data_8HIS # _entry.id 8HIS # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.376 _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 8HIS pdb_00008his 10.2210/pdb8his/pdb WWPDB D_1300032951 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8HIS _pdbx_database_status.recvd_initial_deposition_date 2022-11-21 _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 'Aoyama, H.' 1 0000-0001-7915-8975 'Obika, S.' 2 0000-0002-6842-6812 'Yamaguchi, T.' 3 0000-0003-3180-0257 # _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 51 _citation.language ? _citation.page_first 7749 _citation.page_last 7761 _citation.title ;Mechanism of the extremely high duplex-forming ability of oligonucleotides modified with N-tert-butylguanidine- or N-tert-butyl-N'- methylguanidine-bridged nucleic acids. ; _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkad608 _citation.pdbx_database_id_PubMed 37462081 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Yamaguchi, T.' 1 ? primary 'Horie, N.' 2 ? primary 'Aoyama, H.' 3 ? primary 'Kumagai, S.' 4 ? primary 'Obika, S.' 5 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8HIS _cell.details ? _cell.formula_units_Z ? _cell.length_a 25.070 _cell.length_a_esd ? _cell.length_b 44.360 _cell.length_b_esd ? _cell.length_c 45.190 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8HIS _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*GP*CP*GP*TP*AP*(LR6)P*AP*CP*GP*C)-3') ; 3184.204 2 ? ? ? ? 2 non-polymer syn 'CACODYLIC ACID' 137.997 1 ? ? ? ? 3 water nat water 18.015 91 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DG)(DC)(DG)(DT)(DA)(LR6)(DA)(DC)(DG)(DC)' _entity_poly.pdbx_seq_one_letter_code_can GCGTAXACGC _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 DG n 1 2 DC n 1 3 DG n 1 4 DT n 1 5 DA n 1 6 LR6 n 1 7 DA n 1 8 DC n 1 9 DG n 1 10 DC 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8HIS _struct_ref.pdbx_db_accession 8HIS _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 8HIS A 1 ? 10 ? 8HIS 1 ? 10 ? 1 10 2 1 8HIS B 1 ? 10 ? 8HIS 11 ? 20 ? 11 20 # 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 CAD non-polymer . 'CACODYLIC ACID' 'HYDROXYDIMETHYLARSINE OXIDE' 'C2 H7 As O2' 137.997 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 LR6 'DNA linking' . ;[(1R,3R,4R,7S)-5-(N'-tert-butyl-N-methyl-carbamimidoyl)-3-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-7-oxidanyl-2-oxa-5-azabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate ; ? 'C17 H28 N5 O8 P' 461.407 # _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 8HIS _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 1.99 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 38.22 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;10% v/v (+/-)-2-Methyl-2,4-pentanediol, 0.040M Sodium cacodylate trihydrate pH 6.0, 0.012M Spermine tetrahydrochloride, 0.080M Potassium chloride, 0.020M Barium chloride ; _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 293.15 # _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 'IMAGE PLATE' _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'RIGAKU RAXIS IV++' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2019-03-26 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _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 'ROTATING ANODE' _diffrn_source.target ? _diffrn_source.type 'RIGAKU MICROMAX-007 HF' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8HIS _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.01 _reflns.d_resolution_low 20.13 _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 6474 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.7 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 6.5 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 55.1 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.94 _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 0.046 _reflns.pdbx_Rpim_I_all 0.018 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.999 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.042 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 2.01 _reflns_shell.d_res_low 2.07 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all 1890 _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 294 _reflns_shell.percent_possible_obs 99.4 _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_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 6.4 _reflns_shell.pdbx_chi_squared 0.83 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs 43.8 _reflns_shell.pdbx_Rrim_I_all 0.060 _reflns_shell.pdbx_Rpim_I_all 0.023 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.998 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.055 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _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 ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8HIS _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 2.01 _refine.ls_d_res_low 20.13 _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 6474 _refine.ls_number_reflns_R_free 664 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.63 _refine.ls_percent_reflns_R_free 10.26 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1831 _refine.ls_R_factor_R_free 0.2282 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1778 _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 1.00 _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 1I5W _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 1.10 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _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 21.63 _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 0.19 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 2.01 _refine_hist.d_res_low 20.13 _refine_hist.number_atoms_solvent 91 _refine_hist.number_atoms_total 520 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 424 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.005 ? 478 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.911 ? 740 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 18.172 ? 208 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.072 ? 81 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.004 ? 24 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _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_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 2.01 2.16 . . 124 1157 99.00 . . . . 0.1999 . . . . . . . . . . . 0.2570 'X-RAY DIFFRACTION' 2.16 2.38 . . 129 1167 99.00 . . . . 0.2041 . . . . . . . . . . . 0.2616 'X-RAY DIFFRACTION' 2.38 2.72 . . 140 1171 100.00 . . . . 0.2167 . . . . . . . . . . . 0.2503 'X-RAY DIFFRACTION' 2.73 3.43 . . 136 1149 100.00 . . . . 0.1793 . . . . . . . . . . . 0.2483 'X-RAY DIFFRACTION' 3.43 20.13 . . 135 1166 100.00 . . . . 0.1400 . . . . . . . . . . . 0.1762 # _struct.entry_id 8HIS _struct.title 'Crystal structure of DNA decamer containing GuNA[Me,tBu]' _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 8HIS _struct_keywords.text 'DNA, OLIGONUCLEOTIDE, MODIFIED BASE' _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 3 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A DA 5 "O3'" ? ? ? 1_555 A LR6 6 P ? ? A DA 5 A LR6 6 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale2 covale both ? A LR6 6 "O3'" ? ? ? 1_555 A DA 7 P ? ? A LR6 6 A DA 7 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale3 covale both ? B DA 5 "O3'" ? ? ? 1_555 B LR6 6 P ? ? B DA 15 B LR6 16 1_555 ? ? ? ? ? ? ? 1.605 ? ? covale4 covale both ? B LR6 6 "O3'" ? ? ? 1_555 B DA 7 P ? ? B LR6 16 B DA 17 1_555 ? ? ? ? ? ? ? 1.611 ? ? hydrog1 hydrog ? ? A DG 1 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DG 1 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 1 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 1 B DC 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N1 ? ? ? 1_555 B DC 8 N3 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DC 8 O2 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 3 O6 ? ? ? 1_555 B DC 8 N4 ? ? A DG 3 B DC 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DT 4 N3 ? ? ? 1_555 B DA 7 N1 ? ? A DT 4 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DT 4 O4 ? ? ? 1_555 B DA 7 N6 ? ? A DT 4 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 7 N1 ? ? ? 1_555 B DT 4 N3 ? ? A DA 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 7 N6 ? ? ? 1_555 B DT 4 O4 ? ? A DA 7 B DT 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B DG 3 N1 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B DG 3 O6 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B DG 3 N2 ? ? A DC 8 B DG 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 1 N1 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 1 O6 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 1 N2 ? ? A DC 10 B DG 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _atom_sites.entry_id 8HIS _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] 0.039888 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.022543 _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] 0.022129 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol AS 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 DG 1 1 1 DG DG A . n A 1 2 DC 2 2 2 DC DC A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DT 4 4 4 DT DT A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 LR6 6 6 6 LR6 GUC A . n A 1 7 DA 7 7 7 DA DA A . n A 1 8 DC 8 8 8 DC DC A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DC 10 10 10 DC DC A . n B 1 1 DG 1 11 11 DG DG B . n B 1 2 DC 2 12 12 DC DC B . n B 1 3 DG 3 13 13 DG DG B . n B 1 4 DT 4 14 14 DT DT B . n B 1 5 DA 5 15 15 DA DA B . n B 1 6 LR6 6 16 16 LR6 GUC B . n B 1 7 DA 7 17 17 DA DA B . n B 1 8 DC 8 18 18 DC DC B . n B 1 9 DG 9 19 19 DG DG B . n B 1 10 DC 10 20 20 DC DC B . n # loop_ _pdbx_contact_author.id _pdbx_contact_author.email _pdbx_contact_author.name_first _pdbx_contact_author.name_last _pdbx_contact_author.name_mi _pdbx_contact_author.role _pdbx_contact_author.identifier_ORCID 2 haoyama@phs.osaka-u.ac.jp HIroshi Aoyama ? 'principal investigator/group leader' 0000-0001-7915-8975 3 obika@phs.osaka-u.ac.jp Satoshi Obika ? 'principal investigator/group leader' 0000-0002-6842-6812 4 yamaguchi-ta@phs.osaka-u.ac.jp Takao Yamaguchi ? 'principal investigator/group leader' 0000-0003-3180-0257 # 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 CAD 1 101 1 CAD CAD B . D 3 HOH 1 101 52 HOH HOH A . D 3 HOH 2 102 81 HOH HOH A . D 3 HOH 3 103 10 HOH HOH A . D 3 HOH 4 104 64 HOH HOH A . D 3 HOH 5 105 25 HOH HOH A . D 3 HOH 6 106 54 HOH HOH A . D 3 HOH 7 107 57 HOH HOH A . D 3 HOH 8 108 49 HOH HOH A . D 3 HOH 9 109 77 HOH HOH A . D 3 HOH 10 110 38 HOH HOH A . D 3 HOH 11 111 3 HOH HOH A . D 3 HOH 12 112 39 HOH HOH A . D 3 HOH 13 113 43 HOH HOH A . D 3 HOH 14 114 20 HOH HOH A . D 3 HOH 15 115 69 HOH HOH A . D 3 HOH 16 116 75 HOH HOH A . D 3 HOH 17 117 91 HOH HOH A . D 3 HOH 18 118 50 HOH HOH A . D 3 HOH 19 119 6 HOH HOH A . D 3 HOH 20 120 19 HOH HOH A . D 3 HOH 21 121 14 HOH HOH A . D 3 HOH 22 122 37 HOH HOH A . D 3 HOH 23 123 7 HOH HOH A . D 3 HOH 24 124 41 HOH HOH A . D 3 HOH 25 125 87 HOH HOH A . D 3 HOH 26 126 16 HOH HOH A . D 3 HOH 27 127 76 HOH HOH A . D 3 HOH 28 128 13 HOH HOH A . D 3 HOH 29 129 61 HOH HOH A . D 3 HOH 30 130 17 HOH HOH A . D 3 HOH 31 131 8 HOH HOH A . D 3 HOH 32 132 36 HOH HOH A . D 3 HOH 33 133 11 HOH HOH A . D 3 HOH 34 134 35 HOH HOH A . D 3 HOH 35 135 28 HOH HOH A . D 3 HOH 36 136 72 HOH HOH A . D 3 HOH 37 137 58 HOH HOH A . D 3 HOH 38 138 78 HOH HOH A . D 3 HOH 39 139 27 HOH HOH A . D 3 HOH 40 140 33 HOH HOH A . D 3 HOH 41 141 26 HOH HOH A . D 3 HOH 42 142 5 HOH HOH A . D 3 HOH 43 143 89 HOH HOH A . D 3 HOH 44 144 47 HOH HOH A . D 3 HOH 45 145 56 HOH HOH A . D 3 HOH 46 146 74 HOH HOH A . D 3 HOH 47 147 48 HOH HOH A . D 3 HOH 48 148 32 HOH HOH A . D 3 HOH 49 149 60 HOH HOH A . D 3 HOH 50 150 46 HOH HOH A . D 3 HOH 51 151 59 HOH HOH A . D 3 HOH 52 152 30 HOH HOH A . D 3 HOH 53 153 23 HOH HOH A . E 3 HOH 1 201 79 HOH HOH B . E 3 HOH 2 202 63 HOH HOH B . E 3 HOH 3 203 44 HOH HOH B . E 3 HOH 4 204 66 HOH HOH B . E 3 HOH 5 205 42 HOH HOH B . E 3 HOH 6 206 22 HOH HOH B . E 3 HOH 7 207 55 HOH HOH B . E 3 HOH 8 208 80 HOH HOH B . E 3 HOH 9 209 24 HOH HOH B . E 3 HOH 10 210 67 HOH HOH B . E 3 HOH 11 211 62 HOH HOH B . E 3 HOH 12 212 40 HOH HOH B . E 3 HOH 13 213 21 HOH HOH B . E 3 HOH 14 214 18 HOH HOH B . E 3 HOH 15 215 29 HOH HOH B . E 3 HOH 16 216 68 HOH HOH B . E 3 HOH 17 217 1 HOH HOH B . E 3 HOH 18 218 4 HOH HOH B . E 3 HOH 19 219 82 HOH HOH B . E 3 HOH 20 220 12 HOH HOH B . E 3 HOH 21 221 9 HOH HOH B . E 3 HOH 22 222 2 HOH HOH B . E 3 HOH 23 223 86 HOH HOH B . E 3 HOH 24 224 70 HOH HOH B . E 3 HOH 25 225 51 HOH HOH B . E 3 HOH 26 226 53 HOH HOH B . E 3 HOH 27 227 15 HOH HOH B . E 3 HOH 28 228 31 HOH HOH B . E 3 HOH 29 229 34 HOH HOH B . E 3 HOH 30 230 90 HOH HOH B . E 3 HOH 31 231 84 HOH HOH B . E 3 HOH 32 232 73 HOH HOH B . E 3 HOH 33 233 65 HOH HOH B . E 3 HOH 34 234 71 HOH HOH B . E 3 HOH 35 235 85 HOH HOH B . E 3 HOH 36 236 45 HOH HOH B . E 3 HOH 37 237 83 HOH HOH B . E 3 HOH 38 238 88 HOH HOH B . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # 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)' 1340 ? 1 MORE 1 ? 1 'SSA (A^2)' 3880 ? # _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_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2023-08-09 2 'Structure model' 1 1 2023-09-06 # _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' 'Data collection' 2 2 'Structure model' 'Database references' # 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' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' citation 4 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.title' 5 2 'Structure model' '_citation_author.identifier_ORCID' # _pdbx_phasing_MR.entry_id 8HIS _pdbx_phasing_MR.method_rotation ? _pdbx_phasing_MR.method_translation ? _pdbx_phasing_MR.model_details 'Phaser MODE: MR_AUTO' _pdbx_phasing_MR.R_factor ? _pdbx_phasing_MR.R_rigid_body ? _pdbx_phasing_MR.correlation_coeff_Fo_to_Fc ? _pdbx_phasing_MR.correlation_coeff_Io_to_Ic ? _pdbx_phasing_MR.d_res_high_rotation 2.010 _pdbx_phasing_MR.d_res_low_rotation 20.130 _pdbx_phasing_MR.d_res_high_translation 2.010 _pdbx_phasing_MR.d_res_low_translation 20.130 _pdbx_phasing_MR.packing ? _pdbx_phasing_MR.reflns_percent_rotation ? _pdbx_phasing_MR.reflns_percent_translation ? _pdbx_phasing_MR.sigma_F_rotation ? _pdbx_phasing_MR.sigma_F_translation ? _pdbx_phasing_MR.sigma_I_rotation ? _pdbx_phasing_MR.sigma_I_translation ? # _phasing.method MR # 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 ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1-4487 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.7.4 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? 2.8.2 4 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.25 5 # _pdbx_entry_details.entry_id 8HIS _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal CAD AS AS N N 1 CAD C1 C N N 2 CAD C2 C N N 3 CAD O1 O N N 4 CAD O2 O N N 5 CAD H11 H N N 6 CAD H12 H N N 7 CAD H13 H N N 8 CAD H21 H N N 9 CAD H22 H N N 10 CAD H23 H N N 11 CAD HO1 H N N 12 DA OP3 O N N 13 DA P P N N 14 DA OP1 O N N 15 DA OP2 O N N 16 DA "O5'" O N N 17 DA "C5'" C N N 18 DA "C4'" C N R 19 DA "O4'" O N N 20 DA "C3'" C N S 21 DA "O3'" O N N 22 DA "C2'" C N N 23 DA "C1'" C N R 24 DA N9 N Y N 25 DA C8 C Y N 26 DA N7 N Y N 27 DA C5 C Y N 28 DA C6 C Y N 29 DA N6 N N N 30 DA N1 N Y N 31 DA C2 C Y N 32 DA N3 N Y N 33 DA C4 C Y N 34 DA HOP3 H N N 35 DA HOP2 H N N 36 DA "H5'" H N N 37 DA "H5''" H N N 38 DA "H4'" H N N 39 DA "H3'" H N N 40 DA "HO3'" H N N 41 DA "H2'" H N N 42 DA "H2''" H N N 43 DA "H1'" H N N 44 DA H8 H N N 45 DA H61 H N N 46 DA H62 H N N 47 DA H2 H N N 48 DC OP3 O N N 49 DC P P N N 50 DC OP1 O N N 51 DC OP2 O N N 52 DC "O5'" O N N 53 DC "C5'" C N N 54 DC "C4'" C N R 55 DC "O4'" O N N 56 DC "C3'" C N S 57 DC "O3'" O N N 58 DC "C2'" C N N 59 DC "C1'" C N R 60 DC N1 N N N 61 DC C2 C N N 62 DC O2 O N N 63 DC N3 N N N 64 DC C4 C N N 65 DC N4 N N N 66 DC C5 C N N 67 DC C6 C N N 68 DC HOP3 H N N 69 DC HOP2 H N N 70 DC "H5'" H N N 71 DC "H5''" H N N 72 DC "H4'" H N N 73 DC "H3'" H N N 74 DC "HO3'" H N N 75 DC "H2'" H N N 76 DC "H2''" H N N 77 DC "H1'" H N N 78 DC H41 H N N 79 DC H42 H N N 80 DC H5 H N N 81 DC H6 H N N 82 DG OP3 O N N 83 DG P P N N 84 DG OP1 O N N 85 DG OP2 O N N 86 DG "O5'" O N N 87 DG "C5'" C N N 88 DG "C4'" C N R 89 DG "O4'" O N N 90 DG "C3'" C N S 91 DG "O3'" O N N 92 DG "C2'" C N N 93 DG "C1'" C N R 94 DG N9 N Y N 95 DG C8 C Y N 96 DG N7 N Y N 97 DG C5 C Y N 98 DG C6 C N N 99 DG O6 O N N 100 DG N1 N N N 101 DG C2 C N N 102 DG N2 N N N 103 DG N3 N N N 104 DG C4 C Y N 105 DG HOP3 H N N 106 DG HOP2 H N N 107 DG "H5'" H N N 108 DG "H5''" H N N 109 DG "H4'" H N N 110 DG "H3'" H N N 111 DG "HO3'" H N N 112 DG "H2'" H N N 113 DG "H2''" H N N 114 DG "H1'" H N N 115 DG H8 H N N 116 DG H1 H N N 117 DG H21 H N N 118 DG H22 H N N 119 DT OP3 O N N 120 DT P P N N 121 DT OP1 O N N 122 DT OP2 O N N 123 DT "O5'" O N N 124 DT "C5'" C N N 125 DT "C4'" C N R 126 DT "O4'" O N N 127 DT "C3'" C N S 128 DT "O3'" O N N 129 DT "C2'" C N N 130 DT "C1'" C N R 131 DT N1 N N N 132 DT C2 C N N 133 DT O2 O N N 134 DT N3 N N N 135 DT C4 C N N 136 DT O4 O N N 137 DT C5 C N N 138 DT C7 C N N 139 DT C6 C N N 140 DT HOP3 H N N 141 DT HOP2 H N N 142 DT "H5'" H N N 143 DT "H5''" H N N 144 DT "H4'" H N N 145 DT "H3'" H N N 146 DT "HO3'" H N N 147 DT "H2'" H N N 148 DT "H2''" H N N 149 DT "H1'" H N N 150 DT H3 H N N 151 DT H71 H N N 152 DT H72 H N N 153 DT H73 H N N 154 DT H6 H N N 155 HOH O O N N 156 HOH H1 H N N 157 HOH H2 H N N 158 LR6 C2 C N N 159 LR6 C4 C N N 160 LR6 C5 C N N 161 LR6 C6 C N N 162 LR6 N1 N N N 163 LR6 N3 N N N 164 LR6 CD C N N 165 LR6 "C1'" C N R 166 LR6 "C2'" C N R 167 LR6 "C3'" C N S 168 LR6 "C4'" C N R 169 LR6 "C5'" C N N 170 LR6 C5M C N N 171 LR6 "C6'" C N N 172 LR6 "C7'" C N N 173 LR6 "C8'" C N N 174 LR6 "C9'" C N N 175 LR6 "N2'" N N N 176 LR6 "N3'" N N N 177 LR6 "N4'" N N N 178 LR6 O2 O N N 179 LR6 "O3'" O N N 180 LR6 O4 O N N 181 LR6 "O4'" O N N 182 LR6 "O5'" O N N 183 LR6 OP1 O N N 184 LR6 OP2 O N N 185 LR6 P P N N 186 LR6 "C10'" C N N 187 LR6 "C11'" C N N 188 LR6 H1 H N N 189 LR6 H2 H N N 190 LR6 H3 H N N 191 LR6 H4 H N N 192 LR6 H5 H N N 193 LR6 H6 H N N 194 LR6 H7 H N N 195 LR6 H8 H N N 196 LR6 H9 H N N 197 LR6 H10 H N N 198 LR6 H11 H N N 199 LR6 H12 H N N 200 LR6 H13 H N N 201 LR6 H14 H N N 202 LR6 H15 H N N 203 LR6 H16 H N N 204 LR6 H17 H N N 205 LR6 H18 H N N 206 LR6 H19 H N N 207 LR6 "HO3'" H N N 208 LR6 HOP2 H N N 209 LR6 H23 H N N 210 LR6 H24 H N N 211 LR6 H25 H N N 212 LR6 H26 H N N 213 LR6 H27 H N N 214 LR6 H28 H N N 215 LR6 OP3 O N N 216 LR6 HOP3 H N N 217 # 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 CAD AS C1 sing N N 1 CAD AS C2 sing N N 2 CAD AS O1 sing N N 3 CAD AS O2 doub N N 4 CAD C1 H11 sing N N 5 CAD C1 H12 sing N N 6 CAD C1 H13 sing N N 7 CAD C2 H21 sing N N 8 CAD C2 H22 sing N N 9 CAD C2 H23 sing N N 10 CAD O1 HO1 sing N N 11 DA OP3 P sing N N 12 DA OP3 HOP3 sing N N 13 DA P OP1 doub N N 14 DA P OP2 sing N N 15 DA P "O5'" sing N N 16 DA OP2 HOP2 sing N N 17 DA "O5'" "C5'" sing N N 18 DA "C5'" "C4'" sing N N 19 DA "C5'" "H5'" sing N N 20 DA "C5'" "H5''" sing N N 21 DA "C4'" "O4'" sing N N 22 DA "C4'" "C3'" sing N N 23 DA "C4'" "H4'" sing N N 24 DA "O4'" "C1'" sing N N 25 DA "C3'" "O3'" sing N N 26 DA "C3'" "C2'" sing N N 27 DA "C3'" "H3'" sing N N 28 DA "O3'" "HO3'" sing N N 29 DA "C2'" "C1'" sing N N 30 DA "C2'" "H2'" sing N N 31 DA "C2'" "H2''" sing N N 32 DA "C1'" N9 sing N N 33 DA "C1'" "H1'" sing N N 34 DA N9 C8 sing Y N 35 DA N9 C4 sing Y N 36 DA C8 N7 doub Y N 37 DA C8 H8 sing N N 38 DA N7 C5 sing Y N 39 DA C5 C6 sing Y N 40 DA C5 C4 doub Y N 41 DA C6 N6 sing N N 42 DA C6 N1 doub Y N 43 DA N6 H61 sing N N 44 DA N6 H62 sing N N 45 DA N1 C2 sing Y N 46 DA C2 N3 doub Y N 47 DA C2 H2 sing N N 48 DA N3 C4 sing Y N 49 DC OP3 P sing N N 50 DC OP3 HOP3 sing N N 51 DC P OP1 doub N N 52 DC P OP2 sing N N 53 DC P "O5'" sing N N 54 DC OP2 HOP2 sing N N 55 DC "O5'" "C5'" sing N N 56 DC "C5'" "C4'" sing N N 57 DC "C5'" "H5'" sing N N 58 DC "C5'" "H5''" sing N N 59 DC "C4'" "O4'" sing N N 60 DC "C4'" "C3'" sing N N 61 DC "C4'" "H4'" sing N N 62 DC "O4'" "C1'" sing N N 63 DC "C3'" "O3'" sing N N 64 DC "C3'" "C2'" sing N N 65 DC "C3'" "H3'" sing N N 66 DC "O3'" "HO3'" sing N N 67 DC "C2'" "C1'" sing N N 68 DC "C2'" "H2'" sing N N 69 DC "C2'" "H2''" sing N N 70 DC "C1'" N1 sing N N 71 DC "C1'" "H1'" sing N N 72 DC N1 C2 sing N N 73 DC N1 C6 sing N N 74 DC C2 O2 doub N N 75 DC C2 N3 sing N N 76 DC N3 C4 doub N N 77 DC C4 N4 sing N N 78 DC C4 C5 sing N N 79 DC N4 H41 sing N N 80 DC N4 H42 sing N N 81 DC C5 C6 doub N N 82 DC C5 H5 sing N N 83 DC C6 H6 sing N N 84 DG OP3 P sing N N 85 DG OP3 HOP3 sing N N 86 DG P OP1 doub N N 87 DG P OP2 sing N N 88 DG P "O5'" sing N N 89 DG OP2 HOP2 sing N N 90 DG "O5'" "C5'" sing N N 91 DG "C5'" "C4'" sing N N 92 DG "C5'" "H5'" sing N N 93 DG "C5'" "H5''" sing N N 94 DG "C4'" "O4'" sing N N 95 DG "C4'" "C3'" sing N N 96 DG "C4'" "H4'" sing N N 97 DG "O4'" "C1'" sing N N 98 DG "C3'" "O3'" sing N N 99 DG "C3'" "C2'" sing N N 100 DG "C3'" "H3'" sing N N 101 DG "O3'" "HO3'" sing N N 102 DG "C2'" "C1'" sing N N 103 DG "C2'" "H2'" sing N N 104 DG "C2'" "H2''" sing N N 105 DG "C1'" N9 sing N N 106 DG "C1'" "H1'" sing N N 107 DG N9 C8 sing Y N 108 DG N9 C4 sing Y N 109 DG C8 N7 doub Y N 110 DG C8 H8 sing N N 111 DG N7 C5 sing Y N 112 DG C5 C6 sing N N 113 DG C5 C4 doub Y N 114 DG C6 O6 doub N N 115 DG C6 N1 sing N N 116 DG N1 C2 sing N N 117 DG N1 H1 sing N N 118 DG C2 N2 sing N N 119 DG C2 N3 doub N N 120 DG N2 H21 sing N N 121 DG N2 H22 sing N N 122 DG N3 C4 sing N N 123 DT OP3 P sing N N 124 DT OP3 HOP3 sing N N 125 DT P OP1 doub N N 126 DT P OP2 sing N N 127 DT P "O5'" sing N N 128 DT OP2 HOP2 sing N N 129 DT "O5'" "C5'" sing N N 130 DT "C5'" "C4'" sing N N 131 DT "C5'" "H5'" sing N N 132 DT "C5'" "H5''" sing N N 133 DT "C4'" "O4'" sing N N 134 DT "C4'" "C3'" sing N N 135 DT "C4'" "H4'" sing N N 136 DT "O4'" "C1'" sing N N 137 DT "C3'" "O3'" sing N N 138 DT "C3'" "C2'" sing N N 139 DT "C3'" "H3'" sing N N 140 DT "O3'" "HO3'" sing N N 141 DT "C2'" "C1'" sing N N 142 DT "C2'" "H2'" sing N N 143 DT "C2'" "H2''" sing N N 144 DT "C1'" N1 sing N N 145 DT "C1'" "H1'" sing N N 146 DT N1 C2 sing N N 147 DT N1 C6 sing N N 148 DT C2 O2 doub N N 149 DT C2 N3 sing N N 150 DT N3 C4 sing N N 151 DT N3 H3 sing N N 152 DT C4 O4 doub N N 153 DT C4 C5 sing N N 154 DT C5 C7 sing N N 155 DT C5 C6 doub N N 156 DT C7 H71 sing N N 157 DT C7 H72 sing N N 158 DT C7 H73 sing N N 159 DT C6 H6 sing N N 160 HOH O H1 sing N N 161 HOH O H2 sing N N 162 LR6 "C9'" "C8'" sing N N 163 LR6 "C11'" "C8'" sing N N 164 LR6 "C8'" "C10'" sing N N 165 LR6 "C8'" "N4'" sing N N 166 LR6 "C7'" "N3'" sing N N 167 LR6 "N4'" CD doub N N 168 LR6 "N3'" CD sing N N 169 LR6 CD "N2'" sing N N 170 LR6 "N2'" "C6'" sing N N 171 LR6 "N2'" "C2'" sing N N 172 LR6 "O3'" "C3'" sing N N 173 LR6 "C6'" "C4'" sing N N 174 LR6 "C2'" "C3'" sing N N 175 LR6 "C2'" "C1'" sing N N 176 LR6 "C3'" "C4'" sing N N 177 LR6 O2 C2 doub N N 178 LR6 "C1'" "O4'" sing N N 179 LR6 "C1'" N1 sing N N 180 LR6 "C4'" "O4'" sing N N 181 LR6 "C4'" "C5'" sing N N 182 LR6 C2 N1 sing N N 183 LR6 C2 N3 sing N N 184 LR6 N1 C6 sing N N 185 LR6 "C5'" "O5'" sing N N 186 LR6 N3 C4 sing N N 187 LR6 "O5'" P sing N N 188 LR6 C6 C5 doub N N 189 LR6 C4 C5 sing N N 190 LR6 C4 O4 doub N N 191 LR6 C5 C5M sing N N 192 LR6 OP1 P doub N N 193 LR6 P OP2 sing N N 194 LR6 C6 H1 sing N N 195 LR6 N3 H2 sing N N 196 LR6 "C1'" H3 sing N N 197 LR6 "C2'" H4 sing N N 198 LR6 "C3'" H5 sing N N 199 LR6 "C5'" H6 sing N N 200 LR6 "C5'" H7 sing N N 201 LR6 C5M H8 sing N N 202 LR6 C5M H9 sing N N 203 LR6 C5M H10 sing N N 204 LR6 "C6'" H11 sing N N 205 LR6 "C6'" H12 sing N N 206 LR6 "C7'" H13 sing N N 207 LR6 "C7'" H14 sing N N 208 LR6 "C7'" H15 sing N N 209 LR6 "C9'" H16 sing N N 210 LR6 "C9'" H17 sing N N 211 LR6 "C9'" H18 sing N N 212 LR6 "N3'" H19 sing N N 213 LR6 "O3'" "HO3'" sing N N 214 LR6 OP2 HOP2 sing N N 215 LR6 "C10'" H23 sing N N 216 LR6 "C10'" H24 sing N N 217 LR6 "C10'" H25 sing N N 218 LR6 "C11'" H26 sing N N 219 LR6 "C11'" H27 sing N N 220 LR6 "C11'" H28 sing N N 221 LR6 P OP3 sing N N 222 LR6 OP3 HOP3 sing N N 223 # _ndb_struct_conf_na.entry_id 8HIS _ndb_struct_conf_na.feature 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 1 1_555 B DC 10 1_555 -0.294 -0.057 -0.085 -6.334 -0.444 -2.695 1 A_DG1:DC20_B A 1 ? B 20 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.203 -0.027 -0.096 10.888 -11.468 3.375 2 A_DC2:DG19_B A 2 ? B 19 ? 19 1 1 A DG 3 1_555 B DC 8 1_555 -0.369 -0.037 -0.254 -10.226 -14.431 5.606 3 A_DG3:DC18_B A 3 ? B 18 ? 19 1 1 A DT 4 1_555 B DA 7 1_555 -0.256 -0.111 -0.224 -0.933 -18.526 7.439 4 A_DT4:DA17_B A 4 ? B 17 ? 20 1 1 A DA 7 1_555 B DT 4 1_555 0.184 -0.171 0.155 0.380 -14.181 -0.927 5 A_DA7:DT14_B A 7 ? B 14 ? 20 1 1 A DC 8 1_555 B DG 3 1_555 0.394 -0.069 0.134 0.676 -14.963 4.813 6 A_DC8:DG13_B A 8 ? B 13 ? 19 1 1 A DG 9 1_555 B DC 2 1_555 -0.105 -0.232 0.167 -6.507 -10.211 2.801 7 A_DG9:DC12_B A 9 ? B 12 ? 19 1 1 A DC 10 1_555 B DG 1 1_555 0.178 -0.263 0.180 -4.273 5.458 2.319 8 A_DC10:DG11_B A 10 ? B 11 ? 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 DG 1 1_555 B DC 10 1_555 A DC 2 1_555 B DG 9 1_555 1.139 -1.619 2.950 1.797 5.294 31.050 -3.837 -1.805 2.704 9.789 -3.323 31.537 1 AA_DG1DC2:DG19DC20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DC 2 1_555 B DG 9 1_555 A DG 3 1_555 B DC 8 1_555 -0.248 -2.002 3.835 0.377 6.042 27.027 -5.804 0.619 3.314 12.726 -0.793 27.684 2 AA_DC2DG3:DC18DG19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DG 3 1_555 B DC 8 1_555 A DT 4 1_555 B DA 7 1_555 -0.943 -1.176 2.945 -4.235 6.966 33.056 -2.992 1.015 2.744 12.016 7.306 34.019 3 AA_DG3DT4:DA17DC18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DA 7 1_555 B DT 4 1_555 A DC 8 1_555 B DG 3 1_555 0.639 -1.903 3.233 2.249 -0.898 34.978 -3.024 -0.723 3.313 -1.492 -3.737 35.059 4 AA_DA7DC8:DG13DT14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DC 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.622 -1.882 3.216 -0.577 11.548 26.460 -6.020 1.136 2.228 23.835 1.192 28.835 5 AA_DC8DG9:DC12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DG 9 1_555 B DC 2 1_555 A DC 10 1_555 B DG 1 1_555 0.341 -1.382 3.485 0.434 -3.472 33.973 -1.755 -0.506 3.609 -5.923 -0.741 34.147 6 AA_DG9DC10:DG11DC12_BB A 9 ? B 12 ? A 10 ? B 11 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Japan Society for the Promotion of Science (JSPS)' Japan 20K05748 1 'Japan Society for the Promotion of Science (JSPS)' Japan 21K06511 2 'Japan Agency for Medical Research and Development (AMED)' Japan JP19am0101084 3 'Japan Agency for Medical Research and Development (AMED)' Japan JP18am0301004 4 'Japan Agency for Medical Research and Development (AMED)' Japan 19am0401003 5 'Japan Agency for Medical Research and Development (AMED)' Japan JP21ae0121022 6 'Japan Agency for Medical Research and Development (AMED)' Japan JP21ae0121023 7 'Japan Agency for Medical Research and Development (AMED)' Japan JP21ae012102 8 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id LR6 _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id LR6 _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CACODYLIC ACID' CAD 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 1I5W _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 ? #