data_5TDK # _entry.id 5TDK # _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 5TDK pdb_00005tdk 10.2210/pdb5tdk/pdb WWPDB D_1000224077 ? ? # loop_ _pdbx_database_related.content_type _pdbx_database_related.db_id _pdbx_database_related.db_name _pdbx_database_related.details unspecified 5TDJ PDB . unspecified 4MS9 PDB . unspecified 4MSB PDB . unspecified 4MSR PDB . # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5TDK _pdbx_database_status.recvd_initial_deposition_date 2016-09-19 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Luo, Z.' 1 ? 'Sheng, J.' 2 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 45 _citation.language ? _citation.page_first 3537 _citation.page_last 3546 _citation.title 'Structural insights into RNA duplexes with multiple 2 -5 -linkages.' _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkw1307 _citation.pdbx_database_id_PubMed 28034958 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Shen, F.' 1 ? primary 'Luo, Z.' 2 ? primary 'Liu, H.' 3 ? primary 'Wang, R.' 4 ? primary 'Zhang, S.' 5 ? primary 'Gan, J.' 6 ? primary 'Sheng, J.' 7 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 96.52 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 5TDK _cell.details ? _cell.formula_units_Z ? _cell.length_a 24.820 _cell.length_a_esd ? _cell.length_b 47.020 _cell.length_b_esd ? _cell.length_c 42.880 _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 ? # _symmetry.entry_id 5TDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;RNA (5'-R(*CP*CP*GP*GP*CP*GP*CP*CP*GP*G)-3') ; 3206.980 2 ? ? ? ? 2 non-polymer syn 'STRONTIUM ION' 87.620 5 ? ? ? ? 3 water nat water 18.015 66 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code CCGGCGCCGG _entity_poly.pdbx_seq_one_letter_code_can CCGGCGCCGG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 C n 1 3 G n 1 4 G n 1 5 C n 1 6 G n 1 7 C n 1 8 C n 1 9 G n 1 10 G n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 10 _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 'CHEMICALLY SYNTHESIZED BY SOLID PHASE SYNTHESIS AND PURIFIED BY HPLC' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5TDK _struct_ref.pdbx_db_accession 5TDK _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 5TDK A 1 ? 10 ? 5TDK 1 ? 10 ? 1 10 2 1 5TDK B 1 ? 10 ? 5TDK 1 ? 10 ? 1 10 # 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 SR non-polymer . 'STRONTIUM ION' ? 'Sr 2' 87.620 # _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 5TDK _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 1.94 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 36.53 _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 7.0 _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 ;40 mM sodium cacodylate buffer (pH 7.0), 10% (v/v) MPD (2-methyl-2,4-pentanediol), 12 mM spermine tetrahydrochloride, 40 mM LiCl, 80 mM SrCl2 and 20 mM MgCl2 ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2015-08-25 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_synchrotron_site ALS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 5TDK _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.43 _reflns.d_resolution_low 18.7 _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 8980 _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 98.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.9 _reflns.pdbx_Rmerge_I_obs 0.063 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 13.3 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.43 _reflns_shell.d_res_low 1.47 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 2.0 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all 91.9 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.68 _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 2.9 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] 0.06 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] 1.80 _refine.aniso_B[2][2] -1.79 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] 1.28 _refine.B_iso_max ? _refine.B_iso_mean 19.014 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.969 _refine.correlation_coeff_Fo_to_Fc_free 0.963 _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 5TDK _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.43 _refine.ls_d_res_low 18.7 _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 8504 _refine.ls_number_reflns_R_free 476 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.50 _refine.ls_percent_reflns_R_free 5.3 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.16984 _refine.ls_R_factor_R_free 0.20585 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.16781 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 4MSB _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.086 _refine.pdbx_overall_ESU_R_Free 0.073 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 3.929 _refine.overall_SU_ML 0.065 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id 1 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 424 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 66 _refine_hist.number_atoms_total 495 _refine_hist.d_res_high 1.43 _refine_hist.d_res_low 18.7 # 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' ? 0.010 0.011 464 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.004 0.020 202 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.379 1.256 702 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 3.183 3.000 482 ? 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' ? 0.094 0.200 80 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.021 0.020 246 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.003 0.020 116 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 3.405 3.714 464 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 3.404 3.715 463 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 3.919 7.004 703 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 5.106 17.434 2442 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 5.051 17.368 2426 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? 3.866 3.000 666 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? 37.310 5.000 2 ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? 16.305 5.000 695 ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.430 _refine_ls_shell.d_res_low 1.467 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 31 _refine_ls_shell.number_reflns_R_work 596 _refine_ls_shell.percent_reflns_obs 91.67 _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 0.296 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.248 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 5TDK _struct.title ;RNA decamer duplex with eight 2'-5'-linkages ; _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 5TDK _struct_keywords.text ;2'-5'-LINKAGE, RNA, PLANT PROTEIN ; _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 3 ? I 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 one ? A G 3 "O2'" ? ? ? 1_555 A G 4 P ? ? A G 3 A G 4 1_555 ? ? ? ? ? ? ? 1.598 ? ? covale2 covale one ? A C 5 "O2'" ? ? ? 1_555 A G 6 P ? ? A C 5 A G 6 1_555 ? ? ? ? ? ? ? 1.620 ? ? covale3 covale one ? A C 7 "O2'" ? ? ? 1_555 A C 8 P ? ? A C 7 A C 8 1_555 ? ? ? ? ? ? ? 1.644 ? ? covale4 covale one ? A G 9 "O2'" ? ? ? 1_555 A G 10 P ? ? A G 9 A G 10 1_555 ? ? ? ? ? ? ? 1.623 ? ? covale5 covale one ? B G 3 "O2'" ? ? ? 1_555 B G 4 P ? ? B G 3 B G 4 1_555 ? ? ? ? ? ? ? 1.622 ? ? covale6 covale one ? B C 5 "O2'" ? ? ? 1_555 B G 6 P ? ? B C 5 B G 6 1_555 ? ? ? ? ? ? ? 1.587 ? ? covale7 covale one ? B C 7 "O2'" ? ? ? 1_555 B C 8 P ? ? B C 7 B C 8 1_555 ? ? ? ? ? ? ? 1.621 ? ? covale8 covale one ? B G 9 "O2'" ? ? ? 1_555 B G 10 P ? ? B G 9 B G 10 1_555 ? ? ? ? ? ? ? 1.675 ? ? metalc1 metalc ? ? D SR . SR ? ? ? 1_555 H HOH . O ? ? A SR 102 A HOH 218 1_555 ? ? ? ? ? ? ? 2.359 ? ? metalc2 metalc ? ? E SR . SR ? ? ? 1_555 H HOH . O ? ? A SR 103 A HOH 233 1_555 ? ? ? ? ? ? ? 2.727 ? ? metalc3 metalc ? ? E SR . SR ? ? ? 1_555 I HOH . O ? ? A SR 103 B HOH 225 3_555 ? ? ? ? ? ? ? 2.628 ? ? metalc4 metalc ? ? F SR . SR ? ? ? 1_555 H HOH . O ? ? A SR 104 A HOH 216 1_555 ? ? ? ? ? ? ? 2.789 ? ? metalc5 metalc ? ? F SR . SR ? ? ? 1_555 H HOH . O ? ? A SR 104 A HOH 216 2_555 ? ? ? ? ? ? ? 2.789 ? ? metalc6 metalc ? ? F SR . SR ? ? ? 1_555 I HOH . O ? ? A SR 104 B HOH 201 1_555 ? ? ? ? ? ? ? 2.837 ? ? metalc7 metalc ? ? F SR . SR ? ? ? 1_555 I HOH . O ? ? A SR 104 B HOH 201 2_555 ? ? ? ? ? ? ? 2.837 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 1 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 1 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 1 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 9 N1 ? ? A C 2 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 9 O6 ? ? A C 2 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 9 N2 ? ? A C 2 B G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 8 N3 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 8 O2 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 8 N4 ? ? A G 3 B C 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 4 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 4 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 4 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 6 N1 ? ? A C 5 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 6 O6 ? ? A C 5 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 6 N2 ? ? A C 5 B G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 6 B C 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 4 N1 ? ? A C 7 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 4 O6 ? ? A C 7 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 4 N2 ? ? A C 7 B G 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 8 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 8 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 8 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 8 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 9 N1 ? ? ? 1_555 B C 2 N3 ? ? A G 9 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 9 N2 ? ? ? 1_555 B C 2 O2 ? ? A G 9 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 9 O6 ? ? ? 1_555 B C 2 N4 ? ? A G 9 B C 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 10 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 10 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 1 N4 ? ? A G 10 B C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A SR 101 ? 5 'binding site for residue SR A 101' AC2 Software A SR 102 ? 6 'binding site for residue SR A 102' AC3 Software A SR 103 ? 2 'binding site for residue SR A 103' AC4 Software A SR 104 ? 6 'binding site for residue SR A 104' AC5 Software B SR 101 ? 2 'binding site for residue SR B 101' AC6 Software B G 3 ? 14 'binding site for Di-nucleotide G B 3 and G B 4' AC7 Software B C 5 ? 15 'binding site for Di-nucleotide C B 5 and G B 6' AC8 Software B C 7 ? 8 'binding site for Di-nucleotide C B 7 and C B 8' AC9 Software B G 9 ? 12 'binding site for Di-nucleotide G B 9 and G B 10' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 5 HOH H . ? HOH A 220 . ? 1_555 ? 2 AC1 5 HOH H . ? HOH A 230 . ? 1_555 ? 3 AC1 5 HOH H . ? HOH A 232 . ? 1_555 ? 4 AC1 5 HOH H . ? HOH A 237 . ? 1_555 ? 5 AC1 5 HOH H . ? HOH A 240 . ? 1_555 ? 6 AC2 6 HOH H . ? HOH A 218 . ? 1_555 ? 7 AC2 6 HOH H . ? HOH A 224 . ? 1_555 ? 8 AC2 6 HOH H . ? HOH A 227 . ? 1_555 ? 9 AC2 6 HOH H . ? HOH A 239 . ? 1_555 ? 10 AC2 6 HOH I . ? HOH B 218 . ? 3_555 ? 11 AC2 6 HOH I . ? HOH B 226 . ? 3_555 ? 12 AC3 2 HOH H . ? HOH A 233 . ? 1_555 ? 13 AC3 2 HOH I . ? HOH B 225 . ? 3_555 ? 14 AC4 6 C A 5 ? C A 5 . ? 2_555 ? 15 AC4 6 C A 5 ? C A 5 . ? 1_555 ? 16 AC4 6 HOH H . ? HOH A 216 . ? 1_555 ? 17 AC4 6 HOH H . ? HOH A 216 . ? 2_555 ? 18 AC4 6 HOH I . ? HOH B 201 . ? 2_555 ? 19 AC4 6 HOH I . ? HOH B 201 . ? 1_555 ? 20 AC5 2 HOH I . ? HOH B 203 . ? 1_555 ? 21 AC5 2 HOH I . ? HOH B 212 . ? 1_555 ? 22 AC6 14 G A 6 ? G A 6 . ? 1_555 ? 23 AC6 14 C A 7 ? C A 7 . ? 1_555 ? 24 AC6 14 C A 8 ? C A 8 . ? 1_555 ? 25 AC6 14 G A 9 ? G A 9 . ? 1_555 ? 26 AC6 14 C B 2 ? C B 2 . ? 2_656 ? 27 AC6 14 C B 2 ? C B 2 . ? 1_555 ? 28 AC6 14 C B 5 ? C B 5 . ? 1_555 ? 29 AC6 14 HOH I . ? HOH B 203 . ? 1_555 ? 30 AC6 14 HOH I . ? HOH B 206 . ? 1_555 ? 31 AC6 14 HOH I . ? HOH B 212 . ? 1_555 ? 32 AC6 14 HOH I . ? HOH B 213 . ? 1_555 ? 33 AC6 14 HOH I . ? HOH B 214 . ? 1_555 ? 34 AC6 14 HOH I . ? HOH B 216 . ? 1_555 ? 35 AC6 14 HOH I . ? HOH B 217 . ? 1_555 ? 36 AC7 15 G A 4 ? G A 4 . ? 1_555 ? 37 AC7 15 C A 5 ? C A 5 . ? 1_555 ? 38 AC7 15 G A 6 ? G A 6 . ? 1_555 ? 39 AC7 15 HOH H . ? HOH A 205 . ? 2_555 ? 40 AC7 15 HOH H . ? HOH A 216 . ? 2_555 ? 41 AC7 15 C B 1 ? C B 1 . ? 1_455 ? 42 AC7 15 G B 4 ? G B 4 . ? 1_555 ? 43 AC7 15 C B 7 ? C B 7 . ? 1_555 ? 44 AC7 15 G B 10 ? G B 10 . ? 3_455 ? 45 AC7 15 HOH I . ? HOH B 205 . ? 1_555 ? 46 AC7 15 HOH I . ? HOH B 207 . ? 1_555 ? 47 AC7 15 HOH I . ? HOH B 210 . ? 1_555 ? 48 AC7 15 HOH I . ? HOH B 211 . ? 1_555 ? 49 AC7 15 HOH I . ? HOH B 213 . ? 2_556 ? 50 AC7 15 HOH I . ? HOH B 220 . ? 1_555 ? 51 AC8 8 G A 3 ? G A 3 . ? 1_555 ? 52 AC8 8 G A 4 ? G A 4 . ? 1_555 ? 53 AC8 8 C A 5 ? C A 5 . ? 2_555 ? 54 AC8 8 G B 6 ? G B 6 . ? 1_555 ? 55 AC8 8 G B 9 ? G B 9 . ? 1_555 ? 56 AC8 8 HOH I . ? HOH B 201 . ? 1_555 ? 57 AC8 8 HOH I . ? HOH B 204 . ? 1_555 ? 58 AC8 8 HOH I . ? HOH B 207 . ? 1_555 ? 59 AC9 12 C A 1 ? C A 1 . ? 1_555 ? 60 AC9 12 C A 2 ? C A 2 . ? 1_555 ? 61 AC9 12 G A 3 ? G A 3 . ? 1_555 ? 62 AC9 12 G A 10 ? G A 10 . ? 3_445 ? 63 AC9 12 C B 1 ? C B 1 . ? 3_445 ? 64 AC9 12 C B 5 ? C B 5 . ? 3_545 ? 65 AC9 12 G B 6 ? G B 6 . ? 3_545 ? 66 AC9 12 C B 8 ? C B 8 . ? 1_555 ? 67 AC9 12 HOH I . ? HOH B 202 . ? 1_555 ? 68 AC9 12 HOH I . ? HOH B 209 . ? 1_555 ? 69 AC9 12 HOH I . ? HOH B 215 . ? 1_555 ? 70 AC9 12 HOH I . ? HOH B 218 . ? 1_555 ? # _atom_sites.entry_id 5TDK _atom_sites.fract_transf_matrix[1][1] 0.040290 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004605 _atom_sites.fract_transf_matrix[2][1] -0.000000 _atom_sites.fract_transf_matrix[2][2] 0.021268 _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] 0.023473 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P SR # 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 C 1 1 1 C C A . n A 1 2 C 2 2 2 C C A . n A 1 3 G 3 3 3 G G A . n A 1 4 G 4 4 4 G G A . n A 1 5 C 5 5 5 C C A . n A 1 6 G 6 6 6 G G A . n A 1 7 C 7 7 7 C C A . n A 1 8 C 8 8 8 C C A . n A 1 9 G 9 9 9 G G A . n A 1 10 G 10 10 10 G G A . n B 1 1 C 1 1 1 C C B . n B 1 2 C 2 2 2 C C B . n B 1 3 G 3 3 3 G G B . n B 1 4 G 4 4 4 G G B . n B 1 5 C 5 5 5 C C B . n B 1 6 G 6 6 6 G G B . n B 1 7 C 7 7 7 C C B . n B 1 8 C 8 8 8 C C B . n B 1 9 G 9 9 9 G G B . n B 1 10 G 10 10 10 G G B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 SR 1 101 1 SR SR A . D 2 SR 1 102 3 SR SR A . E 2 SR 1 103 4 SR SR A . F 2 SR 1 104 5 SR SR A . G 2 SR 1 101 2 SR SR B . H 3 HOH 1 201 56 HOH HOH A . H 3 HOH 2 202 28 HOH HOH A . H 3 HOH 3 203 49 HOH HOH A . H 3 HOH 4 204 23 HOH HOH A . H 3 HOH 5 205 24 HOH HOH A . H 3 HOH 6 206 52 HOH HOH A . H 3 HOH 7 207 58 HOH HOH A . H 3 HOH 8 208 55 HOH HOH A . H 3 HOH 9 209 45 HOH HOH A . H 3 HOH 10 210 29 HOH HOH A . H 3 HOH 11 211 54 HOH HOH A . H 3 HOH 12 212 40 HOH HOH A . H 3 HOH 13 213 42 HOH HOH A . H 3 HOH 14 214 53 HOH HOH A . H 3 HOH 15 215 35 HOH HOH A . H 3 HOH 16 216 26 HOH HOH A . H 3 HOH 17 217 57 HOH HOH A . H 3 HOH 18 218 39 HOH HOH A . H 3 HOH 19 219 36 HOH HOH A . H 3 HOH 20 220 32 HOH HOH A . H 3 HOH 21 221 48 HOH HOH A . H 3 HOH 22 222 59 HOH HOH A . H 3 HOH 23 223 21 HOH HOH A . H 3 HOH 24 224 37 HOH HOH A . H 3 HOH 25 225 41 HOH HOH A . H 3 HOH 26 226 50 HOH HOH A . H 3 HOH 27 227 27 HOH HOH A . H 3 HOH 28 228 44 HOH HOH A . H 3 HOH 29 229 22 HOH HOH A . H 3 HOH 30 230 33 HOH HOH A . H 3 HOH 31 231 25 HOH HOH A . H 3 HOH 32 232 31 HOH HOH A . H 3 HOH 33 233 51 HOH HOH A . H 3 HOH 34 234 34 HOH HOH A . H 3 HOH 35 235 30 HOH HOH A . H 3 HOH 36 236 60 HOH HOH A . H 3 HOH 37 237 47 HOH HOH A . H 3 HOH 38 238 43 HOH HOH A . H 3 HOH 39 239 38 HOH HOH A . H 3 HOH 40 240 46 HOH HOH A . I 3 HOH 1 201 22 HOH HOH B . I 3 HOH 2 202 24 HOH HOH B . I 3 HOH 3 203 44 HOH HOH B . I 3 HOH 4 204 25 HOH HOH B . I 3 HOH 5 205 33 HOH HOH B . I 3 HOH 6 206 37 HOH HOH B . I 3 HOH 7 207 46 HOH HOH B . I 3 HOH 8 208 41 HOH HOH B . I 3 HOH 9 209 26 HOH HOH B . I 3 HOH 10 210 27 HOH HOH B . I 3 HOH 11 211 29 HOH HOH B . I 3 HOH 12 212 30 HOH HOH B . I 3 HOH 13 213 42 HOH HOH B . I 3 HOH 14 214 43 HOH HOH B . I 3 HOH 15 215 34 HOH HOH B . I 3 HOH 16 216 40 HOH HOH B . I 3 HOH 17 217 28 HOH HOH B . I 3 HOH 18 218 23 HOH HOH B . I 3 HOH 19 219 35 HOH HOH B . I 3 HOH 20 220 39 HOH HOH B . I 3 HOH 21 221 31 HOH HOH B . I 3 HOH 22 222 32 HOH HOH B . I 3 HOH 23 223 21 HOH HOH B . I 3 HOH 24 224 45 HOH HOH B . I 3 HOH 25 225 38 HOH HOH B . I 3 HOH 26 226 36 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2190 ? 1 MORE -131 ? 1 'SSA (A^2)' 3830 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A SR 104 ? F SR . 2 1 A HOH 201 ? H HOH . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? H HOH . ? A HOH 233 ? 1_555 SR ? E SR . ? A SR 103 ? 1_555 O ? I HOH . ? B HOH 225 ? 3_555 68.4 ? 2 O ? H HOH . ? A HOH 216 ? 1_555 SR ? F SR . ? A SR 104 ? 1_555 O ? H HOH . ? A HOH 216 ? 2_555 72.7 ? 3 O ? H HOH . ? A HOH 216 ? 1_555 SR ? F SR . ? A SR 104 ? 1_555 O ? I HOH . ? B HOH 201 ? 1_555 148.0 ? 4 O ? H HOH . ? A HOH 216 ? 2_555 SR ? F SR . ? A SR 104 ? 1_555 O ? I HOH . ? B HOH 201 ? 1_555 79.1 ? 5 O ? H HOH . ? A HOH 216 ? 1_555 SR ? F SR . ? A SR 104 ? 1_555 O ? I HOH . ? B HOH 201 ? 2_555 79.1 ? 6 O ? H HOH . ? A HOH 216 ? 2_555 SR ? F SR . ? A SR 104 ? 1_555 O ? I HOH . ? B HOH 201 ? 2_555 148.0 ? 7 O ? I HOH . ? B HOH 201 ? 1_555 SR ? F SR . ? A SR 104 ? 1_555 O ? I HOH . ? B HOH 201 ? 2_555 131.7 ? # 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 2017-01-11 2 'Structure model' 1 1 2017-05-03 3 'Structure model' 1 2 2018-01-17 4 'Structure model' 1 3 2019-01-16 5 'Structure model' 1 4 2023-10-04 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' Advisory 3 3 'Structure model' 'Author supporting evidence' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Source and taxonomy' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Database references' 8 5 'Structure model' 'Derived calculations' 9 5 '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 3 'Structure model' pdbx_audit_support 2 3 'Structure model' pdbx_validate_polymer_linkage 3 4 'Structure model' pdbx_entity_src_syn 4 5 'Structure model' chem_comp_atom 5 5 'Structure model' chem_comp_bond 6 5 'Structure model' database_2 7 5 'Structure model' pdbx_initial_refinement_model 8 5 'Structure model' pdbx_struct_conn_angle 9 5 'Structure model' struct_conn # 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 4 'Structure model' '_pdbx_entity_src_syn.ncbi_taxonomy_id' 2 4 'Structure model' '_pdbx_entity_src_syn.organism_scientific' 3 5 'Structure model' '_database_2.pdbx_DOI' 4 5 'Structure model' '_database_2.pdbx_database_accession' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 13 5 'Structure model' '_pdbx_struct_conn_angle.value' 14 5 'Structure model' '_struct_conn.pdbx_dist_value' 15 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 16 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 17 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 18 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 19 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 20 5 'Structure model' '_struct_conn.ptnr2_symmetry' # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0103 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 SR A SR 101 ? ? O A HOH 232 ? ? 1.90 2 1 SR A SR 101 ? ? O A HOH 230 ? ? 1.94 3 1 SR A SR 101 ? ? O A HOH 220 ? ? 2.00 4 1 SR A SR 101 ? ? O A HOH 237 ? ? 2.10 5 1 SR A SR 101 ? ? O A HOH 240 ? ? 2.16 6 1 SR B SR 101 ? ? O B HOH 212 ? ? 2.17 7 1 SR A SR 102 ? ? O A HOH 227 ? ? 2.18 8 1 SR A SR 102 ? ? O A HOH 224 ? ? 2.19 # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 SR A SR 102 ? ? 1_555 O B HOH 218 ? ? 3_555 1.96 2 1 SR A SR 102 ? ? 1_555 O B HOH 226 ? ? 3_555 1.99 # 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 C OP3 O N N 1 C P P N N 2 C OP1 O N N 3 C OP2 O N N 4 C "O5'" O N N 5 C "C5'" C N N 6 C "C4'" C N R 7 C "O4'" O N N 8 C "C3'" C N S 9 C "O3'" O N N 10 C "C2'" C N R 11 C "O2'" O N N 12 C "C1'" C N R 13 C N1 N N N 14 C C2 C N N 15 C O2 O N N 16 C N3 N N N 17 C C4 C N N 18 C N4 N N N 19 C C5 C N N 20 C C6 C N N 21 C HOP3 H N N 22 C HOP2 H N N 23 C "H5'" H N N 24 C "H5''" H N N 25 C "H4'" H N N 26 C "H3'" H N N 27 C "HO3'" H N N 28 C "H2'" H N N 29 C "HO2'" H N N 30 C "H1'" H N N 31 C H41 H N N 32 C H42 H N N 33 C H5 H N N 34 C H6 H N N 35 G OP3 O N N 36 G P P N N 37 G OP1 O N N 38 G OP2 O N N 39 G "O5'" O N N 40 G "C5'" C N N 41 G "C4'" C N R 42 G "O4'" O N N 43 G "C3'" C N S 44 G "O3'" O N N 45 G "C2'" C N R 46 G "O2'" O N N 47 G "C1'" C N R 48 G N9 N Y N 49 G C8 C Y N 50 G N7 N Y N 51 G C5 C Y N 52 G C6 C N N 53 G O6 O N N 54 G N1 N N N 55 G C2 C N N 56 G N2 N N N 57 G N3 N N N 58 G C4 C Y N 59 G HOP3 H N N 60 G HOP2 H N N 61 G "H5'" H N N 62 G "H5''" H N N 63 G "H4'" H N N 64 G "H3'" H N N 65 G "HO3'" H N N 66 G "H2'" H N N 67 G "HO2'" H N N 68 G "H1'" H N N 69 G H8 H N N 70 G H1 H N N 71 G H21 H N N 72 G H22 H N N 73 HOH O O N N 74 HOH H1 H N N 75 HOH H2 H N N 76 SR SR SR N N 77 # 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 C OP3 P sing N N 1 C OP3 HOP3 sing N N 2 C P OP1 doub N N 3 C P OP2 sing N N 4 C P "O5'" sing N N 5 C OP2 HOP2 sing N N 6 C "O5'" "C5'" sing N N 7 C "C5'" "C4'" sing N N 8 C "C5'" "H5'" sing N N 9 C "C5'" "H5''" sing N N 10 C "C4'" "O4'" sing N N 11 C "C4'" "C3'" sing N N 12 C "C4'" "H4'" sing N N 13 C "O4'" "C1'" sing N N 14 C "C3'" "O3'" sing N N 15 C "C3'" "C2'" sing N N 16 C "C3'" "H3'" sing N N 17 C "O3'" "HO3'" sing N N 18 C "C2'" "O2'" sing N N 19 C "C2'" "C1'" sing N N 20 C "C2'" "H2'" sing N N 21 C "O2'" "HO2'" sing N N 22 C "C1'" N1 sing N N 23 C "C1'" "H1'" sing N N 24 C N1 C2 sing N N 25 C N1 C6 sing N N 26 C C2 O2 doub N N 27 C C2 N3 sing N N 28 C N3 C4 doub N N 29 C C4 N4 sing N N 30 C C4 C5 sing N N 31 C N4 H41 sing N N 32 C N4 H42 sing N N 33 C C5 C6 doub N N 34 C C5 H5 sing N N 35 C C6 H6 sing N N 36 G OP3 P sing N N 37 G OP3 HOP3 sing N N 38 G P OP1 doub N N 39 G P OP2 sing N N 40 G P "O5'" sing N N 41 G OP2 HOP2 sing N N 42 G "O5'" "C5'" sing N N 43 G "C5'" "C4'" sing N N 44 G "C5'" "H5'" sing N N 45 G "C5'" "H5''" sing N N 46 G "C4'" "O4'" sing N N 47 G "C4'" "C3'" sing N N 48 G "C4'" "H4'" sing N N 49 G "O4'" "C1'" sing N N 50 G "C3'" "O3'" sing N N 51 G "C3'" "C2'" sing N N 52 G "C3'" "H3'" sing N N 53 G "O3'" "HO3'" sing N N 54 G "C2'" "O2'" sing N N 55 G "C2'" "C1'" sing N N 56 G "C2'" "H2'" sing N N 57 G "O2'" "HO2'" sing N N 58 G "C1'" N9 sing N N 59 G "C1'" "H1'" sing N N 60 G N9 C8 sing Y N 61 G N9 C4 sing Y N 62 G C8 N7 doub Y N 63 G C8 H8 sing N N 64 G N7 C5 sing Y N 65 G C5 C6 sing N N 66 G C5 C4 doub Y N 67 G C6 O6 doub N N 68 G C6 N1 sing N N 69 G N1 C2 sing N N 70 G N1 H1 sing N N 71 G C2 N2 sing N N 72 G C2 N3 doub N N 73 G N2 H21 sing N N 74 G N2 H22 sing N N 75 G N3 C4 sing N N 76 HOH O H1 sing N N 77 HOH O H2 sing N N 78 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5TDK 'double helix' 5TDK 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A C 1 1_555 B G 10 1_555 0.118 -0.178 -0.243 19.722 -13.585 -0.944 1 A_C1:G10_B A 1 ? B 10 ? 19 1 1 A C 2 1_555 B G 9 1_555 0.114 -0.114 0.143 -0.891 -11.876 -0.119 2 A_C2:G9_B A 2 ? B 9 ? 19 1 1 A G 3 1_555 B C 8 1_555 -0.296 -0.202 0.244 10.216 -7.731 2.185 3 A_G3:C8_B A 3 ? B 8 ? 19 1 1 A G 4 1_555 B C 7 1_555 -0.218 -0.115 -0.164 -15.641 -4.683 -0.055 4 A_G4:C7_B A 4 ? B 7 ? 19 1 1 A C 5 1_555 B G 6 1_555 0.105 -0.153 0.036 4.773 -9.560 -1.448 5 A_C5:G6_B A 5 ? B 6 ? 19 1 1 A G 6 1_555 B C 5 1_555 -0.133 -0.123 0.073 -0.978 -6.948 -1.648 6 A_G6:C5_B A 6 ? B 5 ? 19 1 1 A C 7 1_555 B G 4 1_555 0.228 -0.071 -0.210 18.071 -8.685 0.618 7 A_C7:G4_B A 7 ? B 4 ? 19 1 1 A C 8 1_555 B G 3 1_555 0.187 -0.148 0.093 -3.537 -11.653 0.323 8 A_C8:G3_B A 8 ? B 3 ? 19 1 1 A G 9 1_555 B C 2 1_555 -0.168 -0.155 -0.023 -0.886 -9.595 0.819 9 A_G9:C2_B A 9 ? B 2 ? 19 1 1 A G 10 1_555 B C 1 1_555 -0.269 -0.149 -0.455 -18.776 -7.372 -0.199 10 A_G10:C1_B A 10 ? B 1 ? 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 C 1 1_555 B G 10 1_555 A C 2 1_555 B G 9 1_555 0.731 -2.081 3.568 -0.362 7.891 39.982 -3.891 -1.091 3.112 11.406 0.523 40.724 1 AA_C1C2:G9G10_BB A 1 ? B 10 ? A 2 ? B 9 ? 1 A C 2 1_555 B G 9 1_555 A G 3 1_555 B C 8 1_555 -0.043 -1.513 2.850 -2.564 15.468 27.867 -4.887 -0.275 1.782 29.361 4.866 31.899 2 AA_C2G3:C8G9_BB A 2 ? B 9 ? A 3 ? B 8 ? 1 A G 3 1_555 B C 8 1_555 A G 4 1_555 B C 7 1_555 0.294 -2.802 3.681 4.273 5.622 38.400 -4.921 0.112 3.267 8.459 -6.430 39.020 3 AA_G3G4:C7C8_BB A 3 ? B 8 ? A 4 ? B 7 ? 1 A G 4 1_555 B C 7 1_555 A C 5 1_555 B G 6 1_555 -0.560 -0.747 2.834 -2.122 12.129 31.397 -2.937 0.679 2.420 21.410 3.746 33.668 4 AA_G4C5:G6C7_BB A 4 ? B 7 ? A 5 ? B 6 ? 1 A C 5 1_555 B G 6 1_555 A G 6 1_555 B C 5 1_555 0.671 -2.080 3.238 1.840 8.908 35.136 -4.490 -0.842 2.679 14.458 -2.986 36.258 5 AA_C5G6:C5G6_BB A 5 ? B 6 ? A 6 ? B 5 ? 1 A G 6 1_555 B C 5 1_555 A C 7 1_555 B G 4 1_555 0.438 -0.944 2.857 3.062 8.657 33.434 -2.711 -0.338 2.569 14.706 -5.202 34.637 6 AA_G6C7:G4C5_BB A 6 ? B 5 ? A 7 ? B 4 ? 1 A C 7 1_555 B G 4 1_555 A C 8 1_555 B G 3 1_555 -0.134 -2.778 3.635 -3.212 7.288 35.387 -5.520 -0.248 3.023 11.805 5.203 36.244 7 AA_C7C8:G3G4_BB A 7 ? B 4 ? A 8 ? B 3 ? 1 A C 8 1_555 B G 3 1_555 A G 9 1_555 B C 2 1_555 -0.133 -1.494 3.061 1.026 15.607 32.897 -4.226 0.334 2.152 25.820 -1.697 36.333 8 AA_C8G9:C2G3_BB A 8 ? B 3 ? A 9 ? B 2 ? 1 A G 9 1_555 B C 2 1_555 A G 10 1_555 B C 1 1_555 -0.029 -2.786 3.648 2.834 11.175 31.493 -6.631 0.505 2.527 19.778 -5.016 33.487 9 AA_G9G10:C1C2_BB A 9 ? B 2 ? A 10 ? B 1 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'STRONTIUM ION' SR 3 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 4MSB _pdbx_initial_refinement_model.details ? #