data_5U0Q # _entry.id 5U0Q # _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 5U0Q pdb_00005u0q 10.2210/pdb5u0q/pdb WWPDB D_1000225115 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5U0Q _pdbx_database_status.recvd_initial_deposition_date 2016-11-26 _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 'Luo, Z.' 1 ? 'Sheng, J.' 2 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title ;RNA-DNA heptamer duplex with one 2'-5'-linkage ; _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Luo, Z.' 1 ? primary 'Sheng, J.' 2 ? primary 'Wang, R.' 3 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 96.05 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 5U0Q _cell.details ? _cell.formula_units_Z ? _cell.length_a 26.554 _cell.length_a_esd ? _cell.length_b 52.923 _cell.length_b_esd ? _cell.length_c 27.622 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 4 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5U0Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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(*UP*AP*GP*CP*UP*CP*C)-3') ; 2157.331 2 ? ? ? ? 2 polymer syn ;DNA/RNA (5'-R(*GP*GP*AP*GP*C)-D(P*T)-R(P*A)-3') ; 2258.446 2 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 3 ? ? ? ? 4 non-polymer syn 'COBALT (II) ION' 58.933 1 ? ? ? ? 5 water nat water 18.015 118 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no UAGCUCC UAGCUCC A,C ? 2 'polydeoxyribonucleotide/polyribonucleotide hybrid' no no 'GGAGC(DT)A' GGAGCTA B,D ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 A n 1 3 G n 1 4 C n 1 5 U n 1 6 C n 1 7 C n 2 1 G n 2 2 G n 2 3 A n 2 4 G n 2 5 C n 2 6 DT n 2 7 A n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample 1 7 'synthetic construct' ? 32630 ? 2 1 sample 1 7 'synthetic construct' ? 32630 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 5U0Q 5U0Q ? 1 ? 1 2 PDB 5U0Q 5U0Q ? 2 ? 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 5U0Q A 1 ? 7 ? 5U0Q 1 ? 7 ? 1 7 2 2 5U0Q B 1 ? 7 ? 5U0Q 8 ? 14 ? 8 14 3 1 5U0Q C 1 ? 7 ? 5U0Q 1 ? 7 ? 1 7 4 2 5U0Q D 1 ? 7 ? 5U0Q 8 ? 14 ? 8 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 CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 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 5U0Q _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 2.19 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 43.72 _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 5.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;10% v/v (+/-)-2-Methyl-2,4-pentanediol, 0.040 M Sodium cacodylate trihydrate pH 5.5, 0.020 M Hexamine cobalt(III) chloride, 0.02 M Magnesium chloride hexahydrate ; _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_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2016-10-28 # _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 1.0 _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 8.2.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.0 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 5U0Q _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.43 _reflns.d_resolution_low 50.00 _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 14036 _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 98.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.0 _reflns.pdbx_Rmerge_I_obs 0.055 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 17.6 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _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 ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.43 _reflns_shell.d_res_low 1.48 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2 _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 99.9 _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 0.614 _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 3.0 _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 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] 3.42 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] -1.16 _refine.aniso_B[2][2] -1.49 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] -1.64 _refine.B_iso_max ? _refine.B_iso_mean 24.656 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.978 _refine.correlation_coeff_Fo_to_Fc_free 0.975 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _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 5U0Q _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 1.43 _refine.ls_d_res_low 18.11 _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 13355 _refine.ls_number_reflns_R_free 662 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.59 _refine.ls_percent_reflns_R_free 4.7 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.15376 _refine.ls_R_factor_R_free 0.17692 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.15269 _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 5TKO _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.071 _refine.pdbx_overall_ESU_R_Free 0.059 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _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 3.572 _refine.overall_SU_ML 0.056 _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 1 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 584 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 118 _refine_hist.number_atoms_total 706 _refine_hist.d_res_high 1.43 _refine_hist.d_res_low 18.11 # 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' ? 0.012 0.011 650 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.005 0.020 286 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.755 1.261 998 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 5.576 3.000 684 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'X-RAY DIFFRACTION' ? 0.114 0.200 110 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.023 0.020 330 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.010 0.020 144 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 3.418 4.646 650 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 3.416 4.646 651 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 3.734 8.807 999 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 5.601 21.568 979 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 5.560 21.513 976 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? 4.285 3.000 936 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? 36.362 5.000 64 ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? 19.732 5.000 928 ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.426 _refine_ls_shell.d_res_low 1.503 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 85 _refine_ls_shell.number_reflns_R_work 1915 _refine_ls_shell.percent_reflns_obs 97.47 _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 0.239 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.255 _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 10 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 5U0Q _struct.title ;RNA-DNA heptamer duplex with one 2'-5'-linkage ; _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 5U0Q _struct_keywords.text ;2'-5'-LINKAGE, RNA-DNA, RNA, DNA ; _struct_keywords.pdbx_keywords 'RNA, DNA' # 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 1 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 3 ? H N N 3 ? I N N 5 ? J N N 5 ? K N N 5 ? L N N 5 ? # 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 one ? A A 2 "O2'" ? ? ? 1_555 A G 3 P ? ? A A 2 A G 3 1_555 ? ? ? ? ? ? ? 1.652 ? ? covale2 covale one ? C A 2 "O2'" ? ? ? 1_555 C G 3 P ? ? C A 2 C G 3 1_555 ? ? ? ? ? ? ? 1.648 ? ? metalc1 metalc ? ? E MG . MG ? ? ? 1_555 J HOH . O ? ? B MG 101 B HOH 228 1_555 ? ? ? ? ? ? ? 1.729 ? ? metalc2 metalc ? ? F CO . CO ? ? ? 1_555 K HOH . O ? ? C CO 101 C HOH 212 1_555 ? ? ? ? ? ? ? 1.949 ? ? metalc3 metalc ? ? F CO . CO ? ? ? 1_555 K HOH . O ? ? C CO 101 C HOH 227 1_555 ? ? ? ? ? ? ? 2.154 ? ? metalc4 metalc ? ? G MG . MG ? ? ? 1_555 K HOH . O ? ? C MG 102 C HOH 220 1_555 ? ? ? ? ? ? ? 2.462 ? ? metalc5 metalc ? ? H MG . MG ? ? ? 1_555 L HOH . O ? ? D MG 101 D HOH 216 1_555 ? ? ? ? ? ? ? 2.079 ? ? hydrog1 hydrog ? ? A A 2 N6 ? ? ? 1_555 B DT 6 O2 ? ? A A 2 B DT 13 1_555 ? ? ? ? ? ? 'A-DT PAIR' ? ? ? hydrog2 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 3 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 4 B G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 5 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 5 B A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 6 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 7 B G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? C A 2 N6 ? ? ? 1_555 D DT 6 O2 ? ? C A 2 D DT 13 1_555 ? ? ? ? ? ? 'A-DT PAIR' ? ? ? hydrog17 hydrog ? ? C G 3 N1 ? ? ? 1_555 D C 5 N3 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C G 3 N2 ? ? ? 1_555 D C 5 O2 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C G 3 O6 ? ? ? 1_555 D C 5 N4 ? ? C G 3 D C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C C 4 N3 ? ? ? 1_555 D G 4 N1 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C C 4 N4 ? ? ? 1_555 D G 4 O6 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C C 4 O2 ? ? ? 1_555 D G 4 N2 ? ? C C 4 D G 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C U 5 N3 ? ? ? 1_555 D A 3 N1 ? ? C U 5 D A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C U 5 O4 ? ? ? 1_555 D A 3 N6 ? ? C U 5 D A 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C C 6 N3 ? ? ? 1_555 D G 2 N1 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C C 6 N4 ? ? ? 1_555 D G 2 O6 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C C 6 O2 ? ? ? 1_555 D G 2 N2 ? ? C C 6 D G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C C 7 N3 ? ? ? 1_555 D G 1 N1 ? ? C C 7 D G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C C 7 N4 ? ? ? 1_555 D G 1 O6 ? ? C C 7 D G 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C C 7 O2 ? ? ? 1_555 D G 1 N2 ? ? C C 7 D G 8 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 B MG 101 ? 1 'binding site for residue MG B 101' AC2 Software C CO 101 ? 2 'binding site for residue CO C 101' AC3 Software C MG 102 ? 2 'binding site for residue MG C 102' AC4 Software D MG 101 ? 1 'binding site for residue MG D 101' AC5 Software C A 2 ? 19 'binding site for Di-nucleotide A C 2 and G C 3' # 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 1 HOH J . ? HOH B 228 . ? 1_555 ? 2 AC2 2 HOH K . ? HOH C 212 . ? 1_555 ? 3 AC2 2 HOH K . ? HOH C 227 . ? 1_555 ? 4 AC3 2 HOH K . ? HOH C 215 . ? 1_555 ? 5 AC3 2 HOH K . ? HOH C 220 . ? 1_555 ? 6 AC4 1 HOH L . ? HOH D 216 . ? 1_555 ? 7 AC5 19 A A 2 ? A A 2 . ? 1_455 ? 8 AC5 19 HOH I . ? HOH A 103 . ? 1_455 ? 9 AC5 19 HOH I . ? HOH A 111 . ? 1_454 ? 10 AC5 19 HOH I . ? HOH A 113 . ? 1_455 ? 11 AC5 19 HOH I . ? HOH A 127 . ? 1_455 ? 12 AC5 19 A B 3 ? A B 10 . ? 1_454 ? 13 AC5 19 G B 4 ? G B 11 . ? 1_454 ? 14 AC5 19 C B 5 ? C B 12 . ? 1_454 ? 15 AC5 19 HOH J . ? HOH B 208 . ? 1_454 ? 16 AC5 19 U C 1 ? U C 1 . ? 1_555 ? 17 AC5 19 C C 4 ? C C 4 . ? 1_555 ? 18 AC5 19 HOH K . ? HOH C 201 . ? 1_555 ? 19 AC5 19 HOH K . ? HOH C 204 . ? 1_555 ? 20 AC5 19 HOH K . ? HOH C 205 . ? 1_555 ? 21 AC5 19 HOH K . ? HOH C 210 . ? 1_555 ? 22 AC5 19 HOH K . ? HOH C 211 . ? 1_555 ? 23 AC5 19 HOH K . ? HOH C 217 . ? 1_555 ? 24 AC5 19 C D 5 ? C D 12 . ? 1_555 ? 25 AC5 19 DT D 6 ? DT D 13 . ? 1_555 ? # _atom_sites.entry_id 5U0Q _atom_sites.fract_transf_matrix[1][1] 0.037659 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.003993 _atom_sites.fract_transf_matrix[2][1] -0.000000 _atom_sites.fract_transf_matrix[2][2] 0.018895 _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] 0.036406 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CO 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 U 1 1 1 U U A . n A 1 2 A 2 2 2 A A A . n A 1 3 G 3 3 3 G G A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 C 6 6 6 C C A . n A 1 7 C 7 7 7 C C A . n B 2 1 G 1 8 8 G G B . n B 2 2 G 2 9 9 G G B . n B 2 3 A 3 10 10 A A B . n B 2 4 G 4 11 11 G G B . n B 2 5 C 5 12 12 C C B . n B 2 6 DT 6 13 13 DT DT B . n B 2 7 A 7 14 14 A A B . n C 1 1 U 1 1 1 U U C . n C 1 2 A 2 2 2 A A C . n C 1 3 G 3 3 3 G G C . n C 1 4 C 4 4 4 C C C . n C 1 5 U 5 5 5 U U C . n C 1 6 C 6 6 6 C C C . n C 1 7 C 7 7 7 C C C . n D 2 1 G 1 8 8 G G D . n D 2 2 G 2 9 9 G G D . n D 2 3 A 3 10 10 A A D . n D 2 4 G 4 11 11 G G D . n D 2 5 C 5 12 12 C C D . n D 2 6 DT 6 13 13 DT DT D . n D 2 7 A 7 14 14 A A D . 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 E 3 MG 1 101 21 MG MG B . F 4 CO 1 101 21 CO CO C . G 3 MG 1 102 22 MG MG C . H 3 MG 1 101 21 MG MG D . I 5 HOH 1 101 122 HOH HOH A . I 5 HOH 2 102 115 HOH HOH A . I 5 HOH 3 103 110 HOH HOH A . I 5 HOH 4 104 133 HOH HOH A . I 5 HOH 5 105 101 HOH HOH A . I 5 HOH 6 106 116 HOH HOH A . I 5 HOH 7 107 119 HOH HOH A . I 5 HOH 8 108 104 HOH HOH A . I 5 HOH 9 109 112 HOH HOH A . I 5 HOH 10 110 125 HOH HOH A . I 5 HOH 11 111 127 HOH HOH A . I 5 HOH 12 112 123 HOH HOH A . I 5 HOH 13 113 109 HOH HOH A . I 5 HOH 14 114 108 HOH HOH A . I 5 HOH 15 115 121 HOH HOH A . I 5 HOH 16 116 118 HOH HOH A . I 5 HOH 17 117 111 HOH HOH A . I 5 HOH 18 118 114 HOH HOH A . I 5 HOH 19 119 106 HOH HOH A . I 5 HOH 20 120 131 HOH HOH A . I 5 HOH 21 121 130 HOH HOH A . I 5 HOH 22 122 103 HOH HOH A . I 5 HOH 23 123 134 HOH HOH A . I 5 HOH 24 124 129 HOH HOH A . I 5 HOH 25 125 102 HOH HOH A . I 5 HOH 26 126 126 HOH HOH A . I 5 HOH 27 127 105 HOH HOH A . I 5 HOH 28 128 124 HOH HOH A . I 5 HOH 29 129 117 HOH HOH A . I 5 HOH 30 130 120 HOH HOH A . I 5 HOH 31 131 113 HOH HOH A . I 5 HOH 32 132 128 HOH HOH A . I 5 HOH 33 133 132 HOH HOH A . J 5 HOH 1 201 115 HOH HOH B . J 5 HOH 2 202 106 HOH HOH B . J 5 HOH 3 203 113 HOH HOH B . J 5 HOH 4 204 103 HOH HOH B . J 5 HOH 5 205 117 HOH HOH B . J 5 HOH 6 206 124 HOH HOH B . J 5 HOH 7 207 123 HOH HOH B . J 5 HOH 8 208 109 HOH HOH B . J 5 HOH 9 209 107 HOH HOH B . J 5 HOH 10 210 110 HOH HOH B . J 5 HOH 11 211 126 HOH HOH B . J 5 HOH 12 212 102 HOH HOH B . J 5 HOH 13 213 119 HOH HOH B . J 5 HOH 14 214 129 HOH HOH B . J 5 HOH 15 215 133 HOH HOH B . J 5 HOH 16 216 118 HOH HOH B . J 5 HOH 17 217 105 HOH HOH B . J 5 HOH 18 218 112 HOH HOH B . J 5 HOH 19 219 104 HOH HOH B . J 5 HOH 20 220 114 HOH HOH B . J 5 HOH 21 221 116 HOH HOH B . J 5 HOH 22 222 121 HOH HOH B . J 5 HOH 23 223 125 HOH HOH B . J 5 HOH 24 224 111 HOH HOH B . J 5 HOH 25 225 108 HOH HOH B . J 5 HOH 26 226 127 HOH HOH B . J 5 HOH 27 227 101 HOH HOH B . J 5 HOH 28 228 131 HOH HOH B . J 5 HOH 29 229 120 HOH HOH B . J 5 HOH 30 230 130 HOH HOH B . J 5 HOH 31 231 128 HOH HOH B . J 5 HOH 32 232 122 HOH HOH B . J 5 HOH 33 233 132 HOH HOH B . K 5 HOH 1 201 115 HOH HOH C . K 5 HOH 2 202 118 HOH HOH C . K 5 HOH 3 203 103 HOH HOH C . K 5 HOH 4 204 121 HOH HOH C . K 5 HOH 5 205 107 HOH HOH C . K 5 HOH 6 206 110 HOH HOH C . K 5 HOH 7 207 108 HOH HOH C . K 5 HOH 8 208 113 HOH HOH C . K 5 HOH 9 209 125 HOH HOH C . K 5 HOH 10 210 106 HOH HOH C . K 5 HOH 11 211 102 HOH HOH C . K 5 HOH 12 212 124 HOH HOH C . K 5 HOH 13 213 127 HOH HOH C . K 5 HOH 14 214 104 HOH HOH C . K 5 HOH 15 215 126 HOH HOH C . K 5 HOH 16 216 105 HOH HOH C . K 5 HOH 17 217 111 HOH HOH C . K 5 HOH 18 218 119 HOH HOH C . K 5 HOH 19 219 109 HOH HOH C . K 5 HOH 20 220 112 HOH HOH C . K 5 HOH 21 221 122 HOH HOH C . K 5 HOH 22 222 116 HOH HOH C . K 5 HOH 23 223 114 HOH HOH C . K 5 HOH 24 224 117 HOH HOH C . K 5 HOH 25 225 102 HOH HOH C . K 5 HOH 26 226 101 HOH HOH C . K 5 HOH 27 227 123 HOH HOH C . L 5 HOH 1 201 105 HOH HOH D . L 5 HOH 2 202 108 HOH HOH D . L 5 HOH 3 203 120 HOH HOH D . L 5 HOH 4 204 106 HOH HOH D . L 5 HOH 5 205 115 HOH HOH D . L 5 HOH 6 206 109 HOH HOH D . L 5 HOH 7 207 114 HOH HOH D . L 5 HOH 8 208 110 HOH HOH D . L 5 HOH 9 209 107 HOH HOH D . L 5 HOH 10 210 116 HOH HOH D . L 5 HOH 11 211 113 HOH HOH D . L 5 HOH 12 212 107 HOH HOH D . L 5 HOH 13 213 103 HOH HOH D . L 5 HOH 14 214 121 HOH HOH D . L 5 HOH 15 215 104 HOH HOH D . L 5 HOH 16 216 123 HOH HOH D . L 5 HOH 17 217 117 HOH HOH D . L 5 HOH 18 218 111 HOH HOH D . L 5 HOH 19 219 119 HOH HOH D . L 5 HOH 20 220 101 HOH HOH D . L 5 HOH 21 221 118 HOH HOH D . L 5 HOH 22 222 120 HOH HOH D . L 5 HOH 23 223 122 HOH HOH D . L 5 HOH 24 224 124 HOH HOH D . L 5 HOH 25 225 112 HOH HOH D . # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,I,J 2 1 C,D,F,G,H,K,L # 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)' 720 ? 1 MORE -4 ? 1 'SSA (A^2)' 2790 ? 2 'ABSA (A^2)' 960 ? 2 MORE -20 ? 2 'SSA (A^2)' 3000 ? # _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 # _pdbx_struct_conn_angle.id 1 _pdbx_struct_conn_angle.ptnr1_label_atom_id O _pdbx_struct_conn_angle.ptnr1_label_alt_id ? _pdbx_struct_conn_angle.ptnr1_label_asym_id K _pdbx_struct_conn_angle.ptnr1_label_comp_id HOH _pdbx_struct_conn_angle.ptnr1_label_seq_id . _pdbx_struct_conn_angle.ptnr1_auth_atom_id ? _pdbx_struct_conn_angle.ptnr1_auth_asym_id C _pdbx_struct_conn_angle.ptnr1_auth_comp_id HOH _pdbx_struct_conn_angle.ptnr1_auth_seq_id 212 _pdbx_struct_conn_angle.ptnr1_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr1_symmetry 1_555 _pdbx_struct_conn_angle.ptnr2_label_atom_id CO _pdbx_struct_conn_angle.ptnr2_label_alt_id ? _pdbx_struct_conn_angle.ptnr2_label_asym_id F _pdbx_struct_conn_angle.ptnr2_label_comp_id CO _pdbx_struct_conn_angle.ptnr2_label_seq_id . _pdbx_struct_conn_angle.ptnr2_auth_atom_id ? _pdbx_struct_conn_angle.ptnr2_auth_asym_id C _pdbx_struct_conn_angle.ptnr2_auth_comp_id CO _pdbx_struct_conn_angle.ptnr2_auth_seq_id 101 _pdbx_struct_conn_angle.ptnr2_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr2_symmetry 1_555 _pdbx_struct_conn_angle.ptnr3_label_atom_id O _pdbx_struct_conn_angle.ptnr3_label_alt_id ? _pdbx_struct_conn_angle.ptnr3_label_asym_id K _pdbx_struct_conn_angle.ptnr3_label_comp_id HOH _pdbx_struct_conn_angle.ptnr3_label_seq_id . _pdbx_struct_conn_angle.ptnr3_auth_atom_id ? _pdbx_struct_conn_angle.ptnr3_auth_asym_id C _pdbx_struct_conn_angle.ptnr3_auth_comp_id HOH _pdbx_struct_conn_angle.ptnr3_auth_seq_id 227 _pdbx_struct_conn_angle.ptnr3_PDB_ins_code ? _pdbx_struct_conn_angle.ptnr3_symmetry 1_555 _pdbx_struct_conn_angle.value 166.9 _pdbx_struct_conn_angle.value_esd ? # 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 2017-11-29 2 'Structure model' 1 1 2018-01-17 3 'Structure model' 1 2 2018-03-28 4 'Structure model' 1 3 2023-10-04 # _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' 'Author supporting evidence' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Source and taxonomy' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 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' pdbx_audit_support 2 3 'Structure model' pdbx_entity_src_syn 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 3 'Structure model' '_pdbx_entity_src_syn.ncbi_taxonomy_id' 2 3 'Structure model' '_pdbx_entity_src_syn.organism_scientific' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 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 ? ? ? 5.8.0103 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 B _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 204 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 B _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 232 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.92 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" B DT 13 ? ? P B A 14 ? ? 1.506 1.607 -0.101 0.012 Y 2 1 "O3'" D DT 13 ? ? P D A 14 ? ? 1.509 1.607 -0.098 0.012 Y # 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 "C5'" A U 1 ? ? "C4'" A U 1 ? ? "O4'" A U 1 ? ? 115.36 109.80 5.56 0.90 N 2 1 "C5'" B G 8 ? ? "C4'" B G 8 ? ? "O4'" B G 8 ? ? 116.40 109.80 6.60 0.90 N 3 1 "C5'" C U 1 ? ? "C4'" C U 1 ? ? "O4'" C U 1 ? ? 115.85 109.80 6.05 0.90 N 4 1 "O5'" C C 4 ? ? P C C 4 ? ? OP2 C C 4 ? ? 98.58 105.70 -7.12 0.90 N 5 1 "O5'" C C 6 ? ? "C5'" C C 6 ? ? "C4'" C C 6 ? ? 104.50 109.40 -4.90 0.80 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 CO CO CO N N 73 DT OP3 O N N 74 DT P P N N 75 DT OP1 O N N 76 DT OP2 O N N 77 DT "O5'" O N N 78 DT "C5'" C N N 79 DT "C4'" C N R 80 DT "O4'" O N N 81 DT "C3'" C N S 82 DT "O3'" O N N 83 DT "C2'" C N N 84 DT "C1'" C N R 85 DT N1 N N N 86 DT C2 C N N 87 DT O2 O N N 88 DT N3 N N N 89 DT C4 C N N 90 DT O4 O N N 91 DT C5 C N N 92 DT C7 C N N 93 DT C6 C N N 94 DT HOP3 H N N 95 DT HOP2 H N N 96 DT "H5'" H N N 97 DT "H5''" H N N 98 DT "H4'" H N N 99 DT "H3'" H N N 100 DT "HO3'" H N N 101 DT "H2'" H N N 102 DT "H2''" H N N 103 DT "H1'" H N N 104 DT H3 H N N 105 DT H71 H N N 106 DT H72 H N N 107 DT H73 H N N 108 DT H6 H N N 109 G OP3 O N N 110 G P P N N 111 G OP1 O N N 112 G OP2 O N N 113 G "O5'" O N N 114 G "C5'" C N N 115 G "C4'" C N R 116 G "O4'" O N N 117 G "C3'" C N S 118 G "O3'" O N N 119 G "C2'" C N R 120 G "O2'" O N N 121 G "C1'" C N R 122 G N9 N Y N 123 G C8 C Y N 124 G N7 N Y N 125 G C5 C Y N 126 G C6 C N N 127 G O6 O N N 128 G N1 N N N 129 G C2 C N N 130 G N2 N N N 131 G N3 N N N 132 G C4 C Y N 133 G HOP3 H N N 134 G HOP2 H N N 135 G "H5'" H N N 136 G "H5''" H N N 137 G "H4'" H N N 138 G "H3'" H N N 139 G "HO3'" H N N 140 G "H2'" H N N 141 G "HO2'" H N N 142 G "H1'" H N N 143 G H8 H N N 144 G H1 H N N 145 G H21 H N N 146 G H22 H N N 147 HOH O O N N 148 HOH H1 H N N 149 HOH H2 H N N 150 MG MG MG N N 151 U OP3 O N N 152 U P P N N 153 U OP1 O N N 154 U OP2 O N N 155 U "O5'" O N N 156 U "C5'" C N N 157 U "C4'" C N R 158 U "O4'" O N N 159 U "C3'" C N S 160 U "O3'" O N N 161 U "C2'" C N R 162 U "O2'" O N N 163 U "C1'" C N R 164 U N1 N N N 165 U C2 C N N 166 U O2 O N N 167 U N3 N N N 168 U C4 C N N 169 U O4 O N N 170 U C5 C N N 171 U C6 C N N 172 U HOP3 H N N 173 U HOP2 H N N 174 U "H5'" H N N 175 U "H5''" H N N 176 U "H4'" H N N 177 U "H3'" H N N 178 U "HO3'" H N N 179 U "H2'" H N N 180 U "HO2'" H N N 181 U "H1'" H N N 182 U H3 H N N 183 U H5 H N N 184 U H6 H N N 185 # 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 DT OP3 P sing N N 76 DT OP3 HOP3 sing N N 77 DT P OP1 doub N N 78 DT P OP2 sing N N 79 DT P "O5'" sing N N 80 DT OP2 HOP2 sing N N 81 DT "O5'" "C5'" sing N N 82 DT "C5'" "C4'" sing N N 83 DT "C5'" "H5'" sing N N 84 DT "C5'" "H5''" sing N N 85 DT "C4'" "O4'" sing N N 86 DT "C4'" "C3'" sing N N 87 DT "C4'" "H4'" sing N N 88 DT "O4'" "C1'" sing N N 89 DT "C3'" "O3'" sing N N 90 DT "C3'" "C2'" sing N N 91 DT "C3'" "H3'" sing N N 92 DT "O3'" "HO3'" sing N N 93 DT "C2'" "C1'" sing N N 94 DT "C2'" "H2'" sing N N 95 DT "C2'" "H2''" sing N N 96 DT "C1'" N1 sing N N 97 DT "C1'" "H1'" sing N N 98 DT N1 C2 sing N N 99 DT N1 C6 sing N N 100 DT C2 O2 doub N N 101 DT C2 N3 sing N N 102 DT N3 C4 sing N N 103 DT N3 H3 sing N N 104 DT C4 O4 doub N N 105 DT C4 C5 sing N N 106 DT C5 C7 sing N N 107 DT C5 C6 doub N N 108 DT C7 H71 sing N N 109 DT C7 H72 sing N N 110 DT C7 H73 sing N N 111 DT C6 H6 sing N N 112 G OP3 P sing N N 113 G OP3 HOP3 sing N N 114 G P OP1 doub N N 115 G P OP2 sing N N 116 G P "O5'" sing N N 117 G OP2 HOP2 sing N N 118 G "O5'" "C5'" sing N N 119 G "C5'" "C4'" sing N N 120 G "C5'" "H5'" sing N N 121 G "C5'" "H5''" sing N N 122 G "C4'" "O4'" sing N N 123 G "C4'" "C3'" sing N N 124 G "C4'" "H4'" sing N N 125 G "O4'" "C1'" sing N N 126 G "C3'" "O3'" sing N N 127 G "C3'" "C2'" sing N N 128 G "C3'" "H3'" sing N N 129 G "O3'" "HO3'" sing N N 130 G "C2'" "O2'" sing N N 131 G "C2'" "C1'" sing N N 132 G "C2'" "H2'" sing N N 133 G "O2'" "HO2'" sing N N 134 G "C1'" N9 sing N N 135 G "C1'" "H1'" sing N N 136 G N9 C8 sing Y N 137 G N9 C4 sing Y N 138 G C8 N7 doub Y N 139 G C8 H8 sing N N 140 G N7 C5 sing Y N 141 G C5 C6 sing N N 142 G C5 C4 doub Y N 143 G C6 O6 doub N N 144 G C6 N1 sing N N 145 G N1 C2 sing N N 146 G N1 H1 sing N N 147 G C2 N2 sing N N 148 G C2 N3 doub N N 149 G N2 H21 sing N N 150 G N2 H22 sing N N 151 G N3 C4 sing N N 152 HOH O H1 sing N N 153 HOH O H2 sing N N 154 U OP3 P sing N N 155 U OP3 HOP3 sing N N 156 U P OP1 doub N N 157 U P OP2 sing N N 158 U P "O5'" sing N N 159 U OP2 HOP2 sing N N 160 U "O5'" "C5'" sing N N 161 U "C5'" "C4'" sing N N 162 U "C5'" "H5'" sing N N 163 U "C5'" "H5''" sing N N 164 U "C4'" "O4'" sing N N 165 U "C4'" "C3'" sing N N 166 U "C4'" "H4'" sing N N 167 U "O4'" "C1'" sing N N 168 U "C3'" "O3'" sing N N 169 U "C3'" "C2'" sing N N 170 U "C3'" "H3'" sing N N 171 U "O3'" "HO3'" sing N N 172 U "C2'" "O2'" sing N N 173 U "C2'" "C1'" sing N N 174 U "C2'" "H2'" sing N N 175 U "O2'" "HO2'" sing N N 176 U "C1'" N1 sing N N 177 U "C1'" "H1'" sing N N 178 U N1 C2 sing N N 179 U N1 C6 sing N N 180 U C2 O2 doub N N 181 U C2 N3 sing N N 182 U N3 C4 sing N N 183 U N3 H3 sing N N 184 U C4 O4 doub N N 185 U C4 C5 sing N N 186 U C5 C6 doub N N 187 U C5 H5 sing N N 188 U C6 H6 sing N N 189 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5U0Q 'double helix' 5U0Q '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 A 2 1_555 B DT 6 1_555 -2.185 2.241 0.375 -2.474 -2.555 110.585 1 A_A2:DT13_B A 2 ? B 13 ? ? ? 1 A G 3 1_555 B C 5 1_555 -0.151 -0.110 0.219 7.668 -3.949 -2.176 2 A_G3:C12_B A 3 ? B 12 ? 19 1 1 A C 4 1_555 B G 4 1_555 0.177 -0.066 -0.149 11.544 -6.532 -1.102 3 A_C4:G11_B A 4 ? B 11 ? 19 1 1 A U 5 1_555 B A 3 1_555 0.008 -0.046 -0.219 12.873 -5.573 0.054 4 A_U5:A10_B A 5 ? B 10 ? 20 1 1 A C 6 1_555 B G 2 1_555 0.244 -0.114 0.009 4.590 -14.079 2.435 5 A_C6:G9_B A 6 ? B 9 ? 19 1 1 A C 7 1_555 B G 1 1_555 0.302 -0.118 -0.103 4.627 -5.335 -0.654 6 A_C7:G8_B A 7 ? B 8 ? 19 1 1 D G 1 1_555 C C 7 1_555 -0.360 -0.170 -0.050 -6.239 -0.950 -0.948 7 D_G8:C7_C D 8 ? C 7 ? 19 1 1 D G 2 1_555 C C 6 1_555 -0.428 -0.078 0.023 -3.334 -8.253 2.912 8 D_G9:C6_C D 9 ? C 6 ? 19 1 1 D A 3 1_555 C U 5 1_555 0.087 -0.110 0.018 1.586 -6.717 5.348 9 D_A10:U5_C D 10 ? C 5 ? 20 1 1 D G 4 1_555 C C 4 1_555 -0.191 -0.071 -0.205 -9.922 -12.802 2.420 10 D_G11:C4_C D 11 ? C 4 ? 19 1 1 D C 5 1_555 C G 3 1_555 0.146 -0.103 -0.046 -3.403 -4.353 -1.304 11 D_C12:G3_C D 12 ? C 3 ? 19 1 1 D DT 6 1_555 C A 2 1_555 2.243 -2.546 -0.634 9.681 2.329 -107.297 12 D_DT13:A2_C D 13 ? C 2 ? ? ? # 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 A 2 1_555 B DT 6 1_555 A G 3 1_555 B C 5 1_555 -2.758 -1.610 -1.564 109.422 -131.213 -18.289 0.384 -1.736 0.274 68.560 57.174 -170.968 1 AA_A2G3:C12DT13_BB A 2 ? B 13 ? A 3 ? B 12 ? 1 A G 3 1_555 B C 5 1_555 A C 4 1_555 B G 4 1_555 0.197 -1.975 3.258 1.060 1.828 32.024 -3.895 -0.169 3.148 3.309 -1.919 32.092 2 AA_G3C4:G11C12_BB A 3 ? B 12 ? A 4 ? B 11 ? 1 A C 4 1_555 B G 4 1_555 A U 5 1_555 B A 3 1_555 -0.846 -2.100 3.290 -3.846 4.442 24.083 -6.196 0.844 2.958 10.449 9.046 24.780 3 AA_C4U5:A10G11_BB A 4 ? B 11 ? A 5 ? B 10 ? 1 A U 5 1_555 B A 3 1_555 A C 6 1_555 B G 2 1_555 0.808 -1.947 3.344 -0.486 6.947 36.651 -3.936 -1.327 2.929 10.926 0.765 37.285 4 AA_U5C6:G9A10_BB A 5 ? B 10 ? A 6 ? B 9 ? 1 A C 6 1_555 B G 2 1_555 A C 7 1_555 B G 1 1_555 -0.687 -2.023 3.220 0.236 6.283 30.183 -4.936 1.336 2.747 11.903 -0.447 30.816 5 AA_C6C7:G8G9_BB A 6 ? B 9 ? A 7 ? B 8 ? 1 A C 7 1_555 B G 1 1_555 D G 1 1_555 C C 7 1_555 -0.227 -3.642 3.572 -0.101 2.500 -19.142 9.406 -0.735 4.008 -7.476 -0.303 -19.304 6 AD_C7G8:C7G8_CB A 7 ? B 8 ? D 8 ? C 7 ? 1 D G 1 1_555 C C 7 1_555 D G 2 1_555 C C 6 1_555 0.553 -2.315 3.176 1.011 3.548 30.367 -5.044 -0.862 2.909 6.742 -1.922 30.585 7 DD_G8G9:C6C7_CC D 8 ? C 7 ? D 9 ? C 6 ? 1 D G 2 1_555 C C 6 1_555 D A 3 1_555 C U 5 1_555 -0.591 -2.047 3.130 -1.465 4.530 26.901 -5.362 0.919 2.781 9.641 3.117 27.312 8 DD_G9A10:U5C6_CC D 9 ? C 6 ? D 10 ? C 5 ? 1 D A 3 1_555 C U 5 1_555 D G 4 1_555 C C 4 1_555 0.837 -2.254 3.527 4.897 8.681 30.884 -5.577 -0.631 2.899 15.794 -8.909 32.415 9 DD_A10G11:C4U5_CC D 10 ? C 5 ? D 11 ? C 4 ? 1 D G 4 1_555 C C 4 1_555 D C 5 1_555 C G 3 1_555 -0.827 -2.568 3.127 -1.064 2.363 26.663 -6.111 1.529 2.923 5.109 2.299 26.787 10 DD_G11C12:G3C4_CC D 11 ? C 4 ? D 12 ? C 3 ? 1 D C 5 1_555 C G 3 1_555 D DT 6 1_555 C A 2 1_555 0.286 -1.700 3.268 8.153 1.215 97.589 -1.147 -0.055 3.264 0.806 -5.411 97.848 11 DD_C12DT13:A2G3_CC D 12 ? C 3 ? D 13 ? C 2 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'MAGNESIUM ION' MG 4 'COBALT (II) ION' CO 5 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 5TKO _pdbx_initial_refinement_model.details ? #