data_7EFI # _entry.id 7EFI # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 7EFI pdb_00007efi 10.2210/pdb7efi/pdb WWPDB D_1300021346 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7EFI _pdbx_database_status.recvd_initial_deposition_date 2021-03-21 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kondo, J.' 1 0000-0002-5682-3685 'Nagashima, M.' 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 kink-turn motif composed of RNA, DNA and 2'-O-methyl RNA ; _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kondo, J.' 1 0000-0002-5682-3685 primary 'Nagashima, M.' 2 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 7EFI _cell.details ? _cell.formula_units_Z ? _cell.length_a 70.565 _cell.length_a_esd ? _cell.length_b 70.565 _cell.length_b_esd ? _cell.length_c 48.165 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 12 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EFI _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description ;DNA/RNA (5'-R(*GP*GP*CP*GP*AP*AP*GP*AP*AP*CP*CP*(OMG)P*(OMG)P*(OMG))-D(P*GP*A)-R(P*GP*(OMC)P*(OMC))-3') ; _entity.formula_weight 6271.965 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type 'polydeoxyribonucleotide/polyribonucleotide hybrid' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GGCGAAGAACC(OMG)(OMG)(OMG)(DG)(DA)G(OMC)(OMC)' _entity_poly.pdbx_seq_one_letter_code_can GGCGAAGAACCGGGGAGCC _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 C n 1 4 G n 1 5 A n 1 6 A n 1 7 G n 1 8 A n 1 9 A n 1 10 C n 1 11 C n 1 12 OMG n 1 13 OMG n 1 14 OMG n 1 15 DG n 1 16 DA n 1 17 G n 1 18 OMC n 1 19 OMC 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 19 _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 7EFI _struct_ref.pdbx_db_accession 7EFI _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 7EFI _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 19 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 7EFI _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 19 _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 19 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 OMC 'RNA linking' n "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" ? 'C10 H16 N3 O8 P' 337.223 OMG 'RNA linking' n "O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE" ? 'C11 H16 N5 O8 P' 377.247 # _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 7EFI _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.75 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 55.20 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'sodium cacodylate, MPD, spermine tetrahydrochloride, potassium chloride' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-06-04 _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 0.98 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-17A' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.98 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL-17A _diffrn_source.pdbx_synchrotron_site 'Photon Factory' # _reflns.B_iso_Wilson_estimate 60.417 _reflns.entry_id 7EFI _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.900 _reflns.d_resolution_low 37.830 _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 1761 _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 98.500 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.528 _reflns.pdbx_Rmerge_I_obs 0.057 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 16.910 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.970 _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 0.065 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 7974 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.999 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_CC_star _reflns_shell.pdbx_R_split 2.900 2.980 ? 3.980 ? 632 143 ? 142 99.300 ? ? ? ? 0.366 ? ? ? ? ? ? ? ? 4.451 ? ? ? ? 0.415 ? ? 1 1 0.956 ? ? 2.980 3.070 ? 5.750 ? 565 135 ? 133 98.500 ? ? ? ? 0.218 ? ? ? ? ? ? ? ? 4.248 ? ? ? ? 0.248 ? ? 2 1 0.987 ? ? 3.070 3.170 ? 7.120 ? 584 134 ? 130 97.000 ? ? ? ? 0.157 ? ? ? ? ? ? ? ? 4.492 ? ? ? ? 0.178 ? ? 3 1 0.992 ? ? 3.170 3.280 ? 10.660 ? 598 126 ? 123 97.600 ? ? ? ? 0.131 ? ? ? ? ? ? ? ? 4.862 ? ? ? ? 0.146 ? ? 4 1 0.990 ? ? 3.280 3.410 ? 11.990 ? 625 126 ? 126 100.000 ? ? ? ? 0.098 ? ? ? ? ? ? ? ? 4.960 ? ? ? ? 0.109 ? ? 5 1 0.997 ? ? 3.410 3.550 ? 14.850 ? 585 120 ? 119 99.200 ? ? ? ? 0.073 ? ? ? ? ? ? ? ? 4.916 ? ? ? ? 0.081 ? ? 6 1 0.998 ? ? 3.550 3.710 ? 15.170 ? 570 118 ? 118 100.000 ? ? ? ? 0.076 ? ? ? ? ? ? ? ? 4.831 ? ? ? ? 0.085 ? ? 7 1 0.998 ? ? 3.710 3.890 ? 19.150 ? 517 106 ? 106 100.000 ? ? ? ? 0.056 ? ? ? ? ? ? ? ? 4.877 ? ? ? ? 0.063 ? ? 8 1 0.998 ? ? 3.890 4.100 ? 20.000 ? 508 109 ? 108 99.100 ? ? ? ? 0.048 ? ? ? ? ? ? ? ? 4.704 ? ? ? ? 0.055 ? ? 9 1 0.998 ? ? 4.100 4.350 ? 21.930 ? 446 96 ? 95 99.000 ? ? ? ? 0.053 ? ? ? ? ? ? ? ? 4.695 ? ? ? ? 0.061 ? ? 10 1 0.998 ? ? 4.350 4.650 ? 25.390 ? 447 96 ? 96 100.000 ? ? ? ? 0.049 ? ? ? ? ? ? ? ? 4.656 ? ? ? ? 0.055 ? ? 11 1 0.997 ? ? 4.650 5.020 ? 23.030 ? 422 95 ? 94 98.900 ? ? ? ? 0.048 ? ? ? ? ? ? ? ? 4.489 ? ? ? ? 0.055 ? ? 12 1 0.997 ? ? 5.020 5.500 ? 25.140 ? 332 82 ? 82 100.000 ? ? ? ? 0.039 ? ? ? ? ? ? ? ? 4.049 ? ? ? ? 0.044 ? ? 13 1 0.999 ? ? 5.500 6.150 ? 24.650 ? 284 79 ? 77 97.500 ? ? ? ? 0.045 ? ? ? ? ? ? ? ? 3.688 ? ? ? ? 0.053 ? ? 14 1 0.997 ? ? 6.150 7.100 ? 28.460 ? 310 73 ? 73 100.000 ? ? ? ? 0.043 ? ? ? ? ? ? ? ? 4.247 ? ? ? ? 0.049 ? ? 15 1 0.997 ? ? 7.100 8.690 ? 29.760 ? 265 62 ? 61 98.400 ? ? ? ? 0.036 ? ? ? ? ? ? ? ? 4.344 ? ? ? ? 0.041 ? ? 16 1 0.999 ? ? 8.690 12.290 ? 32.690 ? 195 53 ? 50 94.300 ? ? ? ? 0.044 ? ? ? ? ? ? ? ? 3.900 ? ? ? ? 0.051 ? ? 17 1 0.997 ? ? 12.290 37.830 ? 28.040 ? 89 34 ? 28 82.400 ? ? ? ? 0.030 ? ? ? ? ? ? ? ? 3.179 ? ? ? ? 0.035 ? ? 18 1 1.000 ? ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max 87.350 _refine.B_iso_mean 56.7454 _refine.B_iso_min 38.770 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 7EFI _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.9000 _refine.ls_d_res_low 37.8300 _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 1753 _refine.ls_number_reflns_R_free 177 _refine.ls_number_reflns_R_work 1576 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.1000 _refine.ls_percent_reflns_R_free 10.1000 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1968 _refine.ls_R_factor_R_free 0.2340 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1924 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.380 _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 4CS1 _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 18.4000 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.3500 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id final _refine_hist.details ? _refine_hist.d_res_high 2.9000 _refine_hist.d_res_low 37.8300 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 417 _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 17 _refine_hist.pdbx_B_iso_mean_ligand 53.73 _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 375 _refine_hist.pdbx_number_atoms_ligand 42 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # _struct.entry_id 7EFI _struct.title ;RNA kink-turn motif composed of RNA, DNA and 2'-O-methyl RNA ; _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 7EFI _struct_keywords.text 'Kink-turn motif, RNA, DNA-RNA HYBRID' _struct_keywords.pdbx_keywords 'DNA-RNA HYBRID' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # 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 none ? A G 2 O6 ? ? ? 1_555 A OMC 18 N4 ? ? A G 2 A OMC 18 9_769 ? ? ? ? ? ? ? 1.312 ? ? covale2 covale both ? A C 11 "O3'" ? ? ? 1_555 A OMG 12 P ? ? A C 11 A OMG 12 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale3 covale both ? A OMG 12 "O3'" ? ? ? 1_555 A OMG 13 P ? ? A OMG 12 A OMG 13 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale4 covale both ? A OMG 13 "O3'" ? ? ? 1_555 A OMG 14 P ? ? A OMG 13 A OMG 14 1_555 ? ? ? ? ? ? ? 1.595 ? ? covale5 covale both ? A OMG 14 "O3'" ? ? ? 1_555 A DG 15 P ? ? A OMG 14 A DG 15 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale6 covale both ? A G 17 "O3'" ? ? ? 1_555 A OMC 18 P ? ? A G 17 A OMC 18 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale7 covale both ? A OMC 18 "O3'" ? ? ? 1_555 A OMC 19 P ? ? A OMC 18 A OMC 19 1_555 ? ? ? ? ? ? ? 1.610 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 A OMC 19 N3 ? ? A G 1 A OMC 19 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 A OMC 19 O2 ? ? A G 1 A OMC 19 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 A OMC 19 N4 ? ? A G 1 A OMC 19 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 A OMC 18 O2 ? ? A G 2 A OMC 18 9_769 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 A OMC 18 N3 ? ? A G 2 A OMC 18 9_769 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog6 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 17 N1 ? ? A C 3 A G 17 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 17 O6 ? ? A C 3 A G 17 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 17 N2 ? ? A C 3 A G 17 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 4 N2 ? ? ? 1_555 A DA 16 N3 ? ? A G 4 A DA 16 9_769 ? ? ? ? ? ? 'G-DA MISPAIR' ? ? ? hydrog10 hydrog ? ? A G 7 N2 ? ? ? 1_555 A DA 16 N7 ? ? A G 7 A DA 16 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog11 hydrog ? ? A G 7 N3 ? ? ? 1_555 A DA 16 N6 ? ? A G 7 A DA 16 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog12 hydrog ? ? A A 8 N6 ? ? ? 1_555 A DG 15 N3 ? ? A A 8 A DG 15 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog13 hydrog ? ? A A 8 N7 ? ? ? 1_555 A DG 15 N2 ? ? A A 8 A DG 15 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog14 hydrog ? ? A A 9 N7 ? ? ? 1_555 A OMG 14 N2 ? ? A A 9 A OMG 14 9_769 ? ? ? ? ? ? 'A-OMG MISPAIR' ? ? ? hydrog15 hydrog ? ? A C 10 N3 ? ? ? 1_555 A OMG 13 N1 ? ? A C 10 A OMG 13 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 10 N4 ? ? ? 1_555 A OMG 13 O6 ? ? A C 10 A OMG 13 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 10 O2 ? ? ? 1_555 A OMG 13 N2 ? ? A C 10 A OMG 13 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A C 11 N3 ? ? ? 1_555 A OMG 12 N1 ? ? A C 11 A OMG 12 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 11 N4 ? ? ? 1_555 A OMG 12 O6 ? ? A C 11 A OMG 12 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 11 O2 ? ? ? 1_555 A OMG 12 N2 ? ? A C 11 A OMG 12 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A OMG 12 N1 ? ? ? 1_555 A C 11 N3 ? ? A OMG 12 A C 11 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A OMG 12 N2 ? ? ? 1_555 A C 11 O2 ? ? A OMG 12 A C 11 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A OMG 12 O6 ? ? ? 1_555 A C 11 N4 ? ? A OMG 12 A C 11 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A OMG 13 N1 ? ? ? 1_555 A C 10 N3 ? ? A OMG 13 A C 10 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A OMG 13 N2 ? ? ? 1_555 A C 10 O2 ? ? A OMG 13 A C 10 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A OMG 13 O6 ? ? ? 1_555 A C 10 N4 ? ? A OMG 13 A C 10 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A OMG 14 N2 ? ? ? 1_555 A A 9 N7 ? ? A OMG 14 A A 9 9_769 ? ? ? ? ? ? 'OMG-A MISPAIR' ? ? ? hydrog28 hydrog ? ? A DG 15 N2 ? ? ? 1_555 A A 8 N7 ? ? A DG 15 A A 8 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog29 hydrog ? ? A DG 15 N3 ? ? ? 1_555 A A 8 N6 ? ? A DG 15 A A 8 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog30 hydrog ? ? A DA 16 N3 ? ? ? 1_555 A G 4 N2 ? ? A DA 16 A G 4 9_769 ? ? ? ? ? ? 'DA-G MISPAIR' ? ? ? hydrog31 hydrog ? ? A DA 16 N6 ? ? ? 1_555 A G 7 N3 ? ? A DA 16 A G 7 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog32 hydrog ? ? A DA 16 N7 ? ? ? 1_555 A G 7 N2 ? ? A DA 16 A G 7 9_769 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog33 hydrog ? ? A G 17 N1 ? ? ? 1_555 A C 3 N3 ? ? A G 17 A C 3 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 17 N2 ? ? ? 1_555 A C 3 O2 ? ? A G 17 A C 3 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 17 O6 ? ? ? 1_555 A C 3 N4 ? ? A G 17 A C 3 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A OMC 18 N3 ? ? ? 1_555 A G 2 N2 ? ? A OMC 18 A G 2 9_769 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog37 hydrog ? ? A OMC 18 O2 ? ? ? 1_555 A G 2 N1 ? ? A OMC 18 A G 2 9_769 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog38 hydrog ? ? A OMC 19 N3 ? ? ? 1_555 A G 1 N1 ? ? A OMC 19 A G 1 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A OMC 19 N4 ? ? ? 1_555 A G 1 O6 ? ? A OMC 19 A G 1 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog40 hydrog ? ? A OMC 19 O2 ? ? ? 1_555 A G 1 N2 ? ? A OMC 19 A G 1 9_769 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 7EFI _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] 0.014171 _atom_sites.fract_transf_matrix[1][2] 0.008182 _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] 0.016364 _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] 0.020762 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C 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 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 G 4 4 4 G G A . n A 1 5 A 5 5 5 A A A . n A 1 6 A 6 6 6 A A A . n A 1 7 G 7 7 7 G G A . n A 1 8 A 8 8 8 A A A . n A 1 9 A 9 9 9 A A A . n A 1 10 C 10 10 10 C C A . n A 1 11 C 11 11 11 C C A . n A 1 12 OMG 12 12 12 OMG OMG A . n A 1 13 OMG 13 13 13 OMG OMG A . n A 1 14 OMG 14 14 14 OMG OMG A . n A 1 15 DG 15 15 15 DG DG A . n A 1 16 DA 16 16 16 DA DA A . n A 1 17 G 17 17 17 G G A . n A 1 18 OMC 18 18 18 OMC OMC A . n A 1 19 OMC 19 19 19 OMC OMC A . n # _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 1 2 A # 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' 9_769 -x+2,-x+y+1,-z+4 -0.5000000000 -0.8660254038 0.0000000000 105.8475000000 -0.8660254038 0.5000000000 0.0000000000 61.1110826180 0.0000000000 0.0000000000 -1.0000000000 192.6600000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2022-03-30 2 'Structure model' 2 0 2022-05-11 3 'Structure model' 2 1 2023-11-29 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' Advisory 2 2 'Structure model' 'Atomic model' 3 2 'Structure model' 'Data collection' 4 2 'Structure model' 'Derived calculations' 5 2 'Structure model' 'Refinement description' 6 2 'Structure model' 'Structure summary' 7 3 'Structure model' 'Data collection' 8 3 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' atom_site 2 2 'Structure model' entity 3 2 'Structure model' ndb_struct_conf_na 4 2 'Structure model' ndb_struct_na_base_pair 5 2 'Structure model' ndb_struct_na_base_pair_step 6 2 'Structure model' pdbx_entity_nonpoly 7 2 'Structure model' pdbx_nonpoly_scheme 8 2 'Structure model' pdbx_poly_seq_scheme 9 2 'Structure model' pdbx_struct_assembly_gen 10 2 'Structure model' pdbx_unobs_or_zero_occ_residues 11 2 'Structure model' refine_ls_shell 12 2 'Structure model' struct_asym 13 2 'Structure model' struct_conn 14 3 'Structure model' chem_comp_atom 15 3 'Structure model' chem_comp_bond 16 3 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_atom_site.auth_seq_id' 2 2 'Structure model' '_atom_site.label_asym_id' 3 2 'Structure model' '_atom_site.label_entity_id' 4 2 'Structure model' '_atom_site.label_seq_id' 5 2 'Structure model' '_ndb_struct_conf_na.feature' 6 2 'Structure model' '_pdbx_poly_seq_scheme.auth_mon_id' 7 2 'Structure model' '_pdbx_poly_seq_scheme.auth_seq_num' 8 2 'Structure model' '_pdbx_poly_seq_scheme.pdb_mon_id' 9 2 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list' # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.17.1 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 7EFI _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 DG _pdbx_validate_rmsd_bond.auth_seq_id_1 15 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 "C3'" _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 15 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.375 _pdbx_validate_rmsd_bond.bond_target_value 1.419 _pdbx_validate_rmsd_bond.bond_deviation -0.044 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.006 _pdbx_validate_rmsd_bond.linker_flag 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 C6 A G 2 ? ? N1 A G 2 ? ? C2 A G 2 ? ? 130.04 125.10 4.94 0.60 N 2 1 N3 A G 2 ? ? C4 A G 2 ? ? C5 A G 2 ? ? 131.82 128.60 3.22 0.50 N 3 1 C5 A G 2 ? ? C6 A G 2 ? ? N1 A G 2 ? ? 108.30 111.50 -3.20 0.50 N 4 1 C5 A G 2 ? ? C6 A G 2 ? ? O6 A G 2 ? ? 133.20 128.60 4.60 0.60 N 5 1 "O5'" A C 3 ? ? P A C 3 ? ? OP2 A C 3 ? ? 118.18 110.70 7.48 1.20 N 6 1 C8 A G 7 ? ? N9 A G 7 ? ? C4 A G 7 ? ? 108.89 106.40 2.49 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 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 DA OP3 O N N 73 DA P P N N 74 DA OP1 O N N 75 DA OP2 O N N 76 DA "O5'" O N N 77 DA "C5'" C N N 78 DA "C4'" C N R 79 DA "O4'" O N N 80 DA "C3'" C N S 81 DA "O3'" O N N 82 DA "C2'" C N N 83 DA "C1'" C N R 84 DA N9 N Y N 85 DA C8 C Y N 86 DA N7 N Y N 87 DA C5 C Y N 88 DA C6 C Y N 89 DA N6 N N N 90 DA N1 N Y N 91 DA C2 C Y N 92 DA N3 N Y N 93 DA C4 C Y N 94 DA HOP3 H N N 95 DA HOP2 H N N 96 DA "H5'" H N N 97 DA "H5''" H N N 98 DA "H4'" H N N 99 DA "H3'" H N N 100 DA "HO3'" H N N 101 DA "H2'" H N N 102 DA "H2''" H N N 103 DA "H1'" H N N 104 DA H8 H N N 105 DA H61 H N N 106 DA H62 H N N 107 DA H2 H N N 108 DG OP3 O N N 109 DG P P N N 110 DG OP1 O N N 111 DG OP2 O N N 112 DG "O5'" O N N 113 DG "C5'" C N N 114 DG "C4'" C N R 115 DG "O4'" O N N 116 DG "C3'" C N S 117 DG "O3'" O N N 118 DG "C2'" C N N 119 DG "C1'" C N R 120 DG N9 N Y N 121 DG C8 C Y N 122 DG N7 N Y N 123 DG C5 C Y N 124 DG C6 C N N 125 DG O6 O N N 126 DG N1 N N N 127 DG C2 C N N 128 DG N2 N N N 129 DG N3 N N N 130 DG C4 C Y N 131 DG HOP3 H N N 132 DG HOP2 H N N 133 DG "H5'" H N N 134 DG "H5''" H N N 135 DG "H4'" H N N 136 DG "H3'" H N N 137 DG "HO3'" H N N 138 DG "H2'" H N N 139 DG "H2''" H N N 140 DG "H1'" H N N 141 DG H8 H N N 142 DG H1 H N N 143 DG H21 H N N 144 DG H22 H N N 145 G OP3 O N N 146 G P P N N 147 G OP1 O N N 148 G OP2 O N N 149 G "O5'" O N N 150 G "C5'" C N N 151 G "C4'" C N R 152 G "O4'" O N N 153 G "C3'" C N S 154 G "O3'" O N N 155 G "C2'" C N R 156 G "O2'" O N N 157 G "C1'" C N R 158 G N9 N Y N 159 G C8 C Y N 160 G N7 N Y N 161 G C5 C Y N 162 G C6 C N N 163 G O6 O N N 164 G N1 N N N 165 G C2 C N N 166 G N2 N N N 167 G N3 N N N 168 G C4 C Y N 169 G HOP3 H N N 170 G HOP2 H N N 171 G "H5'" H N N 172 G "H5''" H N N 173 G "H4'" H N N 174 G "H3'" H N N 175 G "HO3'" H N N 176 G "H2'" H N N 177 G "HO2'" H N N 178 G "H1'" H N N 179 G H8 H N N 180 G H1 H N N 181 G H21 H N N 182 G H22 H N N 183 OMC N1 N N N 184 OMC C2 C N N 185 OMC N3 N N N 186 OMC C4 C N N 187 OMC C5 C N N 188 OMC C6 C N N 189 OMC O2 O N N 190 OMC N4 N N N 191 OMC "C1'" C N R 192 OMC "C2'" C N R 193 OMC "O2'" O N N 194 OMC CM2 C N N 195 OMC "C3'" C N R 196 OMC "C4'" C N R 197 OMC "O4'" O N N 198 OMC "O3'" O N N 199 OMC "C5'" C N N 200 OMC "O5'" O N N 201 OMC P P N N 202 OMC OP1 O N N 203 OMC OP2 O N N 204 OMC OP3 O N N 205 OMC H5 H N N 206 OMC H6 H N N 207 OMC HN41 H N N 208 OMC HN42 H N N 209 OMC "H1'" H N N 210 OMC "H2'" H N N 211 OMC HM21 H N N 212 OMC HM22 H N N 213 OMC HM23 H N N 214 OMC "H3'" H N N 215 OMC "H4'" H N N 216 OMC "HO3'" H N N 217 OMC "H5'" H N N 218 OMC "H5''" H N N 219 OMC HOP2 H N N 220 OMC HOP3 H N N 221 OMG P P N N 222 OMG OP1 O N N 223 OMG OP2 O N N 224 OMG OP3 O N N 225 OMG "O5'" O N N 226 OMG "C5'" C N N 227 OMG "C4'" C N R 228 OMG "O4'" O N N 229 OMG "C3'" C N R 230 OMG "O3'" O N N 231 OMG "C2'" C N R 232 OMG "O2'" O N N 233 OMG CM2 C N N 234 OMG "C1'" C N R 235 OMG N9 N Y N 236 OMG C8 C Y N 237 OMG N7 N Y N 238 OMG C5 C Y N 239 OMG C6 C N N 240 OMG O6 O N N 241 OMG N1 N N N 242 OMG C2 C N N 243 OMG N2 N N N 244 OMG N3 N N N 245 OMG C4 C Y N 246 OMG HOP2 H N N 247 OMG HOP3 H N N 248 OMG "H5'" H N N 249 OMG "H5''" H N N 250 OMG "H4'" H N N 251 OMG "H3'" H N N 252 OMG "HO3'" H N N 253 OMG "H2'" H N N 254 OMG HM21 H N N 255 OMG HM22 H N N 256 OMG HM23 H N N 257 OMG "H1'" H N N 258 OMG H8 H N N 259 OMG HN1 H N N 260 OMG HN21 H N N 261 OMG HN22 H N N 262 # 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 DA OP3 P sing N N 76 DA OP3 HOP3 sing N N 77 DA P OP1 doub N N 78 DA P OP2 sing N N 79 DA P "O5'" sing N N 80 DA OP2 HOP2 sing N N 81 DA "O5'" "C5'" sing N N 82 DA "C5'" "C4'" sing N N 83 DA "C5'" "H5'" sing N N 84 DA "C5'" "H5''" sing N N 85 DA "C4'" "O4'" sing N N 86 DA "C4'" "C3'" sing N N 87 DA "C4'" "H4'" sing N N 88 DA "O4'" "C1'" sing N N 89 DA "C3'" "O3'" sing N N 90 DA "C3'" "C2'" sing N N 91 DA "C3'" "H3'" sing N N 92 DA "O3'" "HO3'" sing N N 93 DA "C2'" "C1'" sing N N 94 DA "C2'" "H2'" sing N N 95 DA "C2'" "H2''" sing N N 96 DA "C1'" N9 sing N N 97 DA "C1'" "H1'" sing N N 98 DA N9 C8 sing Y N 99 DA N9 C4 sing Y N 100 DA C8 N7 doub Y N 101 DA C8 H8 sing N N 102 DA N7 C5 sing Y N 103 DA C5 C6 sing Y N 104 DA C5 C4 doub Y N 105 DA C6 N6 sing N N 106 DA C6 N1 doub Y N 107 DA N6 H61 sing N N 108 DA N6 H62 sing N N 109 DA N1 C2 sing Y N 110 DA C2 N3 doub Y N 111 DA C2 H2 sing N N 112 DA N3 C4 sing Y N 113 DG OP3 P sing N N 114 DG OP3 HOP3 sing N N 115 DG P OP1 doub N N 116 DG P OP2 sing N N 117 DG P "O5'" sing N N 118 DG OP2 HOP2 sing N N 119 DG "O5'" "C5'" sing N N 120 DG "C5'" "C4'" sing N N 121 DG "C5'" "H5'" sing N N 122 DG "C5'" "H5''" sing N N 123 DG "C4'" "O4'" sing N N 124 DG "C4'" "C3'" sing N N 125 DG "C4'" "H4'" sing N N 126 DG "O4'" "C1'" sing N N 127 DG "C3'" "O3'" sing N N 128 DG "C3'" "C2'" sing N N 129 DG "C3'" "H3'" sing N N 130 DG "O3'" "HO3'" sing N N 131 DG "C2'" "C1'" sing N N 132 DG "C2'" "H2'" sing N N 133 DG "C2'" "H2''" sing N N 134 DG "C1'" N9 sing N N 135 DG "C1'" "H1'" sing N N 136 DG N9 C8 sing Y N 137 DG N9 C4 sing Y N 138 DG C8 N7 doub Y N 139 DG C8 H8 sing N N 140 DG N7 C5 sing Y N 141 DG C5 C6 sing N N 142 DG C5 C4 doub Y N 143 DG C6 O6 doub N N 144 DG C6 N1 sing N N 145 DG N1 C2 sing N N 146 DG N1 H1 sing N N 147 DG C2 N2 sing N N 148 DG C2 N3 doub N N 149 DG N2 H21 sing N N 150 DG N2 H22 sing N N 151 DG N3 C4 sing N N 152 G OP3 P sing N N 153 G OP3 HOP3 sing N N 154 G P OP1 doub N N 155 G P OP2 sing N N 156 G P "O5'" sing N N 157 G OP2 HOP2 sing N N 158 G "O5'" "C5'" sing N N 159 G "C5'" "C4'" sing N N 160 G "C5'" "H5'" sing N N 161 G "C5'" "H5''" sing N N 162 G "C4'" "O4'" sing N N 163 G "C4'" "C3'" sing N N 164 G "C4'" "H4'" sing N N 165 G "O4'" "C1'" sing N N 166 G "C3'" "O3'" sing N N 167 G "C3'" "C2'" sing N N 168 G "C3'" "H3'" sing N N 169 G "O3'" "HO3'" sing N N 170 G "C2'" "O2'" sing N N 171 G "C2'" "C1'" sing N N 172 G "C2'" "H2'" sing N N 173 G "O2'" "HO2'" sing N N 174 G "C1'" N9 sing N N 175 G "C1'" "H1'" sing N N 176 G N9 C8 sing Y N 177 G N9 C4 sing Y N 178 G C8 N7 doub Y N 179 G C8 H8 sing N N 180 G N7 C5 sing Y N 181 G C5 C6 sing N N 182 G C5 C4 doub Y N 183 G C6 O6 doub N N 184 G C6 N1 sing N N 185 G N1 C2 sing N N 186 G N1 H1 sing N N 187 G C2 N2 sing N N 188 G C2 N3 doub N N 189 G N2 H21 sing N N 190 G N2 H22 sing N N 191 G N3 C4 sing N N 192 OMC N1 C2 sing N N 193 OMC N1 C6 sing N N 194 OMC N1 "C1'" sing N N 195 OMC C2 N3 sing N N 196 OMC C2 O2 doub N N 197 OMC N3 C4 doub N N 198 OMC C4 C5 sing N N 199 OMC C4 N4 sing N N 200 OMC C5 C6 doub N N 201 OMC C5 H5 sing N N 202 OMC C6 H6 sing N N 203 OMC N4 HN41 sing N N 204 OMC N4 HN42 sing N N 205 OMC "C1'" "C2'" sing N N 206 OMC "C1'" "O4'" sing N N 207 OMC "C1'" "H1'" sing N N 208 OMC "C2'" "O2'" sing N N 209 OMC "C2'" "C3'" sing N N 210 OMC "C2'" "H2'" sing N N 211 OMC "O2'" CM2 sing N N 212 OMC CM2 HM21 sing N N 213 OMC CM2 HM22 sing N N 214 OMC CM2 HM23 sing N N 215 OMC "C3'" "C4'" sing N N 216 OMC "C3'" "O3'" sing N N 217 OMC "C3'" "H3'" sing N N 218 OMC "C4'" "O4'" sing N N 219 OMC "C4'" "C5'" sing N N 220 OMC "C4'" "H4'" sing N N 221 OMC "O3'" "HO3'" sing N N 222 OMC "C5'" "O5'" sing N N 223 OMC "C5'" "H5'" sing N N 224 OMC "C5'" "H5''" sing N N 225 OMC "O5'" P sing N N 226 OMC P OP1 doub N N 227 OMC P OP2 sing N N 228 OMC P OP3 sing N N 229 OMC OP2 HOP2 sing N N 230 OMC OP3 HOP3 sing N N 231 OMG P OP1 doub N N 232 OMG P OP2 sing N N 233 OMG P OP3 sing N N 234 OMG P "O5'" sing N N 235 OMG OP2 HOP2 sing N N 236 OMG OP3 HOP3 sing N N 237 OMG "O5'" "C5'" sing N N 238 OMG "C5'" "C4'" sing N N 239 OMG "C5'" "H5'" sing N N 240 OMG "C5'" "H5''" sing N N 241 OMG "C4'" "O4'" sing N N 242 OMG "C4'" "C3'" sing N N 243 OMG "C4'" "H4'" sing N N 244 OMG "O4'" "C1'" sing N N 245 OMG "C3'" "O3'" sing N N 246 OMG "C3'" "C2'" sing N N 247 OMG "C3'" "H3'" sing N N 248 OMG "O3'" "HO3'" sing N N 249 OMG "C2'" "O2'" sing N N 250 OMG "C2'" "C1'" sing N N 251 OMG "C2'" "H2'" sing N N 252 OMG "O2'" CM2 sing N N 253 OMG CM2 HM21 sing N N 254 OMG CM2 HM22 sing N N 255 OMG CM2 HM23 sing N N 256 OMG "C1'" N9 sing N N 257 OMG "C1'" "H1'" sing N N 258 OMG N9 C8 sing Y N 259 OMG N9 C4 sing Y N 260 OMG C8 N7 doub Y N 261 OMG C8 H8 sing N N 262 OMG N7 C5 sing Y N 263 OMG C5 C6 sing N N 264 OMG C5 C4 doub Y N 265 OMG C6 O6 doub N N 266 OMG C6 N1 sing N N 267 OMG N1 C2 sing N N 268 OMG N1 HN1 sing N N 269 OMG C2 N2 sing N N 270 OMG C2 N3 doub N N 271 OMG N2 HN21 sing N N 272 OMG N2 HN22 sing N N 273 OMG N3 C4 sing N N 274 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 7EFI 'double helix' 7EFI 'a-form double helix' 7EFI 'internal loop' 7EFI 'quadruple helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 1 1_555 A OMC 19 9_769 0.598 -0.241 -0.529 -7.860 0.526 -9.293 1 A_G1:OMC19_A A 1 ? A 19 ? 19 1 1 A G 2 1_555 A OMC 18 9_769 0.385 -0.651 -0.359 -3.738 -7.688 -20.797 2 A_G2:OMC18_A A 2 ? A 18 ? 22 1 1 A C 3 1_555 A G 17 9_769 0.404 -0.390 -0.181 -0.478 -5.801 1.026 3 A_C3:G17_A A 3 ? A 17 ? 19 1 1 A G 1 9_769 A OMC 19 1_555 0.598 -0.241 -0.529 -7.860 0.526 -9.293 4 A_G1:OMC19_A A 1 ? A 19 ? 19 1 1 A G 2 9_769 A OMC 18 1_555 0.385 -0.651 -0.359 -3.738 -7.688 -20.797 5 A_G2:OMC18_A A 2 ? A 18 ? 22 1 1 A C 3 9_769 A G 17 1_555 0.404 -0.390 -0.181 -0.478 -5.801 1.026 6 A_C3:G17_A A 3 ? A 17 ? 19 1 1 A G 7 1_555 A DA 16 9_769 6.476 -4.412 0.512 20.508 13.731 2.768 7 A_G7:DA16_A A 7 ? A 16 ? 11 9 1 A A 8 1_555 A DG 15 9_769 -6.523 -4.595 0.531 -22.683 11.529 -1.608 8 A_A8:DG15_A A 8 ? A 15 ? 11 10 1 A A 9 1_555 A OMG 14 9_769 -7.365 -4.271 0.734 16.188 -15.283 -24.457 9 A_A9:OMG14_A A 9 ? A 14 ? ? 10 1 A C 10 1_555 A OMG 13 9_769 -0.273 -0.008 -0.475 14.245 -9.906 6.163 10 A_C10:OMG13_A A 10 ? A 13 ? 19 1 1 A C 11 1_555 A OMG 12 9_769 0.129 -0.031 -0.425 9.668 0.441 3.648 11 A_C11:OMG12_A A 11 ? A 12 ? 19 1 1 A OMG 12 1_555 A C 11 9_769 -0.129 -0.031 -0.425 -9.668 0.441 3.648 12 A_OMG12:C11_A A 12 ? A 11 ? 19 1 1 A OMG 13 1_555 A C 10 9_769 0.273 -0.008 -0.475 -14.245 -9.906 6.163 13 A_OMG13:C10_A A 13 ? A 10 ? 19 1 1 A OMG 14 1_555 A A 9 9_769 7.365 -4.271 0.734 -16.188 -15.283 -24.457 14 A_OMG14:A9_A A 14 ? A 9 ? ? 10 1 A DG 15 1_555 A A 8 9_769 6.523 -4.595 0.531 22.683 11.529 -1.608 15 A_DG15:A8_A A 15 ? A 8 ? 11 10 1 A DA 16 1_555 A G 7 9_769 -6.476 -4.412 0.512 -20.508 13.731 2.768 16 A_DA16:G7_A A 16 ? A 7 ? 11 9 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A G 1 1_555 A OMC 19 9_769 A G 2 1_555 A OMC 18 9_769 -0.941 -2.170 3.264 -2.836 1.934 30.916 -4.413 1.218 3.197 3.613 5.300 31.102 1 AA_G1G2:OMC18OMC19_AA A 1 ? A 19 ? A 2 ? A 18 ? 1 A G 2 1_555 A OMC 18 9_769 A C 3 1_555 A G 17 9_769 1.265 -2.272 3.298 2.806 1.090 30.838 -4.466 -1.819 3.317 2.044 -5.261 30.981 2 AA_G2C3:G17OMC18_AA A 2 ? A 18 ? A 3 ? A 17 ? 1 A G 1 9_769 A OMC 19 1_555 A G 2 9_769 A OMC 18 1_555 -0.941 -2.170 3.264 -2.836 1.934 30.916 -4.413 1.218 3.197 3.613 5.300 31.102 3 AA_G1G2:OMC18OMC19_AA A 1 ? A 19 ? A 2 ? A 18 ? 1 A G 2 9_769 A OMC 18 1_555 A C 3 9_769 A G 17 1_555 1.265 -2.272 3.298 2.806 1.090 30.838 -4.466 -1.819 3.317 2.044 -5.261 30.981 4 AA_G2C3:G17OMC18_AA A 2 ? A 18 ? A 3 ? A 17 ? 1 A G 7 1_555 A DA 16 9_769 A A 8 1_555 A DG 15 9_769 -0.906 -1.360 4.643 -9.823 -9.308 -4.708 14.598 -13.285 0.026 48.767 -51.469 -14.324 5 AA_G7A8:DG15DA16_AA A 7 ? A 16 ? A 8 ? A 15 ? 1 A A 8 1_555 A DG 15 9_769 A A 9 1_555 A OMG 14 9_769 -1.687 -0.405 3.095 -3.820 -1.426 26.884 -0.508 2.644 3.314 -3.045 8.157 27.186 6 AA_A8A9:OMG14DG15_AA A 8 ? A 15 ? A 9 ? A 14 ? 1 A A 9 1_555 A OMG 14 9_769 A C 10 1_555 A OMG 13 9_769 2.183 -0.921 3.529 1.874 12.776 59.631 -1.562 -2.059 3.348 12.686 -1.861 60.888 7 AA_A9C10:OMG13OMG14_AA A 9 ? A 14 ? A 10 ? A 13 ? 1 A C 10 1_555 A OMG 13 9_769 A C 11 1_555 A OMG 12 9_769 -0.167 -1.998 3.231 -1.084 15.600 36.161 -4.588 0.137 2.220 23.810 1.654 39.294 8 AA_C10C11:OMG12OMG13_AA A 10 ? A 13 ? A 11 ? A 12 ? 1 A C 11 1_555 A OMG 12 9_769 A OMG 12 1_555 A C 11 9_769 0.000 -2.138 3.663 0.000 16.463 23.761 -7.686 0.000 1.826 35.095 0.000 28.840 9 AA_C11OMG12:C11OMG12_AA A 11 ? A 12 ? A 12 ? A 11 ? 1 A OMG 12 1_555 A C 11 9_769 A OMG 13 1_555 A C 10 9_769 0.167 -1.998 3.231 1.084 15.600 36.161 -4.588 -0.137 2.220 23.810 -1.654 39.294 10 AA_OMG12OMG13:C10C11_AA A 12 ? A 11 ? A 13 ? A 10 ? 1 A OMG 13 1_555 A C 10 9_769 A OMG 14 1_555 A A 9 9_769 -2.183 -0.921 3.529 -1.874 12.776 59.631 -1.562 2.059 3.348 12.686 1.861 60.888 11 AA_OMG13OMG14:A9C10_AA A 13 ? A 10 ? A 14 ? A 9 ? 1 A OMG 14 1_555 A A 9 9_769 A DG 15 1_555 A A 8 9_769 1.687 -0.405 3.095 3.820 -1.426 26.884 -0.508 -2.644 3.314 -3.045 -8.157 27.186 12 AA_OMG14DG15:A8A9_AA A 14 ? A 9 ? A 15 ? A 8 ? 1 A DG 15 1_555 A A 8 9_769 A DA 16 1_555 A G 7 9_769 0.906 -1.360 4.643 9.823 -9.308 -4.708 14.598 13.285 0.026 48.767 51.469 -14.324 13 AA_DG15DA16:G7A8_AA A 15 ? A 8 ? A 16 ? A 7 ? # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 OMC ? ? OMC ? ? 'SUBJECT OF INVESTIGATION' ? 2 OMG ? ? OMG ? ? 'SUBJECT OF INVESTIGATION' ? # _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 4CS1 _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #