data_8D79 # _entry.id 8D79 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.380 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8D79 pdb_00008d79 10.2210/pdb8d79/pdb WWPDB D_1000266080 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8D79 _pdbx_database_status.recvd_initial_deposition_date 2022-06-07 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Chen, E.V.' 1 0000-0002-1546-7899 'Beseiso, D.' 2 0000-0003-3743-9175 'Yatsunyk, L.A.' 3 0000-0003-3946-0939 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title ;Biophysical and structural characterization of telomeric G-quadruplexes from Tetrahymena thermophila in complex with N-Methyl Mesoporphyrin IX ; _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Beseiso, D.' 1 0000-0003-3743-9175 primary 'Chen, E.V.' 2 0000-0002-1546-7899 primary 'Yatsunyk, L.A.' 3 0000-0003-3946-0939 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 106.537 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 8D79 _cell.details ? _cell.formula_units_Z ? _cell.length_a 50.284 _cell.length_a_esd ? _cell.length_b 34.716 _cell.length_b_esd ? _cell.length_c 34.397 _cell.length_c_esd ? _cell.volume 57562.407 _cell.volume_esd ? _cell.Z_PDB 4 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8D79 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _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 ;DNA (5'-D(*TP*GP*GP*GP*GP*TP*TP*GP*GP*GP*GP*TP*TP*GP*GP*GP*GP*TP*TP*GP*GP*GP*GP*T)-3') ; 7655.879 1 ? ? ? ? 2 non-polymer syn 'SODIUM ION' 22.990 5 ? ? ? ? 3 non-polymer syn N-METHYLMESOPORPHYRIN 580.716 1 ? ? ? ? 4 non-polymer syn '(4S)-2-METHYL-2,4-PENTANEDIOL' 118.174 2 ? ? ? ? 5 water nat water 18.015 12 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;(DT)(DG)(DG)(DG)(DG)(DT)(DT)(DG)(DG)(DG)(DG)(DT)(DT)(DG)(DG)(DG)(DG)(DT)(DT)(DG) (DG)(DG)(DG)(DT) ; _entity_poly.pdbx_seq_one_letter_code_can TGGGGTTGGGGTTGGGGTTGGGGT _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 DG n 1 6 DT n 1 7 DT n 1 8 DG n 1 9 DG n 1 10 DG n 1 11 DG n 1 12 DT n 1 13 DT n 1 14 DG n 1 15 DG n 1 16 DG n 1 17 DG n 1 18 DT n 1 19 DT n 1 20 DG n 1 21 DG n 1 22 DG n 1 23 DG n 1 24 DT 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 24 _pdbx_entity_src_syn.organism_scientific 'Tetrahymena thermophila' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 5911 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8D79 _struct_ref.pdbx_db_accession 8D79 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8D79 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 24 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8D79 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 24 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 24 # 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 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 MMP non-polymer . N-METHYLMESOPORPHYRIN ? 'C35 H40 N4 O4' 580.716 MPD non-polymer . '(4S)-2-METHYL-2,4-PENTANEDIOL' ? 'C6 H14 O2' 118.174 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 # _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 8D79 _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 1.93 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 34.56 _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 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'Well condition contained 100 mM NaCl, 100 mM NaI, 100 mM NaF, 30% MPD, and 50 mM Na cacodylate pH 6.5' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 196 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2021-02-12 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97918 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'APS BEAMLINE 24-ID-C' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97918 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 24-ID-C _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate 52.83 _reflns.entry_id 8D79 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.98 _reflns.d_resolution_low 32.97 _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 3905 _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 96.2 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.3 _reflns.pdbx_Rmerge_I_obs 0.118 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.5 _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 0.140 _reflns.pdbx_Rpim_I_all 0.075 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.987 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # _reflns_shell.d_res_high 1.98 _reflns_shell.d_res_low 2.03 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 0.8 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 689 _reflns_shell.percent_possible_all 73.1 _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 0.846 _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 2.8 _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 0.599 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.836 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _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 77.61 _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 8D79 _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 1.99 _refine.ls_d_res_low 32.97 _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 3802 _refine.ls_number_reflns_R_free 175 _refine.ls_number_reflns_R_work 3627 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 94.53 _refine.ls_percent_reflns_R_free 4.60 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2418 _refine.ls_R_factor_R_free 0.2532 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2410 _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 1.37 _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 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 6W9P _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 31.4912 _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 0.0000 _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 1.99 _refine_hist.d_res_low 32.97 _refine_hist.number_atoms_solvent 12 _refine_hist.number_atoms_total 533 _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 467 _refine_hist.pdbx_number_atoms_ligand 54 _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' ? 0.0051 ? 576 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.3333 ? 893 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0404 ? 90 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0056 ? 25 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 36.0190 ? 220 ? f_dihedral_angle_d ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.99 _refine_ls_shell.d_res_low 32.97 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 175 _refine_ls_shell.number_reflns_R_work 3627 _refine_ls_shell.percent_reflns_obs 94.53 _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 0.2532 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.2410 _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 ? # _struct.entry_id 8D79 _struct.title ;Crystal structure of a four-tetrad, parallel, and Na+ stabilized Tetrahymena thermophila telomeric G-quadruplex in complex with N-methyl mesoporphyrin IX ; _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 8D79 _struct_keywords.text 'G-quadruplex, Parallel, four-tetrad, DNA' _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 4 ? I N N 4 ? J N N 5 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale none ? A DT 19 O2 ? ? ? 1_555 I MPD . CM ? ? A DT 19 A MPD 108 2_566 ? ? ? ? ? ? ? 1.376 ? ? metalc1 metalc ? ? A DG 2 O6 ? ? ? 1_555 B NA . NA ? ? A DG 2 A NA 101 1_555 ? ? ? ? ? ? ? 2.780 ? ? metalc2 metalc ? ? A DG 2 O6 ? ? ? 1_555 E NA . NA ? ? A DG 2 A NA 104 1_555 ? ? ? ? ? ? ? 2.601 ? ? metalc3 metalc ? ? A DG 2 O6 ? ? ? 1_555 E NA . NA ? ? A DG 2 A NA 104 2_556 ? ? ? ? ? ? ? 2.601 ? ? metalc4 metalc ? ? A DG 3 O6 ? ? ? 1_555 B NA . NA ? ? A DG 3 A NA 101 1_555 ? ? ? ? ? ? ? 2.694 ? ? metalc5 metalc ? ? A DG 3 O6 ? ? ? 1_555 C NA . NA ? ? A DG 3 A NA 102 1_555 ? ? ? ? ? ? ? 2.619 ? ? metalc6 metalc ? ? A DG 4 O6 ? ? ? 1_555 C NA . NA ? ? A DG 4 A NA 102 1_555 ? ? ? ? ? ? ? 2.840 ? ? metalc7 metalc ? ? A DG 4 O6 ? ? ? 1_555 D NA . NA ? ? A DG 4 A NA 103 1_555 ? ? ? ? ? ? ? 2.930 ? ? metalc8 metalc ? ? A DG 5 O6 ? ? ? 1_555 D NA . NA ? ? A DG 5 A NA 103 1_555 ? ? ? ? ? ? ? 2.729 ? ? metalc9 metalc ? ? A DT 7 O2 ? ? ? 1_555 F NA . NA ? ? A DT 7 A NA 105 1_545 ? ? ? ? ? ? ? 3.095 ? ? metalc10 metalc ? ? A DG 8 O6 ? ? ? 1_555 B NA . NA ? ? A DG 8 A NA 101 1_555 ? ? ? ? ? ? ? 2.823 ? ? metalc11 metalc ? ? A DG 8 O6 ? ? ? 1_555 E NA . NA ? ? A DG 8 A NA 104 1_555 ? ? ? ? ? ? ? 2.696 ? ? metalc12 metalc ? ? A DG 8 O6 ? ? ? 1_555 E NA . NA ? ? A DG 8 A NA 104 2_556 ? ? ? ? ? ? ? 2.696 ? ? metalc13 metalc ? ? A DG 9 O6 ? ? ? 1_555 B NA . NA ? ? A DG 9 A NA 101 1_555 ? ? ? ? ? ? ? 2.567 ? ? metalc14 metalc ? ? A DG 9 O6 ? ? ? 1_555 C NA . NA ? ? A DG 9 A NA 102 1_555 ? ? ? ? ? ? ? 2.811 ? ? metalc15 metalc ? ? A DG 10 O6 ? ? ? 1_555 C NA . NA ? ? A DG 10 A NA 102 1_555 ? ? ? ? ? ? ? 2.552 ? ? metalc16 metalc ? ? A DG 10 O6 ? ? ? 1_555 D NA . NA ? ? A DG 10 A NA 103 1_555 ? ? ? ? ? ? ? 3.051 ? ? metalc17 metalc ? ? A DG 11 O6 ? ? ? 1_555 D NA . NA ? ? A DG 11 A NA 103 1_555 ? ? ? ? ? ? ? 2.519 ? ? metalc18 metalc ? ? A DG 14 O6 ? ? ? 1_555 B NA . NA ? ? A DG 14 A NA 101 1_555 ? ? ? ? ? ? ? 2.637 ? ? metalc19 metalc ? ? A DG 14 O6 ? ? ? 1_555 E NA . NA ? ? A DG 14 A NA 104 1_555 ? ? ? ? ? ? ? 2.595 ? ? metalc20 metalc ? ? A DG 14 O6 ? ? ? 1_555 E NA . NA ? ? A DG 14 A NA 104 2_556 ? ? ? ? ? ? ? 2.595 ? ? metalc21 metalc ? ? A DG 15 O6 ? ? ? 1_555 B NA . NA ? ? A DG 15 A NA 101 1_555 ? ? ? ? ? ? ? 2.681 ? ? metalc22 metalc ? ? A DG 15 O6 ? ? ? 1_555 C NA . NA ? ? A DG 15 A NA 102 1_555 ? ? ? ? ? ? ? 2.611 ? ? metalc23 metalc ? ? A DG 16 O6 ? ? ? 1_555 C NA . NA ? ? A DG 16 A NA 102 1_555 ? ? ? ? ? ? ? 2.764 ? ? metalc24 metalc ? ? A DG 16 O6 ? ? ? 1_555 D NA . NA ? ? A DG 16 A NA 103 1_555 ? ? ? ? ? ? ? 2.881 ? ? metalc25 metalc ? ? A DG 17 O6 ? ? ? 1_555 D NA . NA ? ? A DG 17 A NA 103 1_555 ? ? ? ? ? ? ? 2.505 ? ? metalc26 metalc ? ? A DG 20 O6 ? ? ? 1_555 B NA . NA ? ? A DG 20 A NA 101 1_555 ? ? ? ? ? ? ? 2.671 ? ? metalc27 metalc ? ? A DG 20 O6 ? ? ? 1_555 E NA . NA ? ? A DG 20 A NA 104 1_555 ? ? ? ? ? ? ? 2.623 ? ? metalc28 metalc ? ? A DG 20 O6 ? ? ? 1_555 E NA . NA ? ? A DG 20 A NA 104 2_556 ? ? ? ? ? ? ? 2.623 ? ? metalc29 metalc ? ? A DG 21 O6 ? ? ? 1_555 B NA . NA ? ? A DG 21 A NA 101 1_555 ? ? ? ? ? ? ? 2.669 ? ? metalc30 metalc ? ? A DG 21 O6 ? ? ? 1_555 C NA . NA ? ? A DG 21 A NA 102 1_555 ? ? ? ? ? ? ? 2.684 ? ? metalc31 metalc ? ? A DG 22 O6 ? ? ? 1_555 C NA . NA ? ? A DG 22 A NA 102 1_555 ? ? ? ? ? ? ? 2.788 ? ? metalc32 metalc ? ? A DG 22 O6 ? ? ? 1_555 D NA . NA ? ? A DG 22 A NA 103 1_555 ? ? ? ? ? ? ? 2.840 ? ? metalc33 metalc ? ? A DG 23 O6 ? ? ? 1_555 D NA . NA ? ? A DG 23 A NA 103 1_555 ? ? ? ? ? ? ? 2.480 ? ? metalc34 metalc ? ? F NA . NA ? ? ? 1_555 H MPD . O2 ? ? A NA 105 A MPD 107 1_555 ? ? ? ? ? ? ? 2.480 ? ? metalc35 metalc ? ? F NA . NA ? ? ? 1_555 H MPD . O2 ? ? A NA 105 A MPD 107 2_556 ? ? ? ? ? ? ? 2.480 ? ? hydrog1 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 8 O6 ? ? A DG 2 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 8 N7 ? ? A DG 2 A DG 8 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A DG 2 N7 ? ? ? 1_555 A DG 20 N2 ? ? A DG 2 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DG 20 N1 ? ? A DG 2 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 9 O6 ? ? A DG 3 A DG 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 9 N7 ? ? A DG 3 A DG 9 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 3 N7 ? ? ? 1_555 A DG 21 N2 ? ? A DG 3 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DG 21 N1 ? ? A DG 3 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 10 O6 ? ? A DG 4 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 10 N7 ? ? A DG 4 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A DG 4 N7 ? ? ? 1_555 A DG 22 N2 ? ? A DG 4 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DG 22 N1 ? ? A DG 4 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A DG 5 N1 ? ? ? 1_555 A DG 11 O6 ? ? A DG 5 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A DG 5 N2 ? ? ? 1_555 A DG 11 N7 ? ? A DG 5 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 5 N7 ? ? ? 1_555 A DG 23 N2 ? ? A DG 5 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 5 O6 ? ? ? 1_555 A DG 23 N1 ? ? A DG 5 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 8 N1 ? ? ? 1_555 A DG 14 O6 ? ? A DG 8 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 8 N2 ? ? ? 1_555 A DG 14 N7 ? ? A DG 8 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DT 13 O2 ? ? A DG 9 A DT 13 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog20 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DG 15 O6 ? ? A DG 9 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DG 15 N7 ? ? A DG 9 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A DG 10 N3 ? ? ? 1_555 A DT 13 N3 ? ? A DG 10 A DT 13 1_555 ? ? ? ? ? ? 'DG-DT MISPAIR' ? ? ? hydrog23 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DG 16 O6 ? ? A DG 10 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DG 16 N7 ? ? A DG 10 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog25 hydrog ? ? A DG 11 N1 ? ? ? 1_555 A DG 17 O6 ? ? A DG 11 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog26 hydrog ? ? A DG 11 N2 ? ? ? 1_555 A DG 17 N7 ? ? A DG 11 A DG 17 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog27 hydrog ? ? A DG 14 N1 ? ? ? 1_555 A DG 20 O6 ? ? A DG 14 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog28 hydrog ? ? A DG 14 N2 ? ? ? 1_555 A DG 20 N7 ? ? A DG 14 A DG 20 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog29 hydrog ? ? A DG 15 N1 ? ? ? 1_555 A DG 21 O6 ? ? A DG 15 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog30 hydrog ? ? A DG 15 N2 ? ? ? 1_555 A DG 21 N7 ? ? A DG 15 A DG 21 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog31 hydrog ? ? A DG 16 N1 ? ? ? 1_555 A DG 22 O6 ? ? A DG 16 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog32 hydrog ? ? A DG 16 N2 ? ? ? 1_555 A DG 22 N7 ? ? A DG 16 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog33 hydrog ? ? A DG 17 N1 ? ? ? 1_555 A DG 23 O6 ? ? A DG 17 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog34 hydrog ? ? A DG 17 N2 ? ? ? 1_555 A DG 23 N7 ? ? A DG 17 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # _atom_sites.entry_id 8D79 _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] 0.019887 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.005905 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.028805 _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] 0.030327 _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 _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? NA ? ? 9.38062 1.54875 ? ? 3.38349 72.32734 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # 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 DT 1 1 ? ? ? A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DG 5 5 5 DG DG A . n A 1 6 DT 6 6 6 DT DT A . n A 1 7 DT 7 7 7 DT DT A . n A 1 8 DG 8 8 8 DG DG A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DG 11 11 11 DG DG A . n A 1 12 DT 12 12 12 DT DT A . n A 1 13 DT 13 13 13 DT DT A . n A 1 14 DG 14 14 14 DG DG A . n A 1 15 DG 15 15 15 DG DG A . n A 1 16 DG 16 16 16 DG DG A . n A 1 17 DG 17 17 17 DG DG A . n A 1 18 DT 18 18 18 DT DT A . n A 1 19 DT 19 19 19 DT DT A . n A 1 20 DG 20 20 20 DG DG A . n A 1 21 DG 21 21 21 DG DG A . n A 1 22 DG 22 22 22 DG DG A . n A 1 23 DG 23 23 23 DG DG A . n A 1 24 DT 24 24 24 DT DT A . n # _pdbx_contact_author.id 3 _pdbx_contact_author.email lyatsun1@swarthmore.edu _pdbx_contact_author.name_first Liliya _pdbx_contact_author.name_last Yatsunyk _pdbx_contact_author.name_mi A _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-3946-0939 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 NA 1 101 1 NA NA A . C 2 NA 1 102 2 NA NA A . D 2 NA 1 103 3 NA NA A . E 2 NA 1 104 4 NA NA A . F 2 NA 1 105 5 NA NA A . G 3 MMP 1 106 301 MMP MMP A . H 4 MPD 1 107 201 MPD MPD A . I 4 MPD 1 108 202 MPD MPD A . J 5 HOH 1 201 29 HOH HOH A . J 5 HOH 2 202 43 HOH HOH A . J 5 HOH 3 203 33 HOH HOH A . J 5 HOH 4 204 39 HOH HOH A . J 5 HOH 5 205 25 HOH HOH A . J 5 HOH 6 206 41 HOH HOH A . J 5 HOH 7 207 42 HOH HOH A . J 5 HOH 8 208 35 HOH HOH A . J 5 HOH 9 209 40 HOH HOH A . J 5 HOH 10 210 44 HOH HOH A . J 5 HOH 11 211 32 HOH HOH A . J 5 HOH 12 212 34 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _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,J # _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 NA 104 ? E NA . 2 1 A NA 105 ? F NA . # 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 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 3 ? A DG 3 ? 1_555 81.4 ? 2 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 71.2 ? 3 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 91.7 ? 4 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 135.2 ? 5 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 71.1 ? 6 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 74.9 ? 7 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 102.5 ? 8 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 152.8 ? 9 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 65.0 ? 10 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 88.6 ? 11 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 150.0 ? 12 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 104.7 ? 13 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 136.5 ? 14 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 73.1 ? 15 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 85.5 ? 16 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 66.2 ? 17 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 135.8 ? 18 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 104.5 ? 19 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 152.6 ? 20 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 67.5 ? 21 O6 ? A DG 15 ? A DG 15 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 91.3 ? 22 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 88.8 ? 23 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 68.5 ? 24 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 154.1 ? 25 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 111.7 ? 26 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 137.8 ? 27 O6 ? A DG 15 ? A DG 15 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 67.3 ? 28 O6 ? A DG 20 ? A DG 20 ? 1_555 NA ? B NA . ? A NA 101 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 81.1 ? 29 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 2 ? A DG 2 ? 1_555 0.0 ? 30 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 76.0 ? 31 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 76.0 ? 32 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 76.0 ? 33 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 76.0 ? 34 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 8 ? A DG 8 ? 1_555 0.0 ? 35 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 108.7 ? 36 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 108.7 ? 37 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 67.4 ? 38 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 67.4 ? 39 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 108.7 ? 40 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 108.7 ? 41 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 67.4 ? 42 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 67.4 ? 43 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 0.0 ? 44 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 69.5 ? 45 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 69.5 ? 46 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 109.6 ? 47 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 109.6 ? 48 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 68.8 ? 49 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 68.8 ? 50 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 69.5 ? 51 O6 ? A DG 2 ? A DG 2 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 69.5 ? 52 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 109.6 ? 53 O6 ? A DG 8 ? A DG 8 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 109.6 ? 54 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 68.8 ? 55 O6 ? A DG 14 ? A DG 14 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 68.8 ? 56 O6 ? A DG 20 ? A DG 20 ? 1_555 NA ? E NA . ? A NA 104 ? 1_555 O6 ? A DG 20 ? A DG 20 ? 1_555 0.0 ? 57 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 72.5 ? 58 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 68.5 ? 59 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 100.2 ? 60 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 125.7 ? 61 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 76.3 ? 62 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 74.9 ? 63 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 108.9 ? 64 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 168.2 ? 65 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 70.3 ? 66 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 94.1 ? 67 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 156.3 ? 68 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 108.2 ? 69 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 132.5 ? 70 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 75.9 ? 71 O6 ? A DG 15 ? A DG 15 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 75.4 ? 72 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 69.3 ? 73 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 122.2 ? 74 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 104.1 ? 75 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 160.9 ? 76 O6 ? A DG 15 ? A DG 15 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 68.1 ? 77 O6 ? A DG 16 ? A DG 16 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 92.1 ? 78 O6 ? A DG 3 ? A DG 3 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 95.4 ? 79 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 67.7 ? 80 O6 ? A DG 9 ? A DG 9 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 162.7 ? 81 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 112.2 ? 82 O6 ? A DG 15 ? A DG 15 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 123.1 ? 83 O6 ? A DG 16 ? A DG 16 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 64.6 ? 84 O6 ? A DG 21 ? A DG 21 ? 1_555 NA ? C NA . ? A NA 102 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 74.5 ? 85 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 5 ? A DG 5 ? 1_555 74.4 ? 86 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 67.8 ? 87 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 88.7 ? 88 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 126.7 ? 89 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 75.3 ? 90 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 68.8 ? 91 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 102.7 ? 92 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 154.0 ? 93 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 66.9 ? 94 O6 ? A DG 11 ? A DG 11 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 87.0 ? 95 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 17 ? A DG 17 ? 1_555 147.7 ? 96 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 17 ? A DG 17 ? 1_555 126.9 ? 97 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 17 ? A DG 17 ? 1_555 128.7 ? 98 O6 ? A DG 11 ? A DG 11 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 17 ? A DG 17 ? 1_555 84.8 ? 99 O6 ? A DG 16 ? A DG 16 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 17 ? A DG 17 ? 1_555 68.6 ? 100 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 65.8 ? 101 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 133.3 ? 102 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 97.5 ? 103 O6 ? A DG 11 ? A DG 11 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 149.5 ? 104 O6 ? A DG 16 ? A DG 16 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 62.4 ? 105 O6 ? A DG 17 ? A DG 17 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 83.4 ? 106 O6 ? A DG 4 ? A DG 4 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 85.3 ? 107 O6 ? A DG 5 ? A DG 5 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 76.0 ? 108 O6 ? A DG 10 ? A DG 10 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 152.0 ? 109 O6 ? A DG 11 ? A DG 11 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 127.3 ? 110 O6 ? A DG 16 ? A DG 16 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 129.9 ? 111 O6 ? A DG 17 ? A DG 17 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 78.6 ? 112 O6 ? A DG 22 ? A DG 22 ? 1_555 NA ? D NA . ? A NA 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 77.4 ? 113 O2 ? A DT 7 ? A DT 7 ? 1_555 NA ? F NA . ? A NA 105 ? 1_545 O2 ? H MPD . ? A MPD 107 ? 1_555 112.6 ? 114 O2 ? A DT 7 ? A DT 7 ? 1_555 NA ? F NA . ? A NA 105 ? 1_545 O2 ? H MPD . ? A MPD 107 ? 2_556 110.4 ? 115 O2 ? H MPD . ? A MPD 107 ? 1_555 NA ? F NA . ? A NA 105 ? 1_545 O2 ? H MPD . ? A MPD 107 ? 2_556 6.6 ? # 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 2023-07-05 2 'Structure model' 1 1 2023-10-25 # _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' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' pdbx_initial_refinement_model # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -x,y,-z 3 x+1/2,y+1/2,z 4 -x+1/2,y+1/2,-z # _pdbx_refine_tls.id 1 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x -4.19725759583 _pdbx_refine_tls.origin_y 7.41567938218 _pdbx_refine_tls.origin_z 9.3528971543 _pdbx_refine_tls.T[1][1] 0.596521197793 _pdbx_refine_tls.T[1][1]_esd ? _pdbx_refine_tls.T[1][2] 0.00448578445695 _pdbx_refine_tls.T[1][2]_esd ? _pdbx_refine_tls.T[1][3] -0.00219731053472 _pdbx_refine_tls.T[1][3]_esd ? _pdbx_refine_tls.T[2][2] 0.947281998961 _pdbx_refine_tls.T[2][2]_esd ? _pdbx_refine_tls.T[2][3] 0.0415379743272 _pdbx_refine_tls.T[2][3]_esd ? _pdbx_refine_tls.T[3][3] 0.411906991905 _pdbx_refine_tls.T[3][3]_esd ? _pdbx_refine_tls.L[1][1] 2.92128441936 _pdbx_refine_tls.L[1][1]_esd ? _pdbx_refine_tls.L[1][2] -0.839407510369 _pdbx_refine_tls.L[1][2]_esd ? _pdbx_refine_tls.L[1][3] -3.8224923163 _pdbx_refine_tls.L[1][3]_esd ? _pdbx_refine_tls.L[2][2] 7.25856694949 _pdbx_refine_tls.L[2][2]_esd ? _pdbx_refine_tls.L[2][3] 1.8548696016 _pdbx_refine_tls.L[2][3]_esd ? _pdbx_refine_tls.L[3][3] 8.77770046082 _pdbx_refine_tls.L[3][3]_esd ? _pdbx_refine_tls.S[1][1] -0.0817096209032 _pdbx_refine_tls.S[1][1]_esd ? _pdbx_refine_tls.S[1][2] 0.483867860062 _pdbx_refine_tls.S[1][2]_esd ? _pdbx_refine_tls.S[1][3] -0.0852755957012 _pdbx_refine_tls.S[1][3]_esd ? _pdbx_refine_tls.S[2][1] -0.826937479667 _pdbx_refine_tls.S[2][1]_esd ? _pdbx_refine_tls.S[2][2] 0.132845146053 _pdbx_refine_tls.S[2][2]_esd ? _pdbx_refine_tls.S[2][3] 0.00821057723449 _pdbx_refine_tls.S[2][3]_esd ? _pdbx_refine_tls.S[3][1] -0.161615121504 _pdbx_refine_tls.S[3][1]_esd ? _pdbx_refine_tls.S[3][2] -0.31699467677 _pdbx_refine_tls.S[3][2]_esd ? _pdbx_refine_tls.S[3][3] -0.103995897421 _pdbx_refine_tls.S[3][3]_esd ? # _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 2 _pdbx_refine_tls_group.beg_PDB_ins_code ? _pdbx_refine_tls_group.end_label_asym_id J _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id E _pdbx_refine_tls_group.end_auth_seq_id 202 _pdbx_refine_tls_group.end_PDB_ins_code ? _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.selection_details all # 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 ? ? ? 1.18_3845 1 ? 'model building' ? ? ? ? ? ? ? ? ? ? ? Coot ? ? ? 0.8.9.2 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.18_3845 5 # _pdbx_entry_details.entry_id 8D79 _pdbx_entry_details.nonpolymer_details ;The authors state that the MPD ligands modelled in the structure are shown to have LINKS to the main DNA chain. Rather than removing the MPD to eliminate the LINKS, they have preserved the MPDs in the structure as a part of the crystal packing interaction. It should be noted that the MPD molecules are at symmetry-positions and have a high amount of disorder. ; _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest N # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A DT 12 ? N1 ? A DT 12 N1 2 1 Y 1 A DT 12 ? C2 ? A DT 12 C2 3 1 Y 1 A DT 12 ? O2 ? A DT 12 O2 4 1 Y 1 A DT 12 ? N3 ? A DT 12 N3 5 1 Y 1 A DT 12 ? C4 ? A DT 12 C4 6 1 Y 1 A DT 12 ? O4 ? A DT 12 O4 7 1 Y 1 A DT 12 ? C5 ? A DT 12 C5 8 1 Y 1 A DT 12 ? C7 ? A DT 12 C7 9 1 Y 1 A DT 12 ? C6 ? A DT 12 C6 10 1 Y 1 A DT 24 ? "C5'" ? A DT 24 "C5'" 11 1 Y 1 A DT 24 ? "C4'" ? A DT 24 "C4'" 12 1 Y 1 A DT 24 ? "O4'" ? A DT 24 "O4'" 13 1 Y 1 A DT 24 ? "C3'" ? A DT 24 "C3'" 14 1 Y 1 A DT 24 ? "O3'" ? A DT 24 "O3'" 15 1 Y 1 A DT 24 ? "C2'" ? A DT 24 "C2'" 16 1 Y 1 A DT 24 ? "C1'" ? A DT 24 "C1'" 17 1 Y 1 A DT 24 ? N1 ? A DT 24 N1 18 1 Y 1 A DT 24 ? C2 ? A DT 24 C2 19 1 Y 1 A DT 24 ? O2 ? A DT 24 O2 20 1 Y 1 A DT 24 ? N3 ? A DT 24 N3 21 1 Y 1 A DT 24 ? C4 ? A DT 24 C4 22 1 Y 1 A DT 24 ? O4 ? A DT 24 O4 23 1 Y 1 A DT 24 ? C5 ? A DT 24 C5 24 1 Y 1 A DT 24 ? C7 ? A DT 24 C7 25 1 Y 1 A DT 24 ? C6 ? A DT 24 C6 26 1 N 1 A MMP 106 ? C18 ? G MMP 1 C18 27 1 N 1 A MMP 106 ? C28 ? G MMP 1 C28 28 1 N 1 A MMP 106 ? C38 ? G MMP 1 C38 29 1 N 1 A MMP 106 ? C39 ? G MMP 1 C39 30 1 N 1 A MMP 106 ? O31 ? G MMP 1 O31 31 1 N 1 A MMP 106 ? O32 ? G MMP 1 O32 32 1 N 1 A MMP 106 ? C48 ? G MMP 1 C48 33 1 N 1 A MMP 106 ? C49 ? G MMP 1 C49 34 1 N 1 A MMP 106 ? O41 ? G MMP 1 O41 35 1 N 1 A MMP 106 ? O42 ? G MMP 1 O42 # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag Y _pdbx_unobs_or_zero_occ_residues.occupancy_flag 1 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id DT _pdbx_unobs_or_zero_occ_residues.auth_seq_id 1 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id A _pdbx_unobs_or_zero_occ_residues.label_comp_id DT _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 # 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 DG OP3 O N N 1 DG P P N N 2 DG OP1 O N N 3 DG OP2 O N N 4 DG "O5'" O N N 5 DG "C5'" C N N 6 DG "C4'" C N R 7 DG "O4'" O N N 8 DG "C3'" C N S 9 DG "O3'" O N N 10 DG "C2'" C N N 11 DG "C1'" C N R 12 DG N9 N Y N 13 DG C8 C Y N 14 DG N7 N Y N 15 DG C5 C Y N 16 DG C6 C N N 17 DG O6 O N N 18 DG N1 N N N 19 DG C2 C N N 20 DG N2 N N N 21 DG N3 N N N 22 DG C4 C Y N 23 DG HOP3 H N N 24 DG HOP2 H N N 25 DG "H5'" H N N 26 DG "H5''" H N N 27 DG "H4'" H N N 28 DG "H3'" H N N 29 DG "HO3'" H N N 30 DG "H2'" H N N 31 DG "H2''" H N N 32 DG "H1'" H N N 33 DG H8 H N N 34 DG H1 H N N 35 DG H21 H N N 36 DG H22 H N N 37 DT OP3 O N N 38 DT P P N N 39 DT OP1 O N N 40 DT OP2 O N N 41 DT "O5'" O N N 42 DT "C5'" C N N 43 DT "C4'" C N R 44 DT "O4'" O N N 45 DT "C3'" C N S 46 DT "O3'" O N N 47 DT "C2'" C N N 48 DT "C1'" C N R 49 DT N1 N N N 50 DT C2 C N N 51 DT O2 O N N 52 DT N3 N N N 53 DT C4 C N N 54 DT O4 O N N 55 DT C5 C N N 56 DT C7 C N N 57 DT C6 C N N 58 DT HOP3 H N N 59 DT HOP2 H N N 60 DT "H5'" H N N 61 DT "H5''" H N N 62 DT "H4'" H N N 63 DT "H3'" H N N 64 DT "HO3'" H N N 65 DT "H2'" H N N 66 DT "H2''" H N N 67 DT "H1'" H N N 68 DT H3 H N N 69 DT H71 H N N 70 DT H72 H N N 71 DT H73 H N N 72 DT H6 H N N 73 HOH O O N N 74 HOH H1 H N N 75 HOH H2 H N N 76 MMP C1 C N N 77 MMP N1 N Y N 78 MMP C11 C Y N 79 MMP C12 C Y N 80 MMP C13 C Y N 81 MMP C14 C Y N 82 MMP C15 C Y N 83 MMP C16 C N N 84 MMP C17 C N N 85 MMP C18 C N N 86 MMP N2 N Y N 87 MMP C21 C Y N 88 MMP C22 C N N 89 MMP C23 C N N 90 MMP C24 C Y N 91 MMP C25 C Y N 92 MMP C26 C N N 93 MMP C27 C N N 94 MMP C28 C N N 95 MMP N3 N Y N 96 MMP C31 C Y N 97 MMP C32 C Y N 98 MMP C33 C Y N 99 MMP C34 C Y N 100 MMP C35 C Y N 101 MMP C36 C N N 102 MMP C37 C N N 103 MMP C38 C N N 104 MMP C39 C N N 105 MMP O31 O N N 106 MMP O32 O N N 107 MMP N4 N Y N 108 MMP C41 C Y N 109 MMP C42 C N N 110 MMP C43 C N N 111 MMP C44 C Y N 112 MMP C45 C Y N 113 MMP C46 C N N 114 MMP C47 C N N 115 MMP C48 C N N 116 MMP C49 C N N 117 MMP O41 O N N 118 MMP O42 O N N 119 MMP H11 H N N 120 MMP H12 H N N 121 MMP H13 H N N 122 MMP H15 H N N 123 MMP H161 H N N 124 MMP H162 H N N 125 MMP H163 H N N 126 MMP H171 H N N 127 MMP H172 H N N 128 MMP H181 H N N 129 MMP H182 H N N 130 MMP H183 H N N 131 MMP H25 H N N 132 MMP H261 H N N 133 MMP H262 H N N 134 MMP H263 H N N 135 MMP H271 H N N 136 MMP H272 H N N 137 MMP H281 H N N 138 MMP H282 H N N 139 MMP H283 H N N 140 MMP HN3 H N N 141 MMP H35 H N N 142 MMP H361 H N N 143 MMP H362 H N N 144 MMP H363 H N N 145 MMP H371 H N N 146 MMP H372 H N N 147 MMP H381 H N N 148 MMP H382 H N N 149 MMP HO31 H N N 150 MMP H45 H N N 151 MMP H461 H N N 152 MMP H462 H N N 153 MMP H463 H N N 154 MMP H471 H N N 155 MMP H472 H N N 156 MMP H481 H N N 157 MMP H482 H N N 158 MMP HO41 H N N 159 MPD C1 C N N 160 MPD C2 C N N 161 MPD O2 O N N 162 MPD CM C N N 163 MPD C3 C N N 164 MPD C4 C N S 165 MPD O4 O N N 166 MPD C5 C N N 167 MPD H11 H N N 168 MPD H12 H N N 169 MPD H13 H N N 170 MPD HO2 H N N 171 MPD HM1 H N N 172 MPD HM2 H N N 173 MPD HM3 H N N 174 MPD H31 H N N 175 MPD H32 H N N 176 MPD H4 H N N 177 MPD HO4 H N N 178 MPD H51 H N N 179 MPD H52 H N N 180 MPD H53 H N N 181 NA NA NA N N 182 # 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 DG OP3 P sing N N 1 DG OP3 HOP3 sing N N 2 DG P OP1 doub N N 3 DG P OP2 sing N N 4 DG P "O5'" sing N N 5 DG OP2 HOP2 sing N N 6 DG "O5'" "C5'" sing N N 7 DG "C5'" "C4'" sing N N 8 DG "C5'" "H5'" sing N N 9 DG "C5'" "H5''" sing N N 10 DG "C4'" "O4'" sing N N 11 DG "C4'" "C3'" sing N N 12 DG "C4'" "H4'" sing N N 13 DG "O4'" "C1'" sing N N 14 DG "C3'" "O3'" sing N N 15 DG "C3'" "C2'" sing N N 16 DG "C3'" "H3'" sing N N 17 DG "O3'" "HO3'" sing N N 18 DG "C2'" "C1'" sing N N 19 DG "C2'" "H2'" sing N N 20 DG "C2'" "H2''" sing N N 21 DG "C1'" N9 sing N N 22 DG "C1'" "H1'" sing N N 23 DG N9 C8 sing Y N 24 DG N9 C4 sing Y N 25 DG C8 N7 doub Y N 26 DG C8 H8 sing N N 27 DG N7 C5 sing Y N 28 DG C5 C6 sing N N 29 DG C5 C4 doub Y N 30 DG C6 O6 doub N N 31 DG C6 N1 sing N N 32 DG N1 C2 sing N N 33 DG N1 H1 sing N N 34 DG C2 N2 sing N N 35 DG C2 N3 doub N N 36 DG N2 H21 sing N N 37 DG N2 H22 sing N N 38 DG N3 C4 sing N N 39 DT OP3 P sing N N 40 DT OP3 HOP3 sing N N 41 DT P OP1 doub N N 42 DT P OP2 sing N N 43 DT P "O5'" sing N N 44 DT OP2 HOP2 sing N N 45 DT "O5'" "C5'" sing N N 46 DT "C5'" "C4'" sing N N 47 DT "C5'" "H5'" sing N N 48 DT "C5'" "H5''" sing N N 49 DT "C4'" "O4'" sing N N 50 DT "C4'" "C3'" sing N N 51 DT "C4'" "H4'" sing N N 52 DT "O4'" "C1'" sing N N 53 DT "C3'" "O3'" sing N N 54 DT "C3'" "C2'" sing N N 55 DT "C3'" "H3'" sing N N 56 DT "O3'" "HO3'" sing N N 57 DT "C2'" "C1'" sing N N 58 DT "C2'" "H2'" sing N N 59 DT "C2'" "H2''" sing N N 60 DT "C1'" N1 sing N N 61 DT "C1'" "H1'" sing N N 62 DT N1 C2 sing N N 63 DT N1 C6 sing N N 64 DT C2 O2 doub N N 65 DT C2 N3 sing N N 66 DT N3 C4 sing N N 67 DT N3 H3 sing N N 68 DT C4 O4 doub N N 69 DT C4 C5 sing N N 70 DT C5 C7 sing N N 71 DT C5 C6 doub N N 72 DT C7 H71 sing N N 73 DT C7 H72 sing N N 74 DT C7 H73 sing N N 75 DT C6 H6 sing N N 76 HOH O H1 sing N N 77 HOH O H2 sing N N 78 MMP C1 N1 sing N N 79 MMP C1 H11 sing N N 80 MMP C1 H12 sing N N 81 MMP C1 H13 sing N N 82 MMP N1 C11 sing Y N 83 MMP N1 C14 sing Y N 84 MMP C11 C12 doub Y N 85 MMP C11 C45 sing Y N 86 MMP C12 C13 sing Y N 87 MMP C12 C16 sing N N 88 MMP C13 C14 doub Y N 89 MMP C13 C17 sing N N 90 MMP C14 C15 sing Y N 91 MMP C15 C21 doub Y Z 92 MMP C15 H15 sing N N 93 MMP C16 H161 sing N N 94 MMP C16 H162 sing N N 95 MMP C16 H163 sing N N 96 MMP C17 C18 sing N N 97 MMP C17 H171 sing N N 98 MMP C17 H172 sing N N 99 MMP C18 H181 sing N N 100 MMP C18 H182 sing N N 101 MMP C18 H183 sing N N 102 MMP N2 C21 sing Y N 103 MMP N2 C24 doub Y N 104 MMP C21 C22 sing N N 105 MMP C22 C23 doub N N 106 MMP C22 C26 sing N N 107 MMP C23 C24 sing N N 108 MMP C23 C27 sing N N 109 MMP C24 C25 sing Y N 110 MMP C25 C31 doub Y Z 111 MMP C25 H25 sing N N 112 MMP C26 H261 sing N N 113 MMP C26 H262 sing N N 114 MMP C26 H263 sing N N 115 MMP C27 C28 sing N N 116 MMP C27 H271 sing N N 117 MMP C27 H272 sing N N 118 MMP C28 H281 sing N N 119 MMP C28 H282 sing N N 120 MMP C28 H283 sing N N 121 MMP N3 C31 sing Y N 122 MMP N3 C34 sing Y N 123 MMP N3 HN3 sing N N 124 MMP C31 C32 sing Y N 125 MMP C32 C33 doub Y N 126 MMP C32 C36 sing N N 127 MMP C33 C34 sing Y N 128 MMP C33 C37 sing N N 129 MMP C34 C35 doub Y Z 130 MMP C35 C41 sing Y N 131 MMP C35 H35 sing N N 132 MMP C36 H361 sing N N 133 MMP C36 H362 sing N N 134 MMP C36 H363 sing N N 135 MMP C37 C38 sing N N 136 MMP C37 H371 sing N N 137 MMP C37 H372 sing N N 138 MMP C38 C39 sing N N 139 MMP C38 H381 sing N N 140 MMP C38 H382 sing N N 141 MMP C39 O31 sing N N 142 MMP C39 O32 doub N N 143 MMP O31 HO31 sing N N 144 MMP N4 C41 doub Y N 145 MMP N4 C44 sing Y N 146 MMP C41 C42 sing N N 147 MMP C42 C43 doub N N 148 MMP C42 C47 sing N N 149 MMP C43 C44 sing N N 150 MMP C43 C46 sing N N 151 MMP C44 C45 doub Y Z 152 MMP C45 H45 sing N N 153 MMP C46 H461 sing N N 154 MMP C46 H462 sing N N 155 MMP C46 H463 sing N N 156 MMP C47 C48 sing N N 157 MMP C47 H471 sing N N 158 MMP C47 H472 sing N N 159 MMP C48 C49 sing N N 160 MMP C48 H481 sing N N 161 MMP C48 H482 sing N N 162 MMP C49 O41 sing N N 163 MMP C49 O42 doub N N 164 MMP O41 HO41 sing N N 165 MPD C1 C2 sing N N 166 MPD C1 H11 sing N N 167 MPD C1 H12 sing N N 168 MPD C1 H13 sing N N 169 MPD C2 O2 sing N N 170 MPD C2 CM sing N N 171 MPD C2 C3 sing N N 172 MPD O2 HO2 sing N N 173 MPD CM HM1 sing N N 174 MPD CM HM2 sing N N 175 MPD CM HM3 sing N N 176 MPD C3 C4 sing N N 177 MPD C3 H31 sing N N 178 MPD C3 H32 sing N N 179 MPD C4 O4 sing N N 180 MPD C4 C5 sing N N 181 MPD C4 H4 sing N N 182 MPD O4 HO4 sing N N 183 MPD C5 H51 sing N N 184 MPD C5 H52 sing N N 185 MPD C5 H53 sing N N 186 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8D79 'double helix' 8D79 'quadruple helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DG 14 1_555 A DG 20 1_555 1.370 3.293 0.072 -2.822 -0.674 -89.358 1 A_DG14:DG20_A A 14 ? A 20 ? 6 3 1 A DG 15 1_555 A DG 9 1_555 -1.514 -3.377 0.290 -3.673 -3.708 90.007 2 A_DG15:DG9_A A 15 ? A 9 ? 6 3 1 A DG 21 1_555 A DG 3 1_555 1.481 3.211 0.021 1.384 2.207 -88.943 3 A_DG21:DG3_A A 21 ? A 3 ? 6 3 1 A DG 22 1_555 A DG 4 1_555 1.651 3.054 -0.061 4.014 -1.453 -91.936 4 A_DG22:DG4_A A 22 ? A 4 ? 6 3 1 A DG 16 1_555 A DG 10 1_555 -1.681 -3.425 0.375 -5.595 1.654 86.651 5 A_DG16:DG10_A A 16 ? A 10 ? 6 3 # 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 14 1_555 A DG 20 1_555 A DG 15 1_555 A DG 9 1_555 0.603 1.571 3.235 1.354 -2.340 -53.451 -1.599 0.754 3.281 2.600 1.504 -53.515 1 AA_DG14DG15:DG9DG20_AA A 14 ? A 20 ? A 15 ? A 9 ? 1 A DG 15 1_555 A DG 9 1_555 A DG 21 1_555 A DG 3 1_555 1.442 3.258 0.078 1.084 -0.856 -179.178 -1.629 0.721 0.078 0.428 0.542 -179.179 2 AA_DG15DG21:DG3DG9_AA A 15 ? A 9 ? A 21 ? A 3 ? 1 A DG 21 1_555 A DG 3 1_555 A DG 22 1_555 A DG 4 1_555 -0.378 -0.367 3.152 2.892 0.684 23.102 -1.133 1.883 3.070 1.698 -7.182 23.290 3 AA_DG21DG22:DG4DG3_AA A 21 ? A 3 ? A 22 ? A 4 ? 1 A DG 22 1_555 A DG 4 1_555 A DG 16 1_555 A DG 10 1_555 -1.575 -3.339 -0.102 -2.402 5.988 178.017 -1.670 0.787 -0.104 2.994 1.201 178.021 4 AA_DG22DG16:DG10DG4_AA A 22 ? A 4 ? A 16 ? A 10 ? # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Cancer Institute (NIH/NCI)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number 1R15CA253134 _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SODIUM ION' NA 3 N-METHYLMESOPORPHYRIN MMP 4 '(4S)-2-METHYL-2,4-PENTANEDIOL' MPD 5 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 6W9P _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 'native gel electrophoresis' _pdbx_struct_assembly_auth_evidence.details ? # _space_group.name_H-M_alt 'C 1 2 1' _space_group.name_Hall 'C 2y' _space_group.IT_number 5 _space_group.crystal_system monoclinic _space_group.id 1 #