data_8F5C # _entry.id 8F5C # _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 8F5C pdb_00008f5c 10.2210/pdb8f5c/pdb WWPDB D_1000270027 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8F5C _pdbx_database_status.recvd_initial_deposition_date 2022-11-13 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Zhang, W.' 1 ? 'Dantsu, Y.' 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 DE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Chemistryselect _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2365-6549 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title ;Synthesis and Structural Characterization of 2'-Deoxy-2'-Methoxy-L-Cytidine Nucleic Acids ; _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/slct.202301966 _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Dantsu, Y.' 1 ? primary 'Zhang, W.' 2 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8F5C _cell.details ? _cell.formula_units_Z ? _cell.length_a 41.900 _cell.length_a_esd ? _cell.length_b 41.900 _cell.length_b_esd ? _cell.length_c 23.820 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8F5C _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*(0DG))-R(P*(XE6))-D(P*(0DG)P*(0DT)P*(0DA)P*(0DC)P*(0DG)P*(0DC))-3') ; 2457.631 1 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 3 water nat water 18.015 53 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(0DG)(XE6)(0DG)(0DT)(0DA)(0DC)(0DG)(0DC)' _entity_poly.pdbx_seq_one_letter_code_can GXGTACGC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 0DG n 1 2 XE6 n 1 3 0DG n 1 4 0DT n 1 5 0DA n 1 6 0DC n 1 7 0DG n 1 8 0DC 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 8 _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 8F5C _struct_ref.pdbx_db_accession 8F5C _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8F5C _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 8 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8F5C _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 8 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 8 # 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 0DA 'L-DNA linking' . ;2'-DEOXY-L-RIBO-FURANOSYL ADENOSINE-5'-MONOPHOSPHATE ; ? 'C10 H14 N5 O6 P' 331.222 0DC 'L-DNA linking' . ;2'-DEOXY-L-RIBO-FURANOSYL CYTOSINE-5'-MONOPHOSPHATE ; ? 'C9 H14 N3 O7 P' 307.197 0DG 'L-DNA linking' . ;2'-DEOXY-L-RIBO-FURANOSYL GUANINE-5'-MONOPHOSPHATE ; ? 'C10 H14 N5 O7 P' 347.221 0DT 'L-DNA linking' . ;2'-DEOXY-L-RIBO-FURANOSYL THYMIDINE-5'-MONOPHOSPHATE ; ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 XE6 'RNA linking' . '4-amino-1-(2-O-methyl-5-O-phosphono-beta-L-ribofuranosyl)pyrimidin-2(1H)-one' ? 'C10 H16 N3 O8 P' 337.223 # _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 8F5C _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 2.18 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 42.17 _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.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_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 7.5 _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 '0.1M Magnesium chloride, 0.1 M HEPES sodium pH 7.5, 20% v/v (+/-)-2-Methyl-2,4-pentanediol' _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 'RAYONIX MX-300' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2022-10-15 _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 0.9787 _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 'APS BEAMLINE 21-ID-F' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9787 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 21-ID-F _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8F5C _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.15 _reflns.d_resolution_low 23.82 _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 7947 _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 99.8 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 13 _reflns.pdbx_Rmerge_I_obs 0.04 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 28.1 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.98 _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 0.043 _reflns.pdbx_Rpim_I_all 0.016 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # _reflns_shell.d_res_high 1.15 _reflns_shell.d_res_low 1.18 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 3.0 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 558 _reflns_shell.percent_possible_all 97.4 _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 0.723 _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 0.78 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.795 _reflns_shell.pdbx_Rpim_I_all 0.325 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] 0.00 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] -0.00 _refine.aniso_B[2][2] 0.00 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] -0.01 _refine.B_iso_max ? _refine.B_iso_mean 18.957 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.975 _refine.correlation_coeff_Fo_to_Fc_free 0.982 _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 8F5C _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 1.15 _refine.ls_d_res_low 20.71 _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 7547 _refine.ls_number_reflns_R_free 367 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.71 _refine.ls_percent_reflns_R_free 4.6 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.19318 _refine.ls_R_factor_R_free 0.20362 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.19266 _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 MASK _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 7MOO _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.041 _refine.pdbx_overall_ESU_R_Free 0.041 _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 0.860 _refine.overall_SU_ML 0.038 _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.details ? _refine_hist.d_res_high 1.15 _refine_hist.d_res_low 20.71 _refine_hist.number_atoms_solvent 53 _refine_hist.number_atoms_total 218 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 163 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' ? 0.037 0.026 175 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.099 0.031 94 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 3.357 3.102 251 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 4.300 3.514 230 ? 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' ? 0.197 0.200 31 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.030 0.021 94 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.002 0.023 29 ? 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' ? 1.675 1.726 175 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 1.671 1.727 176 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 2.454 2.580 252 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 3.831 18.752 307 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 3.634 18.201 301 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.151 _refine_ls_shell.d_res_low 1.181 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 23 _refine_ls_shell.number_reflns_R_work 531 _refine_ls_shell.percent_reflns_obs 96.68 _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 0.398 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.360 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_R_complete ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 8F5C _struct.title ;Mirror-image DNA containing 2'-OMe-L-dC modification ; _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 8F5C _struct_keywords.text ;Mirror-image DNA, 2'-OMe modification, DNA ; _struct_keywords.pdbx_keywords 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 2 ? D N N 3 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A 0DG 1 "O3'" ? ? ? 1_555 A XE6 2 P ? ? A 0DG 1 A XE6 2 1_555 ? ? ? ? ? ? ? 1.673 ? ? covale2 covale one ? A XE6 2 "O3'" ? ? ? 1_555 A 0DG 3 P ? ? A XE6 2 A 0DG 3 1_555 ? ? ? ? ? ? ? 1.697 ? ? covale3 covale both ? A 0DG 3 "O3'" ? ? ? 1_555 A 0DT 4 P ? ? A 0DG 3 A 0DT 4 1_555 ? ? ? ? ? ? ? 1.685 ? ? covale4 covale both ? A 0DT 4 "O3'" ? ? ? 1_555 A 0DA 5 P ? ? A 0DT 4 A 0DA 5 1_555 ? ? ? ? ? ? ? 1.660 ? ? covale5 covale both ? A 0DA 5 "O3'" ? ? ? 1_555 A 0DC 6 P ? ? A 0DA 5 A 0DC 6 1_555 ? ? ? ? ? ? ? 1.691 ? ? covale6 covale both ? A 0DC 6 "O3'" ? ? ? 1_555 A 0DG 7 P ? ? A 0DC 6 A 0DG 7 1_555 ? ? ? ? ? ? ? 1.734 ? ? covale7 covale both ? A 0DG 7 "O3'" ? ? ? 1_555 A 0DC 8 P ? ? A 0DG 7 A 0DC 8 1_555 ? ? ? ? ? ? ? 1.658 ? ? metalc1 metalc ? ? A 0DG 3 OP2 ? ? ? 1_555 C MG . MG ? ? A 0DG 3 A MG 102 1_555 ? ? ? ? ? ? ? 2.183 ? ? metalc2 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 211 7_545 ? ? ? ? ? ? ? 2.149 ? ? metalc3 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 219 6_444 ? ? ? ? ? ? ? 1.971 ? ? metalc4 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 223 6_444 ? ? ? ? ? ? ? 2.135 ? ? metalc5 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 236 7_545 ? ? ? ? ? ? ? 2.187 ? ? metalc6 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 249 7_545 ? ? ? ? ? ? ? 2.265 ? ? metalc7 metalc ? ? B MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 101 A HOH 250 6_444 ? ? ? ? ? ? ? 2.162 ? ? metalc8 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 102 A HOH 231 1_555 ? ? ? ? ? ? ? 2.188 ? ? metalc9 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 102 A HOH 232 6_444 ? ? ? ? ? ? ? 2.114 ? ? metalc10 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 102 A HOH 237 1_555 ? ? ? ? ? ? ? 2.218 ? ? metalc11 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 102 A HOH 239 1_555 ? ? ? ? ? ? ? 2.128 ? ? metalc12 metalc ? ? C MG . MG ? ? ? 1_555 D HOH . O ? ? A MG 102 A HOH 242 6_444 ? ? ? ? ? ? ? 2.133 ? ? hydrog1 hydrog ? ? A 0DG 1 N1 ? ? ? 1_555 A 0DC 8 N3 ? ? A 0DG 1 A 0DC 8 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A 0DG 1 N2 ? ? ? 1_555 A 0DC 8 O2 ? ? A 0DG 1 A 0DC 8 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A 0DG 1 O6 ? ? ? 1_555 A 0DC 8 N4 ? ? A 0DG 1 A 0DC 8 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A 0DG 3 N1 ? ? ? 1_555 A 0DC 6 N3 ? ? A 0DG 3 A 0DC 6 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A 0DG 3 N2 ? ? ? 1_555 A 0DC 6 O2 ? ? A 0DG 3 A 0DC 6 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A 0DG 3 O6 ? ? ? 1_555 A 0DC 6 N4 ? ? A 0DG 3 A 0DC 6 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A 0DC 6 N3 ? ? ? 1_555 A 0DG 3 N1 ? ? A 0DC 6 A 0DG 3 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A 0DC 6 N4 ? ? ? 1_555 A 0DG 3 O6 ? ? A 0DC 6 A 0DG 3 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A 0DC 6 O2 ? ? ? 1_555 A 0DG 3 N2 ? ? A 0DC 6 A 0DG 3 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A 0DC 8 N3 ? ? ? 1_555 A 0DG 1 N1 ? ? A 0DC 8 A 0DG 1 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A 0DC 8 N4 ? ? ? 1_555 A 0DG 1 O6 ? ? A 0DC 8 A 0DG 1 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A 0DC 8 O2 ? ? ? 1_555 A 0DG 1 N2 ? ? A 0DC 8 A 0DG 1 8_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _atom_sites.entry_id 8F5C _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] 0.023866 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.023866 _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] 0.041982 _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 0DG 1 1 1 0DG 0DG A . n A 1 2 XE6 2 2 2 XE6 0MC A . n A 1 3 0DG 3 3 3 0DG 0DG A . n A 1 4 0DT 4 4 4 0DT 0DT A . n A 1 5 0DA 5 5 5 0DA 0DA A . n A 1 6 0DC 6 6 6 0DC 0DC A . n A 1 7 0DG 7 7 7 0DG 0DG A . n A 1 8 0DC 8 8 8 0DC 0DC A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email wz15@iu.edu _pdbx_contact_author.name_first Wen _pdbx_contact_author.name_last Zhang _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4811-4384 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 MG 1 101 1 MG MG A . C 2 MG 1 102 2 MG MG A . D 3 HOH 1 201 42 HOH HOH A . D 3 HOH 2 202 8 HOH HOH A . D 3 HOH 3 203 29 HOH HOH A . D 3 HOH 4 204 38 HOH HOH A . D 3 HOH 5 205 9 HOH HOH A . D 3 HOH 6 206 4 HOH HOH A . D 3 HOH 7 207 24 HOH HOH A . D 3 HOH 8 208 10 HOH HOH A . D 3 HOH 9 209 23 HOH HOH A . D 3 HOH 10 210 27 HOH HOH A . D 3 HOH 11 211 13 HOH HOH A . D 3 HOH 12 212 2 HOH HOH A . D 3 HOH 13 213 45 HOH HOH A . D 3 HOH 14 214 46 HOH HOH A . D 3 HOH 15 215 17 HOH HOH A . D 3 HOH 16 216 3 HOH HOH A . D 3 HOH 17 217 25 HOH HOH A . D 3 HOH 18 218 7 HOH HOH A . D 3 HOH 19 219 1 HOH HOH A . D 3 HOH 20 220 48 HOH HOH A . D 3 HOH 21 221 49 HOH HOH A . D 3 HOH 22 222 18 HOH HOH A . D 3 HOH 23 223 11 HOH HOH A . D 3 HOH 24 224 43 HOH HOH A . D 3 HOH 25 225 20 HOH HOH A . D 3 HOH 26 226 47 HOH HOH A . D 3 HOH 27 227 5 HOH HOH A . D 3 HOH 28 228 22 HOH HOH A . D 3 HOH 29 229 16 HOH HOH A . D 3 HOH 30 230 54 HOH HOH A . D 3 HOH 31 231 40 HOH HOH A . D 3 HOH 32 232 31 HOH HOH A . D 3 HOH 33 233 35 HOH HOH A . D 3 HOH 34 234 19 HOH HOH A . D 3 HOH 35 235 50 HOH HOH A . D 3 HOH 36 236 12 HOH HOH A . D 3 HOH 37 237 41 HOH HOH A . D 3 HOH 38 238 21 HOH HOH A . D 3 HOH 39 239 32 HOH HOH A . D 3 HOH 40 240 51 HOH HOH A . D 3 HOH 41 241 44 HOH HOH A . D 3 HOH 42 242 39 HOH HOH A . D 3 HOH 43 243 53 HOH HOH A . D 3 HOH 44 244 14 HOH HOH A . D 3 HOH 45 245 52 HOH HOH A . D 3 HOH 46 246 28 HOH HOH A . D 3 HOH 47 247 37 HOH HOH A . D 3 HOH 48 248 6 HOH HOH A . D 3 HOH 49 249 33 HOH HOH A . D 3 HOH 50 250 36 HOH HOH A . D 3 HOH 51 251 55 HOH HOH A . D 3 HOH 52 252 15 HOH HOH A . D 3 HOH 53 253 26 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,C,D 1 2 A,B,C,D # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 8_555 -y,-x,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 11.9100000000 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 253 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id D _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OP2 ? A 0DG 3 ? A 0DG 3 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 231 ? 1_555 82.7 ? 2 OP2 ? A 0DG 3 ? A 0DG 3 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 232 ? 6_444 169.8 ? 3 O ? D HOH . ? A HOH 231 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 232 ? 6_444 87.5 ? 4 OP2 ? A 0DG 3 ? A 0DG 3 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 237 ? 1_555 88.4 ? 5 O ? D HOH . ? A HOH 231 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 237 ? 1_555 77.7 ? 6 O ? D HOH . ? A HOH 232 ? 6_444 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 237 ? 1_555 86.7 ? 7 OP2 ? A 0DG 3 ? A 0DG 3 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 239 ? 1_555 91.5 ? 8 O ? D HOH . ? A HOH 231 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 239 ? 1_555 84.6 ? 9 O ? D HOH . ? A HOH 232 ? 6_444 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 239 ? 1_555 90.4 ? 10 O ? D HOH . ? A HOH 237 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 239 ? 1_555 162.1 ? 11 OP2 ? A 0DG 3 ? A 0DG 3 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 242 ? 6_444 104.3 ? 12 O ? D HOH . ? A HOH 231 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 242 ? 6_444 173.0 ? 13 O ? D HOH . ? A HOH 232 ? 6_444 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 242 ? 6_444 85.5 ? 14 O ? D HOH . ? A HOH 237 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 242 ? 6_444 101.7 ? 15 O ? D HOH . ? A HOH 239 ? 1_555 MG ? C MG . ? A MG 102 ? 1_555 O ? D HOH . ? A HOH 242 ? 6_444 95.7 ? 16 O ? D HOH . ? A HOH 211 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 219 ? 6_444 85.4 ? 17 O ? D HOH . ? A HOH 211 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 223 ? 6_444 99.0 ? 18 O ? D HOH . ? A HOH 219 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 223 ? 6_444 80.7 ? 19 O ? D HOH . ? A HOH 211 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 236 ? 7_545 87.9 ? 20 O ? D HOH . ? A HOH 219 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 236 ? 7_545 163.7 ? 21 O ? D HOH . ? A HOH 223 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 236 ? 7_545 85.7 ? 22 O ? D HOH . ? A HOH 211 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 249 ? 7_545 88.5 ? 23 O ? D HOH . ? A HOH 219 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 249 ? 7_545 97.5 ? 24 O ? D HOH . ? A HOH 223 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 249 ? 7_545 172.1 ? 25 O ? D HOH . ? A HOH 236 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 249 ? 7_545 97.2 ? 26 O ? D HOH . ? A HOH 211 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 250 ? 6_444 175.4 ? 27 O ? D HOH . ? A HOH 219 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 250 ? 6_444 98.6 ? 28 O ? D HOH . ? A HOH 223 ? 6_444 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 250 ? 6_444 83.9 ? 29 O ? D HOH . ? A HOH 236 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 250 ? 6_444 88.8 ? 30 O ? D HOH . ? A HOH 249 ? 7_545 MG ? B MG . ? A MG 101 ? 1_555 O ? D HOH . ? A HOH 250 ? 6_444 88.7 ? # 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 2023-09-20 2 'Structure model' 1 1 2023-09-27 # _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' 'Derived calculations' 2 2 'Structure model' 'Experimental preparation' # 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' exptl_crystal 2 2 'Structure model' pdbx_struct_assembly 3 2 'Structure model' pdbx_struct_assembly_gen 4 2 'Structure model' pdbx_struct_oper_list # 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' '_exptl_crystal.density_percent_sol' 2 2 'Structure model' '_pdbx_struct_assembly.oligomeric_count' 3 2 'Structure model' '_pdbx_struct_assembly.oligomeric_details' # 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 ? ? ? 5.8.0267 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 8F5C _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y # 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 "C4'" A 0DG 1 ? ? "C3'" A 0DG 1 ? ? 1.461 1.521 -0.060 0.010 N 2 1 "C2'" A 0DG 1 ? ? "C1'" A 0DG 1 ? ? 1.454 1.518 -0.064 0.010 N 3 1 C5 A 0DG 1 ? ? N7 A 0DG 1 ? ? 1.345 1.388 -0.043 0.006 N 4 1 "O3'" A XE6 2 ? ? P A 0DG 3 ? ? 1.697 1.607 0.090 0.012 Y 5 1 P A 0DG 3 ? ? OP1 A 0DG 3 ? ? 1.360 1.485 -0.125 0.017 N 6 1 C8 A 0DG 3 ? ? N9 A 0DG 3 ? ? 1.321 1.374 -0.053 0.007 N 7 1 C2 A 0DG 3 ? ? N2 A 0DG 3 ? ? 1.277 1.341 -0.064 0.010 N 8 1 "O3'" A 0DG 3 ? ? P A 0DT 4 ? ? 1.685 1.607 0.078 0.012 Y 9 1 "C2'" A 0DT 4 ? ? "C1'" A 0DT 4 ? ? 1.421 1.518 -0.097 0.010 N 10 1 C2 A 0DT 4 ? ? N3 A 0DT 4 ? ? 1.322 1.373 -0.051 0.008 N 11 1 "C3'" A 0DA 5 ? ? "C2'" A 0DA 5 ? ? 1.448 1.516 -0.068 0.008 N 12 1 "O3'" A 0DA 5 ? ? P A 0DC 6 ? ? 1.691 1.607 0.084 0.012 Y 13 1 "O3'" A 0DC 6 ? ? P A 0DG 7 ? ? 1.734 1.607 0.127 0.012 Y 14 1 "C4'" A 0DG 7 ? ? "C3'" A 0DG 7 ? ? 1.454 1.521 -0.067 0.010 N 15 1 C6 A 0DG 7 ? ? N1 A 0DG 7 ? ? 1.347 1.391 -0.044 0.007 N 16 1 C8 A 0DG 7 ? ? N9 A 0DG 7 ? ? 1.317 1.374 -0.057 0.007 N # 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 "O4'" A 0DG 1 ? ? "C4'" A 0DG 1 ? ? "C3'" A 0DG 1 ? ? 102.00 104.50 -2.50 0.40 N 2 1 C5 A 0DG 1 ? ? C6 A 0DG 1 ? ? N1 A 0DG 1 ? ? 114.63 111.50 3.13 0.50 N 3 1 N1 A 0DG 3 ? ? C2 A 0DG 3 ? ? N3 A 0DG 3 ? ? 119.17 123.90 -4.73 0.60 N 4 1 C2 A 0DG 3 ? ? N3 A 0DG 3 ? ? C4 A 0DG 3 ? ? 117.22 111.90 5.32 0.50 N 5 1 C5 A 0DG 3 ? ? C6 A 0DG 3 ? ? N1 A 0DG 3 ? ? 115.92 111.50 4.42 0.50 N 6 1 "O4'" A 0DT 4 ? ? "C1'" A 0DT 4 ? ? N1 A 0DT 4 ? ? 111.48 108.30 3.18 0.30 N 7 1 C2 A 0DT 4 ? ? N3 A 0DT 4 ? ? C4 A 0DT 4 ? ? 122.92 127.20 -4.28 0.60 N 8 1 N3 A 0DT 4 ? ? C4 A 0DT 4 ? ? C5 A 0DT 4 ? ? 120.41 115.20 5.21 0.60 N 9 1 "O5'" A 0DA 5 ? ? "C5'" A 0DA 5 ? ? "C4'" A 0DA 5 ? ? 103.36 109.40 -6.04 0.80 N 10 1 "O4'" A 0DC 6 ? ? "C4'" A 0DC 6 ? ? "C3'" A 0DC 6 ? ? 101.48 104.50 -3.02 0.40 N 11 1 "C3'" A 0DC 6 ? ? "C2'" A 0DC 6 ? ? "C1'" A 0DC 6 ? ? 97.26 102.40 -5.14 0.80 N 12 1 N3 A 0DC 6 ? ? C4 A 0DC 6 ? ? C5 A 0DC 6 ? ? 119.18 121.90 -2.72 0.40 N 13 1 C8 A 0DG 7 ? ? N9 A 0DG 7 ? ? C4 A 0DG 7 ? ? 108.86 106.40 2.46 0.40 N 14 1 C6 A 0DG 7 ? ? C5 A 0DG 7 ? ? N7 A 0DG 7 ? ? 134.16 130.40 3.76 0.60 N 15 1 C6 A 0DC 8 ? ? N1 A 0DC 8 ? ? C2 A 0DC 8 ? ? 122.94 120.30 2.64 0.40 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 0DA C8A C Y N 1 0DA N9A N Y N 2 0DA C4A C Y N 3 0DA C5A C Y N 4 0DA N7A N Y N 5 0DA N3A N Y N 6 0DA C2A C Y N 7 0DA N1A N Y N 8 0DA C6A C Y N 9 0DA N6A N N N 10 0DA "C4'" C N S 11 0DA "O4'" O N N 12 0DA "C3'" C N R 13 0DA "C2'" C N N 14 0DA "C1'" C N S 15 0DA "O3'" O N N 16 0DA "C5'" C N N 17 0DA "O5'" O N N 18 0DA P P N N 19 0DA OP2 O N N 20 0DA OP3 O N N 21 0DA OP1 O N N 22 0DA H8A H N N 23 0DA H2A H N N 24 0DA HN61 H N N 25 0DA HN62 H N N 26 0DA "H4'" H N N 27 0DA "H3'" H N N 28 0DA "H2'" H N N 29 0DA "H2''" H N N 30 0DA "H1'" H N N 31 0DA "HO3'" H N N 32 0DA "H5'" H N N 33 0DA "H5''" H N N 34 0DA H2P H N N 35 0DA HOP3 H N N 36 0DC OP3 O N N 37 0DC P P N N 38 0DC OP1 O N N 39 0DC OP2 O N N 40 0DC "O5'" O N N 41 0DC "C5'" C N N 42 0DC "C4'" C N S 43 0DC "O4'" O N N 44 0DC "C3'" C N R 45 0DC "O3'" O N N 46 0DC "C2'" C N N 47 0DC "C1'" C N S 48 0DC N1 N N N 49 0DC C2 C N N 50 0DC O2 O N N 51 0DC N3 N N N 52 0DC C4 C N N 53 0DC N4 N N N 54 0DC C5 C N N 55 0DC C6 C N N 56 0DC HOP3 H N N 57 0DC HOP2 H N N 58 0DC "H5'" H N N 59 0DC "H5''" H N N 60 0DC "H4'" H N N 61 0DC "H3'" H N N 62 0DC "HO3'" H N N 63 0DC "H2'" H N N 64 0DC "H2''" H N N 65 0DC "H1'" H N N 66 0DC H41 H N N 67 0DC H42 H N N 68 0DC H5 H N N 69 0DC H6 H N N 70 0DG OP3 O N N 71 0DG P P N N 72 0DG OP1 O N N 73 0DG OP2 O N N 74 0DG "O5'" O N N 75 0DG "C5'" C N N 76 0DG "C4'" C N S 77 0DG "O4'" O N N 78 0DG "C3'" C N R 79 0DG "O3'" O N N 80 0DG "C2'" C N N 81 0DG "C1'" C N S 82 0DG N9 N Y N 83 0DG C8 C Y N 84 0DG N7 N Y N 85 0DG C5 C Y N 86 0DG C6 C N N 87 0DG O6 O N N 88 0DG N1 N N N 89 0DG C2 C N N 90 0DG N2 N N N 91 0DG N3 N N N 92 0DG C4 C Y N 93 0DG HOP3 H N N 94 0DG HOP2 H N N 95 0DG "H5'" H N N 96 0DG "H5''" H N N 97 0DG "H4'" H N N 98 0DG "H3'" H N N 99 0DG "HO3'" H N N 100 0DG "H2'" H N N 101 0DG "H2''" H N N 102 0DG "H1'" H N N 103 0DG H8 H N N 104 0DG H1 H N N 105 0DG H21 H N N 106 0DG H22 H N N 107 0DT OP3 O N N 108 0DT P P N N 109 0DT OP1 O N N 110 0DT OP2 O N N 111 0DT "O5'" O N N 112 0DT "C5'" C N N 113 0DT "C4'" C N S 114 0DT "O4'" O N N 115 0DT "C3'" C N R 116 0DT "O3'" O N N 117 0DT "C2'" C N N 118 0DT "C1'" C N S 119 0DT N1 N N N 120 0DT C2 C N N 121 0DT O2 O N N 122 0DT N3 N N N 123 0DT C4 C N N 124 0DT O4 O N N 125 0DT C5 C N N 126 0DT C5M C N N 127 0DT C6 C N N 128 0DT HOP3 H N N 129 0DT HOP2 H N N 130 0DT "H5'" H N N 131 0DT "H5''" H N N 132 0DT "H4'" H N N 133 0DT "H3'" H N N 134 0DT "HO3'" H N N 135 0DT "H2'" H N N 136 0DT "H2''" H N N 137 0DT "H1'" H N N 138 0DT H3 H N N 139 0DT H71 H N N 140 0DT H72 H N N 141 0DT H73 H N N 142 0DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 MG MG MG N N 147 XE6 O2 O N N 148 XE6 C2 C N N 149 XE6 N3 N N N 150 XE6 C4 C N N 151 XE6 N4 N N N 152 XE6 C5 C N N 153 XE6 C6 C N N 154 XE6 N1 N N N 155 XE6 "C1'" C N S 156 XE6 "O4'" O N N 157 XE6 "C4'" C N S 158 XE6 "C5'" C N N 159 XE6 "O5'" O N N 160 XE6 P P N N 161 XE6 OP1 O N N 162 XE6 OP2 O N N 163 XE6 "C3'" C N S 164 XE6 "O3'" O N N 165 XE6 "C2'" C N S 166 XE6 "O2'" O N N 167 XE6 C22 C N N 168 XE6 H1 H N N 169 XE6 H2 H N N 170 XE6 H3 H N N 171 XE6 H4 H N N 172 XE6 H5 H N N 173 XE6 H6 H N N 174 XE6 H7 H N N 175 XE6 H8 H N N 176 XE6 H10 H N N 177 XE6 H11 H N N 178 XE6 H12 H N N 179 XE6 H13 H N N 180 XE6 H14 H N N 181 XE6 H15 H N N 182 XE6 H16 H N N 183 XE6 OP3 O N N 184 XE6 H9 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 0DA C8A N9A sing Y N 1 0DA C8A N7A doub Y N 2 0DA N9A C4A sing Y N 3 0DA N9A "C1'" sing N N 4 0DA C4A C5A doub Y N 5 0DA C4A N3A sing Y N 6 0DA C5A N7A sing Y N 7 0DA C5A C6A sing Y N 8 0DA N3A C2A doub Y N 9 0DA C2A N1A sing Y N 10 0DA N1A C6A doub Y N 11 0DA C6A N6A sing N N 12 0DA "C4'" "O4'" sing N N 13 0DA "C4'" "C3'" sing N N 14 0DA "O4'" "C1'" sing N N 15 0DA "C3'" "C2'" sing N N 16 0DA "C2'" "C1'" sing N N 17 0DA "C3'" "O3'" sing N N 18 0DA "C4'" "C5'" sing N N 19 0DA "C5'" "O5'" sing N N 20 0DA "O5'" P sing N N 21 0DA P OP2 sing N N 22 0DA P OP3 sing N N 23 0DA P OP1 doub N N 24 0DA C8A H8A sing N N 25 0DA C2A H2A sing N N 26 0DA N6A HN61 sing N N 27 0DA N6A HN62 sing N N 28 0DA "C4'" "H4'" sing N N 29 0DA "C3'" "H3'" sing N N 30 0DA "C2'" "H2'" sing N N 31 0DA "C2'" "H2''" sing N N 32 0DA "C1'" "H1'" sing N N 33 0DA "O3'" "HO3'" sing N N 34 0DA "C5'" "H5'" sing N N 35 0DA "C5'" "H5''" sing N N 36 0DA OP2 H2P sing N N 37 0DA OP3 HOP3 sing N N 38 0DC OP3 P sing N N 39 0DC OP3 HOP3 sing N N 40 0DC P OP1 doub N N 41 0DC P OP2 sing N N 42 0DC P "O5'" sing N N 43 0DC OP2 HOP2 sing N N 44 0DC "O5'" "C5'" sing N N 45 0DC "C5'" "C4'" sing N N 46 0DC "C5'" "H5'" sing N N 47 0DC "C5'" "H5''" sing N N 48 0DC "C4'" "O4'" sing N N 49 0DC "C4'" "C3'" sing N N 50 0DC "C4'" "H4'" sing N N 51 0DC "O4'" "C1'" sing N N 52 0DC "C3'" "O3'" sing N N 53 0DC "C3'" "C2'" sing N N 54 0DC "C3'" "H3'" sing N N 55 0DC "O3'" "HO3'" sing N N 56 0DC "C2'" "C1'" sing N N 57 0DC "C2'" "H2'" sing N N 58 0DC "C2'" "H2''" sing N N 59 0DC "C1'" N1 sing N N 60 0DC "C1'" "H1'" sing N N 61 0DC N1 C2 sing N N 62 0DC N1 C6 sing N N 63 0DC C2 O2 doub N N 64 0DC C2 N3 sing N N 65 0DC N3 C4 doub N N 66 0DC C4 N4 sing N N 67 0DC C4 C5 sing N N 68 0DC N4 H41 sing N N 69 0DC N4 H42 sing N N 70 0DC C5 C6 doub N N 71 0DC C5 H5 sing N N 72 0DC C6 H6 sing N N 73 0DG OP3 P sing N N 74 0DG OP3 HOP3 sing N N 75 0DG P OP1 doub N N 76 0DG P OP2 sing N N 77 0DG P "O5'" sing N N 78 0DG OP2 HOP2 sing N N 79 0DG "O5'" "C5'" sing N N 80 0DG "C5'" "C4'" sing N N 81 0DG "C5'" "H5'" sing N N 82 0DG "C5'" "H5''" sing N N 83 0DG "C4'" "O4'" sing N N 84 0DG "C4'" "C3'" sing N N 85 0DG "C4'" "H4'" sing N N 86 0DG "O4'" "C1'" sing N N 87 0DG "C3'" "O3'" sing N N 88 0DG "C3'" "C2'" sing N N 89 0DG "C3'" "H3'" sing N N 90 0DG "O3'" "HO3'" sing N N 91 0DG "C2'" "C1'" sing N N 92 0DG "C2'" "H2'" sing N N 93 0DG "C2'" "H2''" sing N N 94 0DG "C1'" N9 sing N N 95 0DG "C1'" "H1'" sing N N 96 0DG N9 C8 sing Y N 97 0DG N9 C4 sing Y N 98 0DG C8 N7 doub Y N 99 0DG C8 H8 sing N N 100 0DG N7 C5 sing Y N 101 0DG C5 C6 sing N N 102 0DG C5 C4 doub Y N 103 0DG C6 O6 doub N N 104 0DG C6 N1 sing N N 105 0DG N1 C2 sing N N 106 0DG N1 H1 sing N N 107 0DG C2 N2 sing N N 108 0DG C2 N3 doub N N 109 0DG N2 H21 sing N N 110 0DG N2 H22 sing N N 111 0DG N3 C4 sing N N 112 0DT OP3 P sing N N 113 0DT OP3 HOP3 sing N N 114 0DT P OP1 doub N N 115 0DT P OP2 sing N N 116 0DT P "O5'" sing N N 117 0DT OP2 HOP2 sing N N 118 0DT "O5'" "C5'" sing N N 119 0DT "C5'" "C4'" sing N N 120 0DT "C5'" "H5'" sing N N 121 0DT "C5'" "H5''" sing N N 122 0DT "C4'" "O4'" sing N N 123 0DT "C4'" "C3'" sing N N 124 0DT "C4'" "H4'" sing N N 125 0DT "O4'" "C1'" sing N N 126 0DT "C3'" "O3'" sing N N 127 0DT "C3'" "C2'" sing N N 128 0DT "C3'" "H3'" sing N N 129 0DT "O3'" "HO3'" sing N N 130 0DT "C2'" "C1'" sing N N 131 0DT "C2'" "H2'" sing N N 132 0DT "C2'" "H2''" sing N N 133 0DT "C1'" N1 sing N N 134 0DT "C1'" "H1'" sing N N 135 0DT N1 C2 sing N N 136 0DT N1 C6 sing N N 137 0DT C2 O2 doub N N 138 0DT C2 N3 sing N N 139 0DT N3 C4 sing N N 140 0DT N3 H3 sing N N 141 0DT C4 O4 doub N N 142 0DT C4 C5 sing N N 143 0DT C5 C5M sing N N 144 0DT C5 C6 doub N N 145 0DT C5M H71 sing N N 146 0DT C5M H72 sing N N 147 0DT C5M H73 sing N N 148 0DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 XE6 "O3'" "C3'" sing N N 152 XE6 C22 "O2'" sing N N 153 XE6 "O2'" "C2'" sing N N 154 XE6 "C3'" "C2'" sing N N 155 XE6 "C3'" "C4'" sing N N 156 XE6 "C2'" "C1'" sing N N 157 XE6 "C4'" "C5'" sing N N 158 XE6 "C4'" "O4'" sing N N 159 XE6 "C5'" "O5'" sing N N 160 XE6 OP2 P sing N N 161 XE6 "C1'" "O4'" sing N N 162 XE6 "C1'" N1 sing N N 163 XE6 "O5'" P sing N N 164 XE6 O2 C2 doub N N 165 XE6 N1 C2 sing N N 166 XE6 N1 C6 sing N N 167 XE6 P OP1 doub N N 168 XE6 C2 N3 sing N N 169 XE6 C6 C5 doub N N 170 XE6 N3 C4 doub N N 171 XE6 C5 C4 sing N N 172 XE6 C4 N4 sing N N 173 XE6 N4 H1 sing N N 174 XE6 N4 H2 sing N N 175 XE6 C5 H3 sing N N 176 XE6 C6 H4 sing N N 177 XE6 "C1'" H5 sing N N 178 XE6 "C4'" H6 sing N N 179 XE6 "C5'" H7 sing N N 180 XE6 "C5'" H8 sing N N 181 XE6 OP2 H10 sing N N 182 XE6 "C3'" H11 sing N N 183 XE6 "O3'" H12 sing N N 184 XE6 "C2'" H13 sing N N 185 XE6 C22 H14 sing N N 186 XE6 C22 H15 sing N N 187 XE6 C22 H16 sing N N 188 XE6 P OP3 sing N N 189 XE6 OP3 H9 sing N N 190 # _ndb_struct_conf_na.entry_id 8F5C _ndb_struct_conf_na.feature 'z-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 0DG 1 1_555 A 0DC 8 8_555 0.277 -0.097 -0.267 -12.221 12.325 1.955 1 A_0DG1:0DC8_A A 1 ? A 8 ? 19 1 1 A 0DG 3 1_555 A 0DC 6 8_555 0.274 -0.160 0.197 -3.857 13.106 -0.309 2 A_0DG3:0DC6_A A 3 ? A 6 ? 19 1 1 A 0DG 1 8_555 A 0DC 8 1_555 0.277 -0.097 -0.267 -12.221 12.325 1.955 3 A_0DG1:0DC8_A A 1 ? A 8 ? 19 1 1 A 0DG 3 8_555 A 0DC 6 1_555 0.274 -0.160 0.197 -3.857 13.106 -0.309 4 A_0DG3:0DC6_A A 3 ? A 6 ? 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 0DG 1 1_555 A 0DC 8 8_555 A 0DG 3 1_555 A 0DC 6 8_555 -0.555 -2.756 6.138 -4.184 -24.694 -59.923 4.413 -0.830 4.756 23.640 -4.005 -64.495 1 AA_0DG10DG3:0DC60DC8_AA A 1 ? A 8 ? A 3 ? A 6 ? 1 A 0DG 1 8_555 A 0DC 8 1_555 A 0DG 3 8_555 A 0DC 6 1_555 -0.555 -2.756 6.138 -4.184 -24.694 -59.923 4.413 -0.830 4.756 23.640 -4.005 -64.495 2 AA_0DG10DG3:0DC60DC8_AA A 1 ? A 8 ? A 3 ? A 6 ? # _pdbx_audit_support.funding_organization 'Not funded' _pdbx_audit_support.country ? _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id XE6 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id XE6 _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 water HOH # _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 ? #