? G B 14 . ? 2_745 ? 40 AC8 2 LCC B 3 ? LCC B 3 . ? 1_555 ? 41 AC8 2 Q1V F . ? Q1V B 102 . ? 1_555 ? 42 AC9 4 G A 14 ? G A 14 . ? 1_555 ? 43 AC9 4 LCC B 1 ? LCC B 1 . ? 1_555 ? 44 AC9 4 LCG B 4 ? LCG B 4 . ? 1_555 ? 45 AC9 4 Q1V F . ? Q1V B 102 . ? 1_555 ? 46 AD1 5 C A 13 ? C A 13 . ? 1_555 ? 47 AD1 5 G A 14 ? G A 14 . ? 1_555 ? 48 AD1 5 LCC B 2 ? LCC B 2 . ? 1_555 ? 49 AD1 5 A B 5 ? A B 5 . ? 1_555 ? 50 AD1 5 Q1V F . ? Q1V B 102 . ? 1_555 ? 51 AD2 7 G A 11 ? G A 11 . ? 1_555 ? 52 AD2 7 U A 12 ? U A 12 . ? 1_555 ? 53 AD2 7 C A 13 ? C A 13 . ? 1_555 ? 54 AD2 7 G A 14 ? G A 14 . ? 1_555 ? 55 AD2 7 LCC B 3 ? LCC B 3 . ? 1_555 ? 56 AD2 7 LCC B 3 ? LCC B 3 . ? 2_745 ? 57 AD2 7 C B 6 ? C B 6 . ? 1_555 ? # _database_PDB_matrix.entry_id 6U8U _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 6U8U _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] 0.022750 _atom_sites.fract_transf_matrix[1][2] 0.013135 _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] 0.026269 _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] 0.011832 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C MG 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 LCC 1 1 1 LCC LCC A . n A 1 2 LCC 2 2 2 LCC LCC A . n A 1 3 LCC 3 3 3 LCC LCC A . n A 1 4 LCG 4 4 4 LCG LCG A . n A 1 5 A 5 5 5 A A A . n A 1 6 C 6 6 6 C C A . n A 1 7 U 7 7 7 U U A . n A 1 8 U 8 8 8 U U A . n A 1 9 A 9 9 9 A A A . n A 1 10 A 10 10 10 A A A . n A 1 11 G 11 11 11 G G A . n A 1 12 U 12 12 12 U U A . n A 1 13 C 13 13 13 C C A . n A 1 14 G 14 14 14 G G A . n B 1 1 LCC 1 1 1 LCC LCC B . n B 1 2 LCC 2 2 2 LCC LCC B . n B 1 3 LCC 3 3 3 LCC LCC B . n B 1 4 LCG 4 4 4 LCG LCG B . n B 1 5 A 5 5 5 A A B . n B 1 6 C 6 6 6 C C B . n B 1 7 U 7 7 7 U U B . n B 1 8 U 8 8 8 U U B . n B 1 9 A 9 9 9 A A B . n B 1 10 A 10 10 10 A A B . n B 1 11 G 11 11 11 G G B . n B 1 12 U 12 12 12 U U B . n B 1 13 C 13 13 13 C C B . n B 1 14 G 14 14 14 G G B . 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 C 2 MG 1 101 1 MG MG A . D 3 Q1V 1 102 2 Q1V DFG A . E 2 MG 1 101 2 MG MG B . F 3 Q1V 1 102 1 Q1V DFG B . G 4 HOH 1 201 7 HOH HOH A . G 4 HOH 2 202 1 HOH HOH A . G 4 HOH 3 203 9 HOH HOH A . G 4 HOH 4 204 4 HOH HOH A . G 4 HOH 5 205 5 HOH HOH A . G 4 HOH 6 206 6 HOH HOH A . H 4 HOH 1 201 10 HOH HOH B . H 4 HOH 2 202 3 HOH HOH B . H 4 HOH 3 203 8 HOH HOH B . H 4 HOH 4 204 2 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _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 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2720 ? 1 MORE 3 ? 1 'SSA (A^2)' 5870 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _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 O ? G HOH . ? A HOH 202 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? A HOH 205 ? 1_555 130.7 ? 2 O ? G HOH . ? A HOH 202 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? A HOH 206 ? 1_555 97.1 ? 3 O ? G HOH . ? A HOH 205 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? A HOH 206 ? 1_555 68.3 ? 4 O ? G HOH . ? A HOH 203 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 201 ? 1_555 140.9 ? 5 O ? G HOH . ? A HOH 203 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 203 ? 1_555 80.8 ? 6 O ? H HOH . ? B HOH 201 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 203 ? 1_555 72.8 ? 7 O ? G HOH . ? A HOH 203 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 204 ? 1_555 84.4 ? 8 O ? H HOH . ? B HOH 201 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 204 ? 1_555 133.0 ? 9 O ? H HOH . ? B HOH 203 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? H HOH . ? B HOH 204 ? 1_555 115.9 ? # 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 2020-12-09 2 'Structure model' 1 1 2021-01-06 3 'Structure model' 1 2 2021-02-03 4 'Structure model' 1 3 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' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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' citation 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 '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.pdbx_database_id_DOI' 2 2 'Structure model' '_citation.pdbx_database_id_PubMed' 3 2 'Structure model' '_citation.title' 4 3 'Structure model' '_citation.journal_volume' 5 3 'Structure model' '_citation.page_first' 6 3 'Structure model' '_citation.page_last' 7 3 'Structure model' '_citation.year' 8 4 'Structure model' '_database_2.pdbx_DOI' 9 4 'Structure model' '_database_2.pdbx_database_accession' # 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 ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0135 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 6U8U _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 ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 LCC "O5'" O N N 114 LCC "C5'" C N N 115 LCC "C4'" C N R 116 LCC "O4'" O N N 117 LCC "C1'" C N R 118 LCC N1 N N N 119 LCC C6 C N N 120 LCC C5 C N N 121 LCC C5M C N N 122 LCC C4 C N N 123 LCC N4 N N N 124 LCC N3 N N N 125 LCC C2 C N N 126 LCC O2 O N N 127 LCC "C3'" C N S 128 LCC "C2'" C N R 129 LCC "O2'" O N N 130 LCC "O3'" O N N 131 LCC "C6'" C N N 132 LCC P P N N 133 LCC O1P O N N 134 LCC O2P O N N 135 LCC OXT O N N 136 LCC "H5'1" H N N 137 LCC "H5'2" H N N 138 LCC "H1'" H N N 139 LCC H6 H N N 140 LCC H5M1 H N N 141 LCC H5M2 H N N 142 LCC H5M3 H N N 143 LCC H41 H N N 144 LCC H42 H N N 145 LCC "H3'" H N N 146 LCC "H2'1" H N N 147 LCC H3T H N N 148 LCC "H6'1" H N N 149 LCC "H6'2" H N N 150 LCC H1P H N N 151 LCC HXT H N N 152 LCG P P N N 153 LCG OP1 O N N 154 LCG "O5'" O N N 155 LCG "C5'" C N N 156 LCG "C3'" C N S 157 LCG "C6'" C N N 158 LCG N9 N Y N 159 LCG C8 C Y N 160 LCG C4 C Y N 161 LCG N7 N Y N 162 LCG C5 C Y N 163 LCG C6 C N N 164 LCG "C2'" C N R 165 LCG O6 O N N 166 LCG "C4'" C N R 167 LCG "C1'" C N R 168 LCG C2 C N N 169 LCG N1 N N N 170 LCG "O4'" O N N 171 LCG OP2 O N N 172 LCG N2 N N N 173 LCG N3 N N N 174 LCG "O2'" O N N 175 LCG "O3'" O N N 176 LCG OP3 O N N 177 LCG "H5'" H N N 178 LCG "H5''" H N N 179 LCG "H3'" H N N 180 LCG "H6'1" H N N 181 LCG "H6'2" H N N 182 LCG H8 H N N 183 LCG "H2'" H N N 184 LCG "H1'" H N N 185 LCG H1 H N N 186 LCG HOP2 H N N 187 LCG H21 H N N 188 LCG H22 H N N 189 LCG "HO3'" H N N 190 LCG HOP3 H N N 191 MG MG MG N N 192 Q1V OP3 O N N 193 Q1V P P N N 194 Q1V OP1 O N N 195 Q1V OP2 O N N 196 Q1V "C4'" C N N 197 Q1V "O4'" O N N 198 Q1V "C3'" C N S 199 Q1V "O3'" O N N 200 Q1V "C2'" C N R 201 Q1V "C1'" C N R 202 Q1V N9 N Y N 203 Q1V C8 C Y N 204 Q1V N7 N Y N 205 Q1V C5 C Y N 206 Q1V C6 C N N 207 Q1V O6 O N N 208 Q1V N1 N N N 209 Q1V C2 C N N 210 Q1V N2 N N N 211 Q1V N3 N N N 212 Q1V C4 C Y N 213 Q1V "O2'" O N N 214 Q1V N10 N Y N 215 Q1V C14 C Y N 216 Q1V N15 N N N 217 Q1V C11 C Y N 218 Q1V C12 C Y N 219 Q1V N13 N Y N 220 Q1V P34 P N N 221 Q1V OP4 O N N 222 Q1V O33 O N N 223 Q1V C32 C N S 224 Q1V C28 C N R 225 Q1V O29 O N N 226 Q1V C31 C N N 227 Q1V O30 O N N 228 Q1V C27 C N R 229 Q1V N26 N Y N 230 Q1V C22 C Y N 231 Q1V N21 N N N 232 Q1V C19 C N N 233 Q1V N20 N N N 234 Q1V N18 N N N 235 Q1V C17 C N N 236 Q1V O16 O N N 237 Q1V C23 C Y N 238 Q1V N24 N Y N 239 Q1V C25 C Y N 240 Q1V H1 H N N 241 Q1V H2 H N N 242 Q1V H3 H N N 243 Q1V H4 H N N 244 Q1V H5 H N N 245 Q1V H6 H N N 246 Q1V H7 H N N 247 Q1V H8 H N N 248 Q1V H9 H N N 249 Q1V H10 H N N 250 Q1V H11 H N N 251 Q1V H12 H N N 252 Q1V H13 H N N 253 Q1V H14 H N N 254 Q1V H15 H N N 255 Q1V H16 H N N 256 Q1V H17 H N N 257 Q1V H18 H N N 258 Q1V H19 H N N 259 Q1V H20 H N N 260 Q1V H21 H N N 261 Q1V H22 H N N 262 Q1V H23 H N N 263 Q1V H24 H N N 264 Q1V H25 H N N 265 Q1V H26 H N N 266 U OP3 O N N 267 U P P N N 268 U OP1 O N N 269 U OP2 O N N 270 U "O5'" O N N 271 U "C5'" C N N 272 U "C4'" C N R 273 U "O4'" O N N 274 U "C3'" C N S 275 U "O3'" O N N 276 U "C2'" C N R 277 U "O2'" O N N 278 U "C1'" C N R 279 U N1 N N N 280 U C2 C N N 281 U O2 O N N 282 U N3 N N N 283 U C4 C N N 284 U O4 O N N 285 U C5 C N N 286 U C6 C N N 287 U HOP3 H N N 288 U HOP2 H N N 289 U "H5'" H N N 290 U "H5''" H N N 291 U "H4'" H N N 292 U "H3'" H N N 293 U "HO3'" H N N 294 U "H2'" H N N 295 U "HO2'" H N N 296 U "H1'" H N N 297 U H3 H N N 298 U H5 H N N 299 U H6 H N N 300 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 LCC "O5'" "C5'" sing N N 118 LCC "O5'" P sing N N 119 LCC "C5'" "C4'" sing N N 120 LCC "C5'" "H5'1" sing N N 121 LCC "C5'" "H5'2" sing N N 122 LCC "C4'" "O4'" sing N N 123 LCC "C4'" "C3'" sing N N 124 LCC "C4'" "C6'" sing N N 125 LCC "O4'" "C1'" sing N N 126 LCC "C1'" N1 sing N N 127 LCC "C1'" "C2'" sing N N 128 LCC "C1'" "H1'" sing N N 129 LCC N1 C6 sing N N 130 LCC N1 C2 sing N N 131 LCC C6 C5 doub N N 132 LCC C6 H6 sing N N 133 LCC C5 C5M sing N N 134 LCC C5 C4 sing N N 135 LCC C5M H5M1 sing N N 136 LCC C5M H5M2 sing N N 137 LCC C5M H5M3 sing N N 138 LCC C4 N4 sing N N 139 LCC C4 N3 doub N N 140 LCC N4 H41 sing N N 141 LCC N4 H42 sing N N 142 LCC N3 C2 sing N N 143 LCC C2 O2 doub N N 144 LCC "C3'" "C2'" sing N N 145 LCC "C3'" "O3'" sing N N 146 LCC "C3'" "H3'" sing N N 147 LCC "C2'" "O2'" sing N N 148 LCC "C2'" "H2'1" sing N N 149 LCC "O2'" "C6'" sing N N 150 LCC "O3'" H3T sing N N 151 LCC "C6'" "H6'1" sing N N 152 LCC "C6'" "H6'2" sing N N 153 LCC P O1P sing N N 154 LCC P O2P doub N N 155 LCC P OXT sing N N 156 LCC O1P H1P sing N N 157 LCC OXT HXT sing N N 158 LCG P OP1 doub N N 159 LCG P "O5'" sing N N 160 LCG P OP2 sing N N 161 LCG P OP3 sing N N 162 LCG "O5'" "C5'" sing N N 163 LCG "C5'" "C4'" sing N N 164 LCG "C5'" "H5'" sing N N 165 LCG "C5'" "H5''" sing N N 166 LCG "C3'" "C2'" sing N N 167 LCG "C3'" "C4'" sing N N 168 LCG "C3'" "O3'" sing N N 169 LCG "C3'" "H3'" sing N N 170 LCG "C6'" "C4'" sing N N 171 LCG "C6'" "O2'" sing N N 172 LCG "C6'" "H6'1" sing N N 173 LCG "C6'" "H6'2" sing N N 174 LCG N9 C8 sing Y N 175 LCG N9 C4 sing Y N 176 LCG N9 "C1'" sing N N 177 LCG C8 N7 doub Y N 178 LCG C8 H8 sing N N 179 LCG C4 C5 doub Y N 180 LCG C4 N3 sing N N 181 LCG N7 C5 sing Y N 182 LCG C5 C6 sing N N 183 LCG C6 O6 doub N N 184 LCG C6 N1 sing N N 185 LCG "C2'" "C1'" sing N N 186 LCG "C2'" "O2'" sing N N 187 LCG "C2'" "H2'" sing N N 188 LCG "C4'" "O4'" sing N N 189 LCG "C1'" "O4'" sing N N 190 LCG "C1'" "H1'" sing N N 191 LCG C2 N1 sing N N 192 LCG C2 N2 sing N N 193 LCG C2 N3 doub N N 194 LCG N1 H1 sing N N 195 LCG OP2 HOP2 sing N N 196 LCG N2 H21 sing N N 197 LCG N2 H22 sing N N 198 LCG "O3'" "HO3'" sing N N 199 LCG OP3 HOP3 sing N N 200 Q1V OP4 P34 doub N N 201 Q1V P34 N13 sing N N 202 Q1V P34 OP3 sing N N 203 Q1V P34 O33 sing N N 204 Q1V N13 C12 sing Y N 205 Q1V N13 C14 doub Y N 206 Q1V C12 C11 doub Y N 207 Q1V O33 C32 sing N N 208 Q1V C14 N15 sing N N 209 Q1V C14 N10 sing Y N 210 Q1V C11 N10 sing Y N 211 Q1V N10 P sing N N 212 Q1V OP2 P doub N N 213 Q1V C32 C28 sing N N 214 Q1V C32 C31 sing N N 215 Q1V P OP1 sing N N 216 Q1V P "O3'" sing N N 217 Q1V O29 C28 sing N N 218 Q1V C28 C27 sing N N 219 Q1V C31 O30 sing N N 220 Q1V C25 N24 doub Y N 221 Q1V C25 N26 sing Y N 222 Q1V N24 C23 sing Y N 223 Q1V N26 C27 sing N N 224 Q1V N26 C22 sing Y N 225 Q1V C27 O30 sing N N 226 Q1V "O3'" "C3'" sing N N 227 Q1V C23 C22 doub Y N 228 Q1V C23 C17 sing N N 229 Q1V O16 C17 doub N N 230 Q1V C22 N21 sing N N 231 Q1V C17 N18 sing N N 232 Q1V N21 C19 doub N N 233 Q1V N18 C19 sing N N 234 Q1V C19 N20 sing N N 235 Q1V "C3'" "C4'" sing N N 236 Q1V "C3'" "C2'" sing N N 237 Q1V "C4'" "O4'" sing N N 238 Q1V "C2'" "O2'" sing N N 239 Q1V "C2'" "C1'" sing N N 240 Q1V C8 N7 doub Y N 241 Q1V C8 N9 sing Y N 242 Q1V "O4'" "C1'" sing N N 243 Q1V N7 C5 sing Y N 244 Q1V N9 "C1'" sing N N 245 Q1V N9 C4 sing Y N 246 Q1V C5 C4 doub Y N 247 Q1V C5 C6 sing N N 248 Q1V O6 C6 doub N N 249 Q1V C4 N3 sing N N 250 Q1V C6 N1 sing N N 251 Q1V N3 C2 doub N N 252 Q1V N1 C2 sing N N 253 Q1V C2 N2 sing N N 254 Q1V OP3 H1 sing N N 255 Q1V OP1 H2 sing N N 256 Q1V "C4'" H3 sing N N 257 Q1V "C4'" H4 sing N N 258 Q1V "C3'" H5 sing N N 259 Q1V "C2'" H6 sing N N 260 Q1V "C1'" H7 sing N N 261 Q1V C8 H8 sing N N 262 Q1V N1 H9 sing N N 263 Q1V N2 H10 sing N N 264 Q1V N2 H11 sing N N 265 Q1V "O2'" H12 sing N N 266 Q1V N15 H13 sing N N 267 Q1V N15 H14 sing N N 268 Q1V C11 H15 sing N N 269 Q1V C12 H16 sing N N 270 Q1V C32 H17 sing N N 271 Q1V C28 H18 sing N N 272 Q1V O29 H19 sing N N 273 Q1V C31 H20 sing N N 274 Q1V C31 H21 sing N N 275 Q1V C27 H22 sing N N 276 Q1V N20 H23 sing N N 277 Q1V N20 H24 sing N N 278 Q1V N18 H25 sing N N 279 Q1V C25 H26 sing N N 280 U OP3 P sing N N 281 U OP3 HOP3 sing N N 282 U P OP1 doub N N 283 U P OP2 sing N N 284 U P "O5'" sing N N 285 U OP2 HOP2 sing N N 286 U "O5'" "C5'" sing N N 287 U "C5'" "C4'" sing N N 288 U "C5'" "H5'" sing N N 289 U "C5'" "H5''" sing N N 290 U "C4'" "O4'" sing N N 291 U "C4'" "C3'" sing N N 292 U "C4'" "H4'" sing N N 293 U "O4'" "C1'" sing N N 294 U "C3'" "O3'" sing N N 295 U "C3'" "C2'" sing N N 296 U "C3'" "H3'" sing N N 297 U "O3'" "HO3'" sing N N 298 U "C2'" "O2'" sing N N 299 U "C2'" "C1'" sing N N 300 U "C2'" "H2'" sing N N 301 U "O2'" "HO2'" sing N N 302 U "C1'" N1 sing N N 303 U "C1'" "H1'" sing N N 304 U N1 C2 sing N N 305 U N1 C6 sing N N 306 U C2 O2 doub N N 307 U C2 N3 sing N N 308 U N3 C4 sing N N 309 U N3 H3 sing N N 310 U C4 O4 doub N N 311 U C4 C5 sing N N 312 U C5 C6 doub N N 313 U C5 H5 sing N N 314 U C6 H6 sing N N 315 # _ndb_struct_conf_na.entry_id 6U8U _ndb_struct_conf_na.feature 'a-form double 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 LCG 4 1_555 B C 13 1_555 -0.256 -0.196 0.283 -3.997 -17.137 -4.901 1 A_LCG4:C13_B A 4 ? B 13 ? 19 1 1 A A 5 1_555 B U 12 1_555 0.028 -0.126 0.487 8.125 -8.559 -1.888 2 A_A5:U12_B A 5 ? B 12 ? 20 1 1 A C 6 1_555 B G 11 1_555 0.295 -0.123 -0.054 10.711 -17.371 1.908 3 A_C6:G11_B A 6 ? B 11 ? 19 1 1 A U 7 1_555 B A 10 1_555 0.202 -0.037 -0.086 4.027 -19.050 0.888 4 A_U7:A10_B A 7 ? B 10 ? 20 1 1 A U 8 1_555 B A 9 1_555 -0.248 -0.103 0.090 -1.517 -9.458 1.191 5 A_U8:A9_B A 8 ? B 9 ? 20 1 1 A A 9 1_555 B U 8 1_555 0.170 0.058 -0.229 -1.050 -13.836 3.895 6 A_A9:U8_B A 9 ? B 8 ? 20 1 1 A A 10 1_555 B U 7 1_555 -0.116 -0.100 -0.053 -7.129 -13.104 4.867 7 A_A10:U7_B A 10 ? B 7 ? 20 1 1 A G 11 1_555 B C 6 1_555 -0.254 0.012 -0.144 -13.485 -17.993 2.322 8 A_G11:C6_B A 11 ? B 6 ? 19 1 1 A U 12 1_555 B A 5 1_555 -0.073 -0.109 0.264 -5.635 -14.658 -5.088 9 A_U12:A5_B A 12 ? B 5 ? 20 1 1 A C 13 1_555 B LCG 4 1_555 0.392 -0.258 0.244 5.258 -9.864 -2.624 10 A_C13:LCG4_B A 13 ? B 4 ? 19 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 LCG 4 1_555 B C 13 1_555 A A 5 1_555 B U 12 1_555 -0.117 -1.733 2.950 -1.284 1.993 30.049 -3.692 -0.007 2.834 3.837 2.472 30.140 1 AA_LCG4A5:U12C13_BB A 4 ? B 13 ? A 5 ? B 12 ? 1 A A 5 1_555 B U 12 1_555 A C 6 1_555 B G 11 1_555 0.286 -1.474 3.153 3.546 2.921 34.710 -2.868 0.032 3.036 4.869 -5.912 35.003 2 AA_A5C6:G11U12_BB A 5 ? B 12 ? A 6 ? B 11 ? 1 A C 6 1_555 B G 11 1_555 A U 7 1_555 B A 10 1_555 -0.605 -1.828 3.411 -3.105 12.110 29.807 -5.330 0.566 2.544 22.345 5.729 32.268 3 AA_C6U7:A10G11_BB A 6 ? B 11 ? A 7 ? B 10 ? 1 A U 7 1_555 B A 10 1_555 A U 8 1_555 B A 9 1_555 -0.289 -1.412 3.414 -4.670 10.603 28.754 -4.651 -0.341 2.746 20.339 8.959 30.955 4 AA_U7U8:A9A10_BB A 7 ? B 10 ? A 8 ? B 9 ? 1 A U 8 1_555 B A 9 1_555 A A 9 1_555 B U 8 1_555 0.353 -1.353 3.169 2.783 14.836 33.270 -4.000 -0.220 2.392 24.410 -4.580 36.446 5 AA_U8A9:U8A9_BB A 8 ? B 9 ? A 9 ? B 8 ? 1 A A 9 1_555 B U 8 1_555 A A 10 1_555 B U 7 1_555 -0.096 -1.326 3.421 -0.608 6.833 31.962 -3.547 0.065 3.080 12.234 1.089 32.671 6 AA_A9A10:U7U8_BB A 9 ? B 8 ? A 10 ? B 7 ? 1 A A 10 1_555 B U 7 1_555 A G 11 1_555 B C 6 1_555 -0.019 -1.506 3.440 3.723 11.249 31.130 -4.466 0.641 2.727 20.072 -6.644 33.256 7 AA_A10G11:C6U7_BB A 10 ? B 7 ? A 11 ? B 6 ? 1 A G 11 1_555 B C 6 1_555 A U 12 1_555 B A 5 1_555 -0.429 -1.310 3.081 -4.010 4.609 32.061 -3.070 0.122 2.901 8.251 7.180 32.623 8 AA_G11U12:A5C6_BB A 11 ? B 6 ? A 12 ? B 5 ? 1 A U 12 1_555 B A 5 1_555 A C 13 1_555 B LCG 4 1_555 0.543 -1.570 3.043 0.162 3.269 31.062 -3.478 -0.981 2.869 6.083 -0.302 31.229 9 AA_U12C13:LCG4A5_BB A 12 ? B 5 ? A 13 ? B 4 ? # _pdbx_audit_support.funding_organization 'Howard Hughes Medical Institute (HHMI)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id Q1V _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id Q1V _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 'MAGNESIUM ION' MG 3 ;2-amino-3-[(R)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1-[(S)-{[(3S,4R,5R)-5-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-4-hydroxyoxolan-3-yl]oxy}(hydroxy)phosphoryl]-1H-imidazol-3-ium ; Q1V 4 water HOH # _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 6C8D _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 ? #