data_8EDP # _entry.id 8EDP # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.364 _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 8EDP pdb_00008edp 10.2210/pdb8edp/pdb WWPDB D_1000265092 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8EDP _pdbx_database_status.recvd_initial_deposition_date 2022-09-05 _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 'Ye, M.' 1 0000-0001-7680-8450 'Yatsunyk, L.A.' 2 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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Bioorg.Med.Chem. _citation.journal_id_ASTM BMECEP _citation.journal_id_CSD 1200 _citation.journal_id_ISSN 1464-3391 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 77 _citation.language ? _citation.page_first 117112 _citation.page_last 117112 _citation.title ;Homopurine guanine-rich sequences in complex with N-methyl mesoporphyrin IX form parallel G-quadruplex dimers and display a unique symmetry tetrad. ; _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1016/j.bmc.2022.117112 _citation.pdbx_database_id_PubMed 36508994 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ye, M.' 1 ? primary 'Chen, E.V.' 2 ? primary 'Pfeil, S.H.' 3 ? primary 'Martin, K.N.' 4 ? primary 'Atrafi, T.' 5 ? primary 'Yun, S.' 6 ? primary 'Martinez, Z.' 7 ? primary 'Yatsunyk, L.A.' 8 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 8EDP _cell.details ? _cell.formula_units_Z ? _cell.length_a 30.583 _cell.length_a_esd ? _cell.length_b 40.927 _cell.length_b_esd ? _cell.length_c 56.018 _cell.length_c_esd ? _cell.volume 70116.075 _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 8EDP _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab (z,x,y)' _symmetry.space_group_name_H-M 'P 2 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(*AP*GP*GP*GP*AP*AP*AP*AP*GP*GP*GP*GP*AP*GP*GP*GP*AP*AP*AP*AP*GP*GP*GP*G)-3') ; 8009.201 1 ? ? ? ? 2 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 1 ? ? ? ? 3 non-polymer syn 'POTASSIUM ION' 39.098 4 ? ? ? ? 4 non-polymer syn N-METHYLMESOPORPHYRIN 580.716 1 ? ? ? ? 5 water nat water 18.015 5 ? ? ? ? # _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 ;(DA)(DG)(DG)(DG)(DA)(DA)(DA)(DA)(DG)(DG)(DG)(DG)(DA)(DG)(DG)(DG)(DA)(DA)(DA)(DA) (DG)(DG)(DG)(DG)(DA) ; _entity_poly.pdbx_seq_one_letter_code_can AGGGAAAAGGGGAGGGAAAAGGGGA _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 DA n 1 2 DG n 1 3 DG n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DA n 1 8 DA n 1 9 DG n 1 10 DG n 1 11 DG n 1 12 DG n 1 13 DA n 1 14 DG n 1 15 DG n 1 16 DG n 1 17 DA n 1 18 DA n 1 19 DA n 1 20 DA n 1 21 DG n 1 22 DG n 1 23 DG n 1 24 DG n 1 25 DA 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 25 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name Human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8EDP _struct_ref.pdbx_db_accession 8EDP _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 8EDP _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 25 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8EDP _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 25 _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 25 # 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 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 HOH non-polymer . WATER ? 'H2 O' 18.015 K non-polymer . 'POTASSIUM ION' ? 'K 1' 39.098 MMP non-polymer . N-METHYLMESOPORPHYRIN ? 'C35 H40 N4 O4' 580.716 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 # _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 8EDP _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.25 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 45.5 _exptl_crystal.description 'Red crystals in cubic, rhombus, or square prism shapes' _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 '0.05M MES 6.5, 0.3M potassium chloride, 40% MPD, 0.005M Hexaammine cobalt chloride' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 298.15 # _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 EIGER2 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 2021-12-08 _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 62.16 _reflns.entry_id 8EDP _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.01 _reflns.d_resolution_low 56.02 _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 5027 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 98.20 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 5.4 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 8.8 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.986 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs ? _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 2.06 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 374 _reflns_shell.percent_possible_obs ? _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 ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.447 _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 ? _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 86.87 _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 8EDP _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 28.01 _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 4973 _refine.ls_number_reflns_R_free 497 _refine.ls_number_reflns_R_work 4476 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.81 _refine.ls_percent_reflns_R_free 9.99 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2468 _refine.ls_R_factor_R_free 0.2781 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2432 _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 1.34 _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 4G0F _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 45.9900 _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 0.3468 _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 28.01 _refine_hist.number_atoms_solvent 5 _refine_hist.number_atoms_total 521 _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 472 _refine_hist.pdbx_number_atoms_ligand 44 _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' ? 0.0083 ? 576 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.4832 ? 898 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0383 ? 92 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0088 ? 24 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 34.1241 ? 230 ? f_dihedral_angle_d ? ? # 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 2.21 . . 121 1094 99.02 . . . . 0.3730 . . . . . . . . . . . 0.4375 'X-RAY DIFFRACTION' 2.21 2.53 . . 122 1098 99.35 . . . . 0.3053 . . . . . . . . . . . 0.3489 'X-RAY DIFFRACTION' 2.53 3.19 . . 124 1115 98.88 . . . . 0.3056 . . . . . . . . . . . 0.3309 'X-RAY DIFFRACTION' 3.19 28.01 . . 130 1169 98.11 . . . . 0.2148 . . . . . . . . . . . 0.2499 # _struct.entry_id 8EDP _struct.title 'Crystal structure of a three-tetrad, parallel, and K+ stabilized homopurine G-quadruplex from human chromosome 7' _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 8EDP _struct_keywords.text 'G-quadruplex, parallel, propeller loops, three-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 3 ? D N N 3 ? E N N 3 ? F N N 3 ? G N N 4 ? H 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 metalc1 metalc ? ? A DG 2 O6 ? ? ? 1_555 D K . K ? ? A DG 2 A K 103 1_555 ? ? ? ? ? ? ? 2.886 ? ? metalc2 metalc ? ? A DG 2 O6 ? ? ? 1_555 E K . K ? ? A DG 2 A K 104 1_555 ? ? ? ? ? ? ? 2.761 ? ? metalc3 metalc ? ? A DG 3 O6 ? ? ? 1_555 C K . K ? ? A DG 3 A K 102 1_555 ? ? ? ? ? ? ? 2.833 ? ? metalc4 metalc ? ? A DG 3 O6 ? ? ? 1_555 D K . K ? ? A DG 3 A K 103 1_555 ? ? ? ? ? ? ? 2.698 ? ? metalc5 metalc ? ? A DG 4 O6 ? ? ? 1_555 C K . K ? ? A DG 4 A K 102 1_555 ? ? ? ? ? ? ? 2.707 ? ? metalc6 metalc ? ? A DG 9 O6 ? ? ? 1_555 E K . K ? ? A DG 9 A K 104 1_555 ? ? ? ? ? ? ? 2.843 ? ? metalc7 metalc ? ? A DG 9 O6 ? ? ? 1_555 E K . K ? ? A DG 9 A K 104 2_565 ? ? ? ? ? ? ? 3.019 ? ? metalc8 metalc ? ? A DG 10 O6 ? ? ? 1_555 D K . K ? ? A DG 10 A K 103 1_555 ? ? ? ? ? ? ? 2.798 ? ? metalc9 metalc ? ? A DG 10 O6 ? ? ? 1_555 E K . K ? ? A DG 10 A K 104 1_555 ? ? ? ? ? ? ? 2.960 ? ? metalc10 metalc ? ? A DG 11 O6 ? ? ? 1_555 C K . K ? ? A DG 11 A K 102 1_555 ? ? ? ? ? ? ? 2.958 ? ? metalc11 metalc ? ? A DG 11 O6 ? ? ? 1_555 D K . K ? ? A DG 11 A K 103 1_555 ? ? ? ? ? ? ? 2.739 ? ? metalc12 metalc ? ? A DG 12 O6 ? ? ? 1_555 C K . K ? ? A DG 12 A K 102 1_555 ? ? ? ? ? ? ? 2.600 ? ? metalc13 metalc ? ? A DG 14 O6 ? ? ? 1_555 D K . K ? ? A DG 14 A K 103 1_555 ? ? ? ? ? ? ? 2.753 ? ? metalc14 metalc ? ? A DG 14 O6 ? ? ? 1_555 E K . K ? ? A DG 14 A K 104 1_555 ? ? ? ? ? ? ? 2.628 ? ? metalc15 metalc ? ? A DG 15 O6 ? ? ? 1_555 C K . K ? ? A DG 15 A K 102 1_555 ? ? ? ? ? ? ? 2.748 ? ? metalc16 metalc ? ? A DG 15 O6 ? ? ? 1_555 D K . K ? ? A DG 15 A K 103 1_555 ? ? ? ? ? ? ? 2.583 ? ? metalc17 metalc ? ? A DG 16 O6 ? ? ? 1_555 C K . K ? ? A DG 16 A K 102 1_555 ? ? ? ? ? ? ? 2.643 ? ? metalc18 metalc ? ? A DG 21 O6 ? ? ? 1_555 E K . K ? ? A DG 21 A K 104 1_555 ? ? ? ? ? ? ? 2.636 ? ? metalc19 metalc ? ? A DG 21 O6 ? ? ? 1_555 E K . K ? ? A DG 21 A K 104 2_565 ? ? ? ? ? ? ? 2.672 ? ? metalc20 metalc ? ? A DG 22 O6 ? ? ? 1_555 D K . K ? ? A DG 22 A K 103 1_555 ? ? ? ? ? ? ? 2.759 ? ? metalc21 metalc ? ? A DG 22 O6 ? ? ? 1_555 E K . K ? ? A DG 22 A K 104 1_555 ? ? ? ? ? ? ? 2.824 ? ? metalc22 metalc ? ? A DG 23 O6 ? ? ? 1_555 C K . K ? ? A DG 23 A K 102 1_555 ? ? ? ? ? ? ? 2.746 ? ? metalc23 metalc ? ? A DG 23 O6 ? ? ? 1_555 D K . K ? ? A DG 23 A K 103 1_555 ? ? ? ? ? ? ? 2.714 ? ? metalc24 metalc ? ? A DG 24 O6 ? ? ? 1_555 C K . K ? ? A DG 24 A K 102 1_555 ? ? ? ? ? ? ? 2.662 ? ? metalc25 metalc ? ? F K . K ? ? ? 1_555 H HOH . O ? ? A K 105 A HOH 202 1_555 ? ? ? ? ? ? ? 3.024 ? ? metalc26 metalc ? ? F K . K ? ? ? 1_555 H HOH . O ? ? A K 105 A HOH 202 2_555 ? ? ? ? ? ? ? 3.024 ? ? metalc27 metalc ? ? F K . K ? ? ? 1_555 H HOH . O ? ? A K 105 A HOH 203 1_555 ? ? ? ? ? ? ? 3.000 ? ? metalc28 metalc ? ? F K . K ? ? ? 1_555 H HOH . O ? ? A K 105 A HOH 203 2_555 ? ? ? ? ? ? ? 3.000 ? ? hydrog1 hydrog ? ? A DG 2 N1 ? ? ? 1_555 A DG 10 O6 ? ? A DG 2 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog2 hydrog ? ? A DG 2 N2 ? ? ? 1_555 A DG 10 N7 ? ? A DG 2 A DG 10 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog3 hydrog ? ? A DG 2 N7 ? ? ? 1_555 A DG 22 N2 ? ? A DG 2 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog4 hydrog ? ? A DG 2 O6 ? ? ? 1_555 A DG 22 N1 ? ? A DG 2 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog5 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DG 11 O6 ? ? A DG 3 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog6 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DG 11 N7 ? ? A DG 3 A DG 11 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog7 hydrog ? ? A DG 3 N7 ? ? ? 1_555 A DG 23 N2 ? ? A DG 3 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DG 23 N1 ? ? A DG 3 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog9 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DG 12 O6 ? ? A DG 4 A DG 12 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog10 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DG 12 N7 ? ? A DG 4 A DG 12 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog11 hydrog ? ? A DG 4 N7 ? ? ? 1_555 A DG 24 N2 ? ? A DG 4 A DG 24 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DG 24 N1 ? ? A DG 4 A DG 24 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog13 hydrog ? ? A DG 10 N1 ? ? ? 1_555 A DG 14 O6 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog14 hydrog ? ? A DG 10 N2 ? ? ? 1_555 A DG 14 N7 ? ? A DG 10 A DG 14 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog15 hydrog ? ? A DG 11 N1 ? ? ? 1_555 A DG 15 O6 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog16 hydrog ? ? A DG 11 N2 ? ? ? 1_555 A DG 15 N7 ? ? A DG 11 A DG 15 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog17 hydrog ? ? A DG 12 N1 ? ? ? 1_555 A DG 16 O6 ? ? A DG 12 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog18 hydrog ? ? A DG 12 N2 ? ? ? 1_555 A DG 16 N7 ? ? A DG 12 A DG 16 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog19 hydrog ? ? A DG 14 N1 ? ? ? 1_555 A DG 22 O6 ? ? A DG 14 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog20 hydrog ? ? A DG 14 N2 ? ? ? 1_555 A DG 22 N7 ? ? A DG 14 A DG 22 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog21 hydrog ? ? A DG 15 N1 ? ? ? 1_555 A DG 23 O6 ? ? A DG 15 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog22 hydrog ? ? A DG 15 N2 ? ? ? 1_555 A DG 23 N7 ? ? A DG 15 A DG 23 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog23 hydrog ? ? A DG 16 N1 ? ? ? 1_555 A DG 24 O6 ? ? A DG 16 A DG 24 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? hydrog24 hydrog ? ? A DG 16 N2 ? ? ? 1_555 A DG 24 N7 ? ? A DG 16 A DG 24 1_555 ? ? ? ? ? ? TYPE_6_PAIR ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # _atom_sites.entry_id 8EDP _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] 0.032698 _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] 0.024434 _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] 0.017851 _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. ; ? CO ? ? 21.85313 5.04979 ? ? 2.45200 36.11361 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? K ? ? 16.37977 2.54835 ? ? 4.54127 84.28225 ? ? 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. ; ? 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. ; ? O1- ? ? 5.12366 3.84317 ? ? 3.49406 27.47979 ? ? 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 DA 1 1 1 DA DA 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 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DA 7 7 7 DA DA A . n A 1 8 DA 8 8 8 DA DA 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 DG 12 12 12 DG DG A . n A 1 13 DA 13 13 13 DA DA 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 DA 17 17 17 DA DA A . n A 1 18 DA 18 18 18 DA DA A . n A 1 19 DA 19 19 19 DA DA A . n A 1 20 DA 20 20 20 DA DA 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 DG 24 24 24 DG DG A . n A 1 25 DA 25 25 25 DA DA A . n # _pdbx_contact_author.id 3 _pdbx_contact_author.email lyastun1@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 NCO 1 101 101 NCO NCO A . C 3 K 1 102 101 K K A . D 3 K 1 103 102 K K A . E 3 K 1 104 103 K K A . F 3 K 1 105 104 K K A . G 4 MMP 1 106 101 MMP MMP A . H 5 HOH 1 201 8 HOH HOH A . H 5 HOH 2 202 6 HOH HOH A . H 5 HOH 3 203 9 HOH HOH A . H 5 HOH 4 204 7 HOH HOH A . H 5 HOH 5 205 10 HOH HOH A . # _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 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 # 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)' 1080 ? 1 MORE -0 ? 1 'SSA (A^2)' 5150 ? # _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 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id K _pdbx_struct_special_symmetry.auth_seq_id 105 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id F _pdbx_struct_special_symmetry.label_comp_id K _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 3 ? A DG 3 ? 1_555 80.5 ? 2 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 67.1 ? 3 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 92.2 ? 4 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 133.8 ? 5 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 71.5 ? 6 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 77.9 ? 7 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 99.3 ? 8 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 159.4 ? 9 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 69.2 ? 10 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 95.2 ? 11 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 156.5 ? 12 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 105.7 ? 13 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 133.8 ? 14 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 68.7 ? 15 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 82.8 ? 16 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 68.8 ? 17 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 131.5 ? 18 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 108.1 ? 19 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 154.4 ? 20 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 65.5 ? 21 O6 ? A DG 15 ? A DG 15 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 91.4 ? 22 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 94.8 ? 23 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 68.5 ? 24 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 156.0 ? 25 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 107.6 ? 26 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 131.7 ? 27 O6 ? A DG 15 ? A DG 15 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 67.8 ? 28 O6 ? A DG 22 ? A DG 22 ? 1_555 K ? D K . ? A K 103 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 77.4 ? 29 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 83.3 ? 30 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 83.3 ? 31 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 9 ? A DG 9 ? 1_555 0.0 ? 32 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 66.5 ? 33 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 71.4 ? 34 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 10 ? A DG 10 ? 1_555 71.4 ? 35 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 105.8 ? 36 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 130.1 ? 37 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 130.1 ? 38 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 14 ? A DG 14 ? 1_555 68.4 ? 39 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 129.4 ? 40 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 114.2 ? 41 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 114.2 ? 42 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 162.5 ? 43 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 97.5 ? 44 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 129.4 ? 45 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 114.2 ? 46 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 114.2 ? 47 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 162.5 ? 48 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 97.5 ? 49 O6 ? A DG 21 ? A DG 21 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 21 ? A DG 21 ? 1_555 0.0 ? 50 O6 ? A DG 2 ? A DG 2 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 69.7 ? 51 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 152.3 ? 52 O6 ? A DG 9 ? A DG 9 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 152.3 ? 53 O6 ? A DG 10 ? A DG 10 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 102.1 ? 54 O6 ? A DG 14 ? A DG 14 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 66.2 ? 55 O6 ? A DG 21 ? A DG 21 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 80.3 ? 56 O6 ? A DG 21 ? A DG 21 ? 1_555 K ? E K . ? A K 104 ? 1_555 O6 ? A DG 22 ? A DG 22 ? 1_555 80.3 ? 57 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 75.4 ? 58 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 66.5 ? 59 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 11 ? A DG 11 ? 1_555 92.6 ? 60 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 12 ? A DG 12 ? 1_555 125.9 ? 61 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 12 ? A DG 12 ? 1_555 77.2 ? 62 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 12 ? A DG 12 ? 1_555 69.2 ? 63 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 97.9 ? 64 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 155.4 ? 65 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 63.4 ? 66 O6 ? A DG 12 ? A DG 12 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 15 ? A DG 15 ? 1_555 88.6 ? 67 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 157.7 ? 68 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 117.4 ? 69 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 127.2 ? 70 O6 ? A DG 12 ? A DG 12 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 76.1 ? 71 O6 ? A DG 15 ? A DG 15 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 16 ? A DG 16 ? 1_555 77.4 ? 72 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 66.1 ? 73 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 129.1 ? 74 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 100.9 ? 75 O6 ? A DG 12 ? A DG 12 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 153.2 ? 76 O6 ? A DG 15 ? A DG 15 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 65.1 ? 77 O6 ? A DG 16 ? A DG 16 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 23 ? A DG 23 ? 1_555 92.5 ? 78 O6 ? A DG 3 ? A DG 3 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 91.1 ? 79 O6 ? A DG 4 ? A DG 4 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 76.3 ? 80 O6 ? A DG 11 ? A DG 11 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 157.0 ? 81 O6 ? A DG 12 ? A DG 12 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 125.8 ? 82 O6 ? A DG 15 ? A DG 15 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 128.0 ? 83 O6 ? A DG 16 ? A DG 16 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 75.6 ? 84 O6 ? A DG 23 ? A DG 23 ? 1_555 K ? C K . ? A K 102 ? 1_555 O6 ? A DG 24 ? A DG 24 ? 1_555 72.6 ? 85 O ? H HOH . ? A HOH 202 ? 1_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 202 ? 2_555 166.1 ? 86 O ? H HOH . ? A HOH 202 ? 1_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 203 ? 1_555 94.2 ? 87 O ? H HOH . ? A HOH 202 ? 2_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 203 ? 1_555 91.0 ? 88 O ? H HOH . ? A HOH 202 ? 1_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 203 ? 2_555 91.0 ? 89 O ? H HOH . ? A HOH 202 ? 2_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 203 ? 2_555 94.2 ? 90 O ? H HOH . ? A HOH 203 ? 1_555 K ? F K . ? A K 105 ? 1_555 O ? H HOH . ? A HOH 203 ? 2_555 136.2 ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2022-12-28 # _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_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 x,-y,-z 3 -x,y+1/2,-z+1/2 4 -x,-y+1/2,z+1/2 # _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 2.76191104192 _pdbx_refine_tls.origin_y 15.4476523302 _pdbx_refine_tls.origin_z 4.58538821286 _pdbx_refine_tls.T[1][1] 0.400865420473 _pdbx_refine_tls.T[1][1]_esd ? _pdbx_refine_tls.T[1][2] 0.0355730058433 _pdbx_refine_tls.T[1][2]_esd ? _pdbx_refine_tls.T[1][3] 0.0086329612202 _pdbx_refine_tls.T[1][3]_esd ? _pdbx_refine_tls.T[2][2] 0.535133595573 _pdbx_refine_tls.T[2][2]_esd ? _pdbx_refine_tls.T[2][3] 0.128500554488 _pdbx_refine_tls.T[2][3]_esd ? _pdbx_refine_tls.T[3][3] 0.446232659791 _pdbx_refine_tls.T[3][3]_esd ? _pdbx_refine_tls.L[1][1] 7.28805699095 _pdbx_refine_tls.L[1][1]_esd ? _pdbx_refine_tls.L[1][2] 1.732883136 _pdbx_refine_tls.L[1][2]_esd ? _pdbx_refine_tls.L[1][3] -0.337139431567 _pdbx_refine_tls.L[1][3]_esd ? _pdbx_refine_tls.L[2][2] 9.60754369905 _pdbx_refine_tls.L[2][2]_esd ? _pdbx_refine_tls.L[2][3] 2.7890431099 _pdbx_refine_tls.L[2][3]_esd ? _pdbx_refine_tls.L[3][3] 9.27446782266 _pdbx_refine_tls.L[3][3]_esd ? _pdbx_refine_tls.S[1][1] 0.0196716831373 _pdbx_refine_tls.S[1][1]_esd ? _pdbx_refine_tls.S[1][2] -0.143297067281 _pdbx_refine_tls.S[1][2]_esd ? _pdbx_refine_tls.S[1][3] 0.072263839968 _pdbx_refine_tls.S[1][3]_esd ? _pdbx_refine_tls.S[2][1] 0.324655474228 _pdbx_refine_tls.S[2][1]_esd ? _pdbx_refine_tls.S[2][2] -0.258104213831 _pdbx_refine_tls.S[2][2]_esd ? _pdbx_refine_tls.S[2][3] 0.366386467567 _pdbx_refine_tls.S[2][3]_esd ? _pdbx_refine_tls.S[3][1] 0.11663700269 _pdbx_refine_tls.S[3][1]_esd ? _pdbx_refine_tls.S[3][2] 0.594211897316 _pdbx_refine_tls.S[3][2]_esd ? _pdbx_refine_tls.S[3][3] 0.0630329815375 _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 1 _pdbx_refine_tls_group.beg_PDB_ins_code ? _pdbx_refine_tls_group.end_label_asym_id H _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id C _pdbx_refine_tls_group.end_auth_seq_id 10 _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 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 1.19.2_4158 2 ? 'model building' ? ? ? ? ? ? ? ? ? ? ? Coot ? ? ? 0.9.6 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 4 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 5 # _pdbx_entry_details.entry_id 8EDP _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest Y # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 N9 _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 DG _pdbx_validate_rmsd_bond.auth_seq_id_1 21 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 C4 _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 DG _pdbx_validate_rmsd_bond.auth_seq_id_2 21 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.327 _pdbx_validate_rmsd_bond.bond_target_value 1.375 _pdbx_validate_rmsd_bond.bond_deviation -0.048 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.008 _pdbx_validate_rmsd_bond.linker_flag N # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "O4'" _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 DG _pdbx_validate_rmsd_angle.auth_seq_id_1 21 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DG _pdbx_validate_rmsd_angle.auth_seq_id_2 21 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 N9 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DG _pdbx_validate_rmsd_angle.auth_seq_id_3 21 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 112.01 _pdbx_validate_rmsd_angle.angle_target_value 108.30 _pdbx_validate_rmsd_angle.angle_deviation 3.71 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.30 _pdbx_validate_rmsd_angle.linker_flag 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 DA 1 ? "O5'" ? A DA 1 "O5'" 2 1 Y 1 A DA 1 ? "C5'" ? A DA 1 "C5'" 3 1 Y 1 A DA 1 ? "O4'" ? A DA 1 "O4'" 4 1 Y 1 A DA 1 ? "C1'" ? A DA 1 "C1'" 5 1 Y 1 A DA 1 ? N9 ? A DA 1 N9 6 1 Y 1 A DA 1 ? C8 ? A DA 1 C8 7 1 Y 1 A DA 1 ? N7 ? A DA 1 N7 8 1 Y 1 A DA 1 ? C5 ? A DA 1 C5 9 1 Y 1 A DA 1 ? C6 ? A DA 1 C6 10 1 Y 1 A DA 1 ? N6 ? A DA 1 N6 11 1 Y 1 A DA 1 ? N1 ? A DA 1 N1 12 1 Y 1 A DA 1 ? C2 ? A DA 1 C2 13 1 Y 1 A DA 1 ? N3 ? A DA 1 N3 14 1 Y 1 A DA 1 ? C4 ? A DA 1 C4 15 1 Y 1 A DA 5 ? C8 ? A DA 5 C8 16 1 Y 1 A DA 5 ? N7 ? A DA 5 N7 17 1 Y 1 A DA 5 ? C5 ? A DA 5 C5 18 1 Y 1 A DA 5 ? C6 ? A DA 5 C6 19 1 Y 1 A DA 5 ? N6 ? A DA 5 N6 20 1 Y 1 A DA 5 ? N1 ? A DA 5 N1 21 1 Y 1 A DA 5 ? C2 ? A DA 5 C2 22 1 Y 1 A DA 5 ? N3 ? A DA 5 N3 23 1 Y 1 A DA 5 ? C4 ? A DA 5 C4 24 1 Y 1 A DA 6 ? N9 ? A DA 6 N9 25 1 Y 1 A DA 6 ? C8 ? A DA 6 C8 26 1 Y 1 A DA 6 ? N7 ? A DA 6 N7 27 1 Y 1 A DA 6 ? C5 ? A DA 6 C5 28 1 Y 1 A DA 6 ? C6 ? A DA 6 C6 29 1 Y 1 A DA 6 ? N6 ? A DA 6 N6 30 1 Y 1 A DA 6 ? N1 ? A DA 6 N1 31 1 Y 1 A DA 6 ? C2 ? A DA 6 C2 32 1 Y 1 A DA 6 ? N3 ? A DA 6 N3 33 1 Y 1 A DA 6 ? C4 ? A DA 6 C4 34 1 Y 1 A DA 7 ? N9 ? A DA 7 N9 35 1 Y 1 A DA 7 ? C8 ? A DA 7 C8 36 1 Y 1 A DA 7 ? N7 ? A DA 7 N7 37 1 Y 1 A DA 7 ? C5 ? A DA 7 C5 38 1 Y 1 A DA 7 ? C6 ? A DA 7 C6 39 1 Y 1 A DA 7 ? N6 ? A DA 7 N6 40 1 Y 1 A DA 7 ? N1 ? A DA 7 N1 41 1 Y 1 A DA 7 ? C2 ? A DA 7 C2 42 1 Y 1 A DA 7 ? N3 ? A DA 7 N3 43 1 Y 1 A DA 7 ? C4 ? A DA 7 C4 44 1 Y 1 A DA 8 ? C6 ? A DA 8 C6 45 1 Y 1 A DA 8 ? N6 ? A DA 8 N6 46 1 Y 1 A DA 8 ? N1 ? A DA 8 N1 47 1 Y 1 A DA 8 ? C2 ? A DA 8 C2 48 1 Y 1 A DA 8 ? N3 ? A DA 8 N3 49 1 Y 1 A DA 25 ? "C4'" ? A DA 25 "C4'" 50 1 Y 1 A DA 25 ? "O4'" ? A DA 25 "O4'" 51 1 Y 1 A DA 25 ? "C3'" ? A DA 25 "C3'" 52 1 Y 1 A DA 25 ? "O3'" ? A DA 25 "O3'" 53 1 Y 1 A DA 25 ? "C2'" ? A DA 25 "C2'" 54 1 Y 1 A DA 25 ? "C1'" ? A DA 25 "C1'" 55 1 Y 1 A DA 25 ? N9 ? A DA 25 N9 56 1 Y 1 A DA 25 ? C8 ? A DA 25 C8 57 1 Y 1 A DA 25 ? N7 ? A DA 25 N7 58 1 Y 1 A DA 25 ? C5 ? A DA 25 C5 59 1 Y 1 A DA 25 ? C6 ? A DA 25 C6 60 1 Y 1 A DA 25 ? N6 ? A DA 25 N6 61 1 Y 1 A DA 25 ? N1 ? A DA 25 N1 62 1 Y 1 A DA 25 ? C2 ? A DA 25 C2 63 1 Y 1 A DA 25 ? N3 ? A DA 25 N3 64 1 Y 1 A DA 25 ? C4 ? A DA 25 C4 65 1 N 1 A MMP 106 ? C18 ? G MMP 1 C18 66 1 N 1 A MMP 106 ? C28 ? G MMP 1 C28 67 1 N 1 A MMP 106 ? C38 ? G MMP 1 C38 68 1 N 1 A MMP 106 ? C39 ? G MMP 1 C39 69 1 N 1 A MMP 106 ? O31 ? G MMP 1 O31 70 1 N 1 A MMP 106 ? O32 ? G MMP 1 O32 71 1 N 1 A MMP 106 ? C48 ? G MMP 1 C48 72 1 N 1 A MMP 106 ? C49 ? G MMP 1 C49 73 1 N 1 A MMP 106 ? O41 ? G MMP 1 O41 74 1 N 1 A MMP 106 ? O42 ? G MMP 1 O42 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8EDP 'double helix' 8EDP '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 2 1_555 A DG 10 1_555 1.467 3.582 -0.091 -1.488 -2.578 -90.410 1 A_DG2:DG10_A A 2 ? A 10 ? 6 3 1 A DG 3 1_555 A DG 23 1_555 -1.443 -3.384 0.011 -2.736 10.266 88.582 2 A_DG3:DG23_A A 3 ? A 23 ? 6 3 1 A DG 4 1_555 A DG 24 1_555 -1.738 -3.398 0.040 -5.827 7.622 87.772 3 A_DG4:DG24_A A 4 ? A 24 ? 6 3 1 A DG 12 1_555 A DG 16 1_555 1.627 3.469 -0.163 6.882 -7.112 -88.894 4 A_DG12:DG16_A A 12 ? A 16 ? 6 3 1 A DG 11 1_555 A DG 15 1_555 1.269 3.642 -0.084 2.178 -8.214 -88.289 5 A_DG11:DG15_A A 11 ? A 15 ? 6 3 1 A DG 22 1_555 A DG 14 1_555 -1.319 -3.519 0.244 0.252 1.935 92.681 6 A_DG22:DG14_A A 22 ? A 14 ? 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 2 1_555 A DG 10 1_555 A DG 3 1_555 A DG 23 1_555 0.490 1.774 3.417 -1.360 -2.786 -58.069 -1.669 0.429 3.501 2.868 -1.400 -58.145 1 AA_DG2DG3:DG23DG10_AA A 2 ? A 10 ? A 3 ? A 23 ? 1 A DG 3 1_555 A DG 23 1_555 A DG 4 1_555 A DG 24 1_555 -0.674 -0.593 3.168 2.862 6.378 28.428 -2.473 1.917 2.889 12.745 -5.719 29.258 2 AA_DG3DG4:DG24DG23_AA A 3 ? A 23 ? A 4 ? A 24 ? 1 A DG 4 1_555 A DG 24 1_555 A DG 12 1_555 A DG 16 1_555 -1.677 -3.417 -0.041 -16.067 9.861 179.812 -1.709 0.838 -0.041 4.930 8.033 179.815 3 AA_DG4DG12:DG16DG24_AA A 4 ? A 24 ? A 12 ? A 16 ? 1 A DG 12 1_555 A DG 16 1_555 A DG 11 1_555 A DG 15 1_555 0.713 0.668 -3.169 -0.580 -5.492 -29.690 -2.342 1.481 -2.986 10.602 -1.119 -30.187 4 AA_DG12DG11:DG15DG16_AA A 12 ? A 16 ? A 11 ? A 15 ? 1 A DG 11 1_555 A DG 15 1_555 A DG 22 1_555 A DG 14 1_555 -0.620 -1.947 -3.264 -0.665 1.877 59.512 -1.866 0.658 -3.312 1.891 0.670 59.542 5 AA_DG11DG22:DG14DG15_AA A 11 ? A 15 ? A 22 ? A 14 ? # _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 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id MMP _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id MMP _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 'COBALT HEXAMMINE(III)' NCO 3 'POTASSIUM ION' K 4 N-METHYLMESOPORPHYRIN MMP 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 4G0F _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 'P 2 21 21' _space_group.name_Hall 'P 2 2ab (z,x,y)' _space_group.IT_number 18 _space_group.crystal_system orthorhombic _space_group.id 1 #