data_6GIM # _entry.id 6GIM # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.299 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6GIM WWPDB D_1200009955 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6GIM _pdbx_database_status.recvd_initial_deposition_date 2018-05-14 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _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 'Millan, C.R.' 1 0000-0002-9355-7611 'Dardonvile, C.' 2 0000-0001-5395-1932 'de Koning, H.P.' 3 0000-0002-9963-1827 'Saperas, N.' 4 0000-0002-5419-7502 'Campos, J.L.' 5 0000-0002-4136-7082 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Nucleic Acids Res.' _citation.journal_id_ASTM NARHAD _citation.journal_id_CSD 0389 _citation.journal_id_ISSN 1362-4962 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 45 _citation.language ? _citation.page_first 8378 _citation.page_last 8391 _citation.title ;Functional and structural analysis of AT-specific minor groove binders that disrupt DNA-protein interactions and cause disintegration of the Trypanosoma brucei kinetoplast. ; _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1093/nar/gkx521 _citation.pdbx_database_id_PubMed 28637278 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Millan, C.R.' 1 ? primary 'Acosta-Reyes, F.J.' 2 ? primary 'Lagartera, L.' 3 ? primary 'Ebiloma, G.U.' 4 ? primary 'Lemgruber, L.' 5 ? primary 'Nue Martinez, J.J.' 6 ? primary 'Saperas, N.' 7 ? primary 'Dardonville, C.' 8 ? primary 'de Koning, H.P.' 9 ? primary 'Campos, J.L.' 10 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 93.91 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 6GIM _cell.details ? _cell.formula_units_Z ? _cell.length_a 22.630 _cell.length_a_esd ? _cell.length_b 40.470 _cell.length_b_esd ? _cell.length_c 72.255 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 16 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GIM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 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(*AP*AP*AP*TP*TP*T)-3') ; 1807.241 4 ? ? ? ? 2 non-polymer syn '[4-[(3-chloranyl-4-imidazolidin-2-ylideneazaniumyl-phenyl)carbamoyl]phenyl]-imidazolidin-2-ylidene-azanium' 399.877 3 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 3 ? ? ? ? 4 water nat water 18.015 95 ? ? ? ? # _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)(DA)(DA)(DT)(DT)(DT)' _entity_poly.pdbx_seq_one_letter_code_can AAATTT _entity_poly.pdbx_strand_id D,C,A,B _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DA n 1 2 DA n 1 3 DA n 1 4 DT n 1 5 DT n 1 6 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 6 _pdbx_entity_src_syn.organism_scientific 'Trypanosoma brucei' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 5691 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 6GIM _struct_ref.pdbx_db_accession 6GIM _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 6GIM D 1 ? 6 ? 6GIM 1 ? 6 ? 1 6 2 1 6GIM C 1 ? 6 ? 6GIM 1 ? 6 ? 1 6 3 1 6GIM A 1 ? 6 ? 6GIM 1 ? 6 ? 1 6 4 1 6GIM B 1 ? 6 ? 6GIM 1 ? 6 ? 1 6 # 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 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 EZK non-polymer . '[4-[(3-chloranyl-4-imidazolidin-2-ylideneazaniumyl-phenyl)carbamoyl]phenyl]-imidazolidin-2-ylidene-azanium' ? 'C19 H22 Cl N7 O 2' 399.877 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # _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 6GIM _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 2.304846 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 46.66 _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 0.127 _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '10 mM magnesium acetate, 0.1 mM spermine, 5% 2-methyl-2,4-pentanediol (MPD); equilibrated against 20% MPD reservoir' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2017-07-27 # _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 0.9791 _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 'ALBA BEAMLINE XALOC' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9791 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline XALOC _diffrn_source.pdbx_synchrotron_site ALBA # _reflns.B_iso_Wilson_estimate 12.7 _reflns.entry_id 6GIM _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.43 _reflns.d_resolution_low 36.04 _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 12256 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.5 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4 _reflns.pdbx_Rmerge_I_obs 0.073 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI 13.4 _reflns.pdbx_netI_over_sigmaI 2.79 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.92 _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 0.081 _reflns.pdbx_Rpim_I_all 0.033 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.995 _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.43 _reflns_shell.d_res_low 7.81 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 3.1 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 602 _reflns_shell.percent_possible_all 99.7 _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 0.581 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 0.72 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 0.642 _reflns_shell.pdbx_Rpim_I_all 0.376 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.858 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] 0.42 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.71 _refine.aniso_B[2][2] -0.63 _refine.aniso_B[2][3] 0.00 _refine.aniso_B[3][3] 0.11 _refine.B_iso_max ? _refine.B_iso_mean 16.164 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.978 _refine.correlation_coeff_Fo_to_Fc_free 0.948 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6GIM _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.43 _refine.ls_d_res_low 36.04 _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 11306 _refine.ls_number_reflns_R_free 557 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 96.79 _refine.ls_percent_reflns_R_free 4.7 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.14585 _refine.ls_R_factor_R_free 0.19286 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.14342 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'Idealised DNA model from TURBO' _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.074 _refine.pdbx_overall_ESU_R_Free 0.068 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 2.476 _refine.overall_SU_ML 0.044 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id 1 _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 480 _refine_hist.pdbx_number_atoms_ligand 87 _refine_hist.number_atoms_solvent 96 _refine_hist.number_atoms_total 663 _refine_hist.d_res_high 1.43 _refine_hist.d_res_low 36.04 # 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' ? 0.012 0.011 629 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.006 0.020 340 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.937 1.391 946 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.682 2.749 790 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? 8.680 10.000 12 ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'X-RAY DIFFRACTION' ? 0.088 0.200 72 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.023 0.020 426 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.003 0.020 138 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_nbtor_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_vdw_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_hbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_it ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_mcangle_other ? ? 'X-RAY DIFFRACTION' ? 2.228 1.543 629 ? r_scbond_it ? ? 'X-RAY DIFFRACTION' ? 2.227 1.542 630 ? r_scbond_other ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? r_scangle_it ? ? 'X-RAY DIFFRACTION' ? 2.751 2.334 947 ? r_scangle_other ? ? 'X-RAY DIFFRACTION' ? 3.070 14.202 856 ? r_long_range_B_refined ? ? 'X-RAY DIFFRACTION' ? 2.910 13.735 839 ? r_long_range_B_other ? ? 'X-RAY DIFFRACTION' ? 3.497 3.000 968 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? 15.162 5.000 70 ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? 8.746 5.000 933 ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.426 _refine_ls_shell.d_res_low 1.463 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 37 _refine_ls_shell.number_reflns_R_work 810 _refine_ls_shell.percent_reflns_obs 93.90 _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 0.252 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.171 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 6GIM _struct.title ;Structure of the DNA duplex d(AAATTT)2 with [N-(3-chloro-4-((4,5-dihydro-1H-imidazol-2-yl)amino)phenyl)-4-((4,5-dihydro-1H-imidazol-2- yl)amino)benzamide] - (drug JNI18) ; _struct.pdbx_descriptor ;DNA (5'-D(*AP*AP*AP*TP*TP*T)-3') ; _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 6GIM _struct_keywords.text 'AT-rich DNA, DNA binding drugs, Minor groove binding drugs, antiparasitic drugs, Trypanosoma brucei, 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 1 ? C N N 1 ? D N N 1 ? E N N 2 ? F N N 2 ? G N N 3 ? H N N 3 ? I N N 2 ? J N N 3 ? K N N 4 ? L N N 4 ? M N N 4 ? N N N 4 ? # 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 metalc1 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 223 1_555 ? ? ? ? ? ? ? 2.148 ? metalc2 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 224 1_555 ? ? ? ? ? ? ? 1.910 ? metalc3 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 217 1_555 ? ? ? ? ? ? ? 2.292 ? metalc4 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 101 A HOH 207 1_555 ? ? ? ? ? ? ? 2.187 ? metalc5 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 101 A HOH 211 1_555 ? ? ? ? ? ? ? 2.106 ? metalc6 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 101 A HOH 221 1_555 ? ? ? ? ? ? ? 2.110 ? metalc7 metalc ? ? H MG . MG ? ? ? 1_555 M HOH . O ? ? A MG 101 A HOH 208 1_555 ? ? ? ? ? ? ? 2.038 ? metalc8 metalc ? ? J MG . MG ? ? ? 1_555 L HOH . O ? ? B MG 102 C HOH 220 1_555 ? ? ? ? ? ? ? 2.042 ? metalc9 metalc ? ? J MG . MG ? ? ? 1_555 N HOH . O ? ? B MG 102 B HOH 210 1_555 ? ? ? ? ? ? ? 1.915 ? metalc10 metalc ? ? J MG . MG ? ? ? 1_555 L HOH . O ? ? B MG 102 C HOH 226 1_555 ? ? ? ? ? ? ? 1.980 ? metalc11 metalc ? ? C DT 4 OP1 ? ? ? 1_555 J MG . MG ? ? A DT 4 B MG 102 1_455 ? ? ? ? ? ? ? 2.048 ? metalc12 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 217 2_755 ? ? ? ? ? ? ? 2.292 ? metalc13 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 224 2_755 ? ? ? ? ? ? ? 1.910 ? metalc14 metalc ? ? G MG . MG ? ? ? 1_555 L HOH . O ? ? C MG 102 C HOH 223 2_755 ? ? ? ? ? ? ? 2.148 ? metalc15 metalc ? ? H MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 101 B HOH 206 4_545 ? ? ? ? ? ? ? 2.044 ? metalc16 metalc ? ? H MG . MG ? ? ? 1_555 N HOH . O ? ? A MG 101 B HOH 205 4_545 ? ? ? ? ? ? ? 2.091 ? metalc17 metalc ? ? J MG . MG ? ? ? 1_555 M HOH . O ? ? B MG 102 A HOH 218 1_655 ? ? ? ? ? ? ? 2.059 ? hydrog1 hydrog ? ? C DA 1 N1 ? ? ? 1_555 D DT 6 N3 ? ? A DA 1 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? C DA 1 N6 ? ? ? 1_555 D DT 6 O4 ? ? A DA 1 B DT 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? C DA 2 N1 ? ? ? 1_555 D DT 5 N3 ? ? A DA 2 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? C DA 2 N6 ? ? ? 1_555 D DT 5 O4 ? ? A DA 2 B DT 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? C DA 3 N1 ? ? ? 1_555 D DT 4 N3 ? ? A DA 3 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? C DA 3 N6 ? ? ? 1_555 D DT 4 O4 ? ? A DA 3 B DT 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? C DT 4 N3 ? ? ? 1_555 D DA 3 N1 ? ? A DT 4 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? C DT 4 O4 ? ? ? 1_555 D DA 3 N6 ? ? A DT 4 B DA 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? C DT 5 N3 ? ? ? 1_555 D DA 2 N1 ? ? A DT 5 B DA 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? C DT 5 O4 ? ? ? 1_555 D DA 2 N6 ? ? A DT 5 B DA 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? C DT 6 N3 ? ? ? 1_555 D DA 1 N1 ? ? A DT 6 B DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? C DT 6 O4 ? ? ? 1_555 D DA 1 N6 ? ? A DT 6 B DA 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? B DA 1 N1 ? ? ? 1_555 B DT 6 N3 ? ? C DA 1 C DT 6 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? B DA 1 N6 ? ? ? 1_555 B DT 6 O4 ? ? C DA 1 C DT 6 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? B DA 2 N1 ? ? ? 1_555 B DT 5 N3 ? ? C DA 2 C DT 5 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? B DA 2 N6 ? ? ? 1_555 B DT 5 O4 ? ? C DA 2 C DT 5 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? B DA 3 N1 ? ? ? 1_555 B DT 4 N3 ? ? C DA 3 C DT 4 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? B DA 3 N6 ? ? ? 1_555 B DT 4 O4 ? ? C DA 3 C DT 4 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? B DT 4 N3 ? ? ? 1_555 B DA 3 N1 ? ? C DT 4 C DA 3 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? B DT 4 O4 ? ? ? 1_555 B DA 3 N6 ? ? C DT 4 C DA 3 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? B DT 5 N3 ? ? ? 1_555 B DA 2 N1 ? ? C DT 5 C DA 2 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? B DT 5 O4 ? ? ? 1_555 B DA 2 N6 ? ? C DT 5 C DA 2 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? B DT 6 N3 ? ? ? 1_555 B DA 1 N1 ? ? C DT 6 C DA 1 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? B DT 6 O4 ? ? ? 1_555 B DA 1 N6 ? ? C DT 6 C DA 1 2_655 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog25 hydrog ? ? A DA 1 N1 ? ? ? 1_555 A DT 6 N3 ? ? D DA 1 D DT 6 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog26 hydrog ? ? A DA 1 N6 ? ? ? 1_555 A DT 6 O4 ? ? D DA 1 D DT 6 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog27 hydrog ? ? A DA 2 N1 ? ? ? 1_555 A DT 5 N3 ? ? D DA 2 D DT 5 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog28 hydrog ? ? A DA 2 N6 ? ? ? 1_555 A DT 5 O4 ? ? D DA 2 D DT 5 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog29 hydrog ? ? A DA 3 N1 ? ? ? 1_555 A DT 4 N3 ? ? D DA 3 D DT 4 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog30 hydrog ? ? A DA 3 N6 ? ? ? 1_555 A DT 4 O4 ? ? D DA 3 D DT 4 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog31 hydrog ? ? A DT 4 N3 ? ? ? 1_555 A DA 3 N1 ? ? D DT 4 D DA 3 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog32 hydrog ? ? A DT 4 O4 ? ? ? 1_555 A DA 3 N6 ? ? D DT 4 D DA 3 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog33 hydrog ? ? A DT 5 N3 ? ? ? 1_555 A DA 2 N1 ? ? D DT 5 D DA 2 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog34 hydrog ? ? A DT 5 O4 ? ? ? 1_555 A DA 2 N6 ? ? D DT 5 D DA 2 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog35 hydrog ? ? A DT 6 N3 ? ? ? 1_555 A DA 1 N1 ? ? D DT 6 D DA 1 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog36 hydrog ? ? A DT 6 O4 ? ? ? 1_555 A DA 1 N6 ? ? D DT 6 D DA 1 2_556 ? ? ? ? ? ? WATSON-CRICK ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software D EZK 101 ? 11 'binding site for residue EZK D 101' AC2 Software C EZK 101 ? 13 'binding site for residue EZK C 101' AC3 Software C MG 102 ? 6 'binding site for residue MG C 102' AC4 Software A MG 101 ? 6 'binding site for residue MG A 101' AC5 Software B EZK 101 ? 12 'binding site for residue EZK B 101' AC6 Software B MG 102 ? 5 'binding site for residue MG B 102' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 11 DA A 2 ? DA D 2 . ? 1_555 ? 2 AC1 11 DA A 3 ? DA D 3 . ? 2_556 ? 3 AC1 11 DA A 3 ? DA D 3 . ? 1_555 ? 4 AC1 11 DT A 4 ? DT D 4 . ? 1_555 ? 5 AC1 11 DT A 4 ? DT D 4 . ? 2_556 ? 6 AC1 11 DT A 5 ? DT D 5 . ? 1_555 ? 7 AC1 11 DT A 5 ? DT D 5 . ? 2_556 ? 8 AC1 11 DT A 6 ? DT D 6 . ? 2_556 ? 9 AC1 11 DT A 6 ? DT D 6 . ? 1_555 ? 10 AC1 11 HOH K . ? HOH D 207 . ? 2_556 ? 11 AC1 11 HOH K . ? HOH D 207 . ? 1_555 ? 12 AC2 13 DA B 2 ? DA C 2 . ? 2_655 ? 13 AC2 13 DA B 2 ? DA C 2 . ? 1_555 ? 14 AC2 13 DA B 3 ? DA C 3 . ? 1_555 ? 15 AC2 13 DA B 3 ? DA C 3 . ? 2_655 ? 16 AC2 13 DT B 4 ? DT C 4 . ? 2_655 ? 17 AC2 13 DT B 4 ? DT C 4 . ? 1_555 ? 18 AC2 13 DT B 5 ? DT C 5 . ? 1_555 ? 19 AC2 13 DT B 5 ? DT C 5 . ? 2_655 ? 20 AC2 13 DT B 6 ? DT C 6 . ? 1_555 ? 21 AC2 13 DT B 6 ? DT C 6 . ? 2_655 ? 22 AC2 13 HOH L . ? HOH C 210 . ? 1_555 ? 23 AC2 13 HOH L . ? HOH C 214 . ? 2_655 ? 24 AC2 13 HOH L . ? HOH C 214 . ? 1_555 ? 25 AC3 6 HOH L . ? HOH C 217 . ? 1_555 ? 26 AC3 6 HOH L . ? HOH C 217 . ? 2_755 ? 27 AC3 6 HOH L . ? HOH C 223 . ? 2_755 ? 28 AC3 6 HOH L . ? HOH C 223 . ? 1_555 ? 29 AC3 6 HOH L . ? HOH C 224 . ? 2_755 ? 30 AC3 6 HOH L . ? HOH C 224 . ? 1_555 ? 31 AC4 6 HOH M . ? HOH A 207 . ? 1_555 ? 32 AC4 6 HOH M . ? HOH A 208 . ? 1_555 ? 33 AC4 6 HOH M . ? HOH A 211 . ? 1_555 ? 34 AC4 6 HOH M . ? HOH A 221 . ? 1_555 ? 35 AC4 6 HOH N . ? HOH B 205 . ? 4_545 ? 36 AC4 6 HOH N . ? HOH B 206 . ? 4_545 ? 37 AC5 12 DA C 2 ? DA A 2 . ? 4_555 ? 38 AC5 12 DA C 3 ? DA A 3 . ? 1_555 ? 39 AC5 12 DT C 4 ? DT A 4 . ? 1_555 ? 40 AC5 12 DT C 5 ? DT A 5 . ? 1_555 ? 41 AC5 12 DT C 6 ? DT A 6 . ? 1_555 ? 42 AC5 12 DA D 2 ? DA B 2 . ? 1_555 ? 43 AC5 12 DA D 3 ? DA B 3 . ? 1_455 ? 44 AC5 12 DA D 3 ? DA B 3 . ? 1_555 ? 45 AC5 12 DT D 4 ? DT B 4 . ? 1_555 ? 46 AC5 12 DT D 5 ? DT B 5 . ? 1_555 ? 47 AC5 12 DT D 6 ? DT B 6 . ? 1_555 ? 48 AC5 12 HOH N . ? HOH B 207 . ? 1_555 ? 49 AC6 5 DT C 4 ? DT A 4 . ? 1_655 ? 50 AC6 5 HOH M . ? HOH A 218 . ? 1_655 ? 51 AC6 5 HOH N . ? HOH B 210 . ? 1_555 ? 52 AC6 5 HOH L . ? HOH C 220 . ? 1_555 ? 53 AC6 5 HOH L . ? HOH C 226 . ? 1_555 ? # _atom_sites.entry_id 6GIM _atom_sites.fract_transf_matrix[1][1] 0.044189 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.003018 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.024710 _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] 0.013872 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CL MG N O P # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DA 1 1 1 DA DA D . n A 1 2 DA 2 2 2 DA DA D . n A 1 3 DA 3 3 3 DA DA D . n A 1 4 DT 4 4 4 DT DT D . n A 1 5 DT 5 5 5 DT DT D . n A 1 6 DT 6 6 6 DT T D . n B 1 1 DA 1 1 1 DA DA C . n B 1 2 DA 2 2 2 DA A C . n B 1 3 DA 3 3 3 DA A C . n B 1 4 DT 4 4 4 DT DT C . n B 1 5 DT 5 5 5 DT DT C . n B 1 6 DT 6 6 6 DT DT C . n C 1 1 DA 1 1 1 DA DA A . n C 1 2 DA 2 2 2 DA A A . n C 1 3 DA 3 3 3 DA A A . n C 1 4 DT 4 4 4 DT DT A . n C 1 5 DT 5 5 5 DT DT A . n C 1 6 DT 6 6 6 DT DT A . n D 1 1 DA 1 1 1 DA DA B . n D 1 2 DA 2 2 2 DA DA B . n D 1 3 DA 3 3 3 DA DA B . n D 1 4 DT 4 4 4 DT DT B . n D 1 5 DT 5 5 5 DT DT B . n D 1 6 DT 6 6 6 DT T B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 EZK 1 101 1 EZK LIG D . F 2 EZK 1 101 1 EZK LIG C . G 3 MG 1 102 96 MG MG C . H 3 MG 1 101 94 MG MG A . I 2 EZK 1 101 1 EZK LIG B . J 3 MG 1 102 95 MG MG B . K 4 HOH 1 201 58 HOH HOH D . K 4 HOH 2 202 32 HOH HOH D . K 4 HOH 3 203 71 HOH HOH D . K 4 HOH 4 204 23 HOH HOH D . K 4 HOH 5 205 16 HOH HOH D . K 4 HOH 6 206 97 HOH HOH D . K 4 HOH 7 207 85 HOH HOH D . K 4 HOH 8 208 7 HOH HOH D . K 4 HOH 9 209 57 HOH HOH D . K 4 HOH 10 210 90 HOH HOH D . K 4 HOH 11 211 14 HOH HOH D . K 4 HOH 12 212 44 HOH HOH D . K 4 HOH 13 213 59 HOH HOH D . K 4 HOH 14 214 8 HOH HOH D . K 4 HOH 15 215 18 HOH HOH D . K 4 HOH 16 216 54 HOH HOH D . K 4 HOH 17 217 68 HOH HOH D . K 4 HOH 18 218 69 HOH HOH D . K 4 HOH 19 219 70 HOH HOH D . K 4 HOH 20 220 86 HOH HOH D . L 4 HOH 1 201 105 HOH HOH C . L 4 HOH 2 202 101 HOH HOH C . L 4 HOH 3 203 26 HOH HOH C . L 4 HOH 4 204 99 HOH HOH C . L 4 HOH 5 205 29 HOH HOH C . L 4 HOH 6 206 45 HOH HOH C . L 4 HOH 7 207 9 HOH HOH C . L 4 HOH 8 208 36 HOH HOH C . L 4 HOH 9 209 33 HOH HOH C . L 4 HOH 10 210 80 HOH HOH C . L 4 HOH 11 211 43 HOH HOH C . L 4 HOH 12 212 104 HOH HOH C . L 4 HOH 13 213 82 HOH HOH C . L 4 HOH 14 214 81 HOH HOH C . L 4 HOH 15 215 98 HOH HOH C . L 4 HOH 16 216 100 HOH HOH C . L 4 HOH 17 217 79 HOH HOH C . L 4 HOH 18 218 84 HOH HOH C . L 4 HOH 19 219 27 HOH HOH C . L 4 HOH 20 220 30 HOH HOH C . L 4 HOH 21 221 67 HOH HOH C . L 4 HOH 22 222 83 HOH HOH C . L 4 HOH 23 223 50 HOH HOH C . L 4 HOH 24 224 47 HOH HOH C . L 4 HOH 25 225 39 HOH HOH C . L 4 HOH 26 226 66 HOH HOH C . M 4 HOH 1 201 74 HOH HOH A . M 4 HOH 2 202 4 HOH HOH A . M 4 HOH 3 203 60 HOH HOH A . M 4 HOH 4 204 21 HOH HOH A . M 4 HOH 5 205 89 HOH HOH A . M 4 HOH 6 206 42 HOH HOH A . M 4 HOH 7 207 2 HOH HOH A . M 4 HOH 8 208 73 HOH HOH A . M 4 HOH 9 209 25 HOH HOH A . M 4 HOH 10 210 94 HOH HOH A . M 4 HOH 11 211 10 HOH HOH A . M 4 HOH 12 212 5 HOH HOH A . M 4 HOH 13 213 88 HOH HOH A . M 4 HOH 14 214 13 HOH HOH A . M 4 HOH 15 215 20 HOH HOH A . M 4 HOH 16 216 103 HOH HOH A . M 4 HOH 17 217 15 HOH HOH A . M 4 HOH 18 218 28 HOH HOH A . M 4 HOH 19 219 102 HOH HOH A . M 4 HOH 20 220 91 HOH HOH A . M 4 HOH 21 221 72 HOH HOH A . M 4 HOH 22 222 92 HOH HOH A . N 4 HOH 1 201 77 HOH HOH B . N 4 HOH 2 202 62 HOH HOH B . N 4 HOH 3 203 75 HOH HOH B . N 4 HOH 4 204 46 HOH HOH B . N 4 HOH 5 205 12 HOH HOH B . N 4 HOH 6 206 17 HOH HOH B . N 4 HOH 7 207 87 HOH HOH B . N 4 HOH 8 208 95 HOH HOH B . N 4 HOH 9 209 63 HOH HOH B . N 4 HOH 10 210 35 HOH HOH B . N 4 HOH 11 211 11 HOH HOH B . N 4 HOH 12 212 61 HOH HOH B . N 4 HOH 13 213 93 HOH HOH B . N 4 HOH 14 214 24 HOH HOH B . N 4 HOH 15 215 19 HOH HOH B . N 4 HOH 16 216 34 HOH HOH B . N 4 HOH 17 217 78 HOH HOH B . N 4 HOH 18 218 22 HOH HOH B . N 4 HOH 19 219 6 HOH HOH B . N 4 HOH 20 220 31 HOH HOH B . N 4 HOH 21 221 40 HOH HOH B . N 4 HOH 22 222 106 HOH HOH B . N 4 HOH 23 223 65 HOH HOH B . N 4 HOH 24 224 64 HOH HOH B . N 4 HOH 25 225 41 HOH HOH B . N 4 HOH 26 226 37 HOH HOH B . N 4 HOH 27 227 96 HOH HOH B . # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 2 3 author_and_software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2 A,E,K 2 1,3 B,F,G,L 3 1 C,D,H,I,J,M,N # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_556 -x,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 -4.9270264253 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 72.0868187369 3 'crystal symmetry operation' 2_655 -x+1,y,-z -1.0000000000 0.0000000000 0.0000000000 22.6300000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 D EZK 101 ? E EZK . 2 1 C EZK 101 ? F EZK . 3 1 C MG 102 ? G MG . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? L HOH . ? C HOH 223 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 224 ? 1_555 101.1 ? 2 O ? L HOH . ? C HOH 223 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 217 ? 1_555 85.6 ? 3 O ? L HOH . ? C HOH 224 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 217 ? 1_555 169.9 ? 4 O ? L HOH . ? C HOH 223 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 217 ? 2_755 85.4 ? 5 O ? L HOH . ? C HOH 224 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 217 ? 2_755 93.0 ? 6 O ? L HOH . ? C HOH 217 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 217 ? 2_755 80.0 ? 7 O ? L HOH . ? C HOH 223 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 224 ? 2_755 86.9 ? 8 O ? L HOH . ? C HOH 224 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 224 ? 2_755 94.9 ? 9 O ? L HOH . ? C HOH 217 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 224 ? 2_755 93.0 ? 10 O ? L HOH . ? C HOH 217 ? 2_755 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 224 ? 2_755 169.9 ? 11 O ? L HOH . ? C HOH 223 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 223 ? 2_755 168.2 ? 12 O ? L HOH . ? C HOH 224 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 223 ? 2_755 86.9 ? 13 O ? L HOH . ? C HOH 217 ? 1_555 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 223 ? 2_755 85.4 ? 14 O ? L HOH . ? C HOH 217 ? 2_755 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 223 ? 2_755 85.6 ? 15 O ? L HOH . ? C HOH 224 ? 2_755 MG ? G MG . ? C MG 102 ? 1_555 O ? L HOH . ? C HOH 223 ? 2_755 101.1 ? 16 O ? M HOH . ? A HOH 207 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 211 ? 1_555 92.6 ? 17 O ? M HOH . ? A HOH 207 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 221 ? 1_555 88.8 ? 18 O ? M HOH . ? A HOH 211 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 221 ? 1_555 178.6 ? 19 O ? M HOH . ? A HOH 207 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 208 ? 1_555 89.9 ? 20 O ? M HOH . ? A HOH 211 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 208 ? 1_555 86.8 ? 21 O ? M HOH . ? A HOH 221 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? M HOH . ? A HOH 208 ? 1_555 92.9 ? 22 O ? M HOH . ? A HOH 207 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 206 ? 4_545 89.8 ? 23 O ? M HOH . ? A HOH 211 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 206 ? 4_545 90.5 ? 24 O ? M HOH . ? A HOH 221 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 206 ? 4_545 89.8 ? 25 O ? M HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 206 ? 4_545 177.3 ? 26 O ? M HOH . ? A HOH 207 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 205 ? 4_545 177.3 ? 27 O ? M HOH . ? A HOH 211 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 205 ? 4_545 90.1 ? 28 O ? M HOH . ? A HOH 221 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 205 ? 4_545 88.5 ? 29 O ? M HOH . ? A HOH 208 ? 1_555 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 205 ? 4_545 89.4 ? 30 O ? N HOH . ? B HOH 206 ? 4_545 MG ? H MG . ? A MG 101 ? 1_555 O ? N HOH . ? B HOH 205 ? 4_545 90.9 ? 31 O ? L HOH . ? C HOH 220 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? N HOH . ? B HOH 210 ? 1_555 89.1 ? 32 O ? L HOH . ? C HOH 220 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? L HOH . ? C HOH 226 ? 1_555 84.9 ? 33 O ? N HOH . ? B HOH 210 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? L HOH . ? C HOH 226 ? 1_555 164.6 ? 34 O ? L HOH . ? C HOH 220 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 OP1 ? C DT 4 ? A DT 4 ? 1_555 60.5 ? 35 O ? N HOH . ? B HOH 210 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 OP1 ? C DT 4 ? A DT 4 ? 1_555 29.3 ? 36 O ? L HOH . ? C HOH 226 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 OP1 ? C DT 4 ? A DT 4 ? 1_555 139.9 ? 37 O ? L HOH . ? C HOH 220 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? M HOH . ? A HOH 218 ? 1_655 92.7 ? 38 O ? N HOH . ? B HOH 210 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? M HOH . ? A HOH 218 ? 1_655 100.6 ? 39 O ? L HOH . ? C HOH 226 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? M HOH . ? A HOH 218 ? 1_655 93.9 ? 40 OP1 ? C DT 4 ? A DT 4 ? 1_555 MG ? J MG . ? B MG 102 ? 1_555 O ? M HOH . ? A HOH 218 ? 1_655 106.5 ? # 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 2018-08-08 2 'Structure model' 1 1 2018-10-24 # _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 ? # 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' 'Derived calculations' # 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' pdbx_struct_assembly 2 2 'Structure model' pdbx_struct_assembly_gen 3 2 'Structure model' pdbx_struct_oper_list # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0222 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? iMOSFLM ? ? ? 7.2.2 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.6.3 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? MOLREP ? ? ? 11.4.05 4 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 N1 D DT 6 ? ? C2 D DT 6 ? ? 1.434 1.376 0.058 0.008 N 2 1 C2 D DT 6 ? ? N3 D DT 6 ? ? 1.311 1.373 -0.062 0.008 N 3 1 C5 D DT 6 ? ? C6 D DT 6 ? ? 1.387 1.339 0.048 0.007 N 4 1 C6 D DT 6 ? ? N1 D DT 6 ? ? 1.318 1.378 -0.060 0.007 N 5 1 C2 B DT 6 ? ? N3 B DT 6 ? ? 1.323 1.373 -0.050 0.008 N 6 1 C4 B DT 6 ? ? C5 B DT 6 ? ? 1.506 1.445 0.061 0.009 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 N1 D DT 6 ? ? C2 D DT 6 ? ? O2 D DT 6 ? ? 117.83 123.10 -5.27 0.80 N 2 1 "O5'" C DA 2 ? ? "C5'" C DA 2 ? ? "C4'" C DA 2 ? ? 104.59 109.40 -4.81 0.80 N 3 1 "O5'" A DT 5 ? ? P A DT 5 ? ? OP2 A DT 5 ? ? 99.00 105.70 -6.70 0.90 N 4 1 "O4'" B DT 6 ? ? "C1'" B DT 6 ? ? "C2'" B DT 6 ? ? 111.26 106.80 4.46 0.50 N 5 1 C6 B DT 6 ? ? N1 B DT 6 ? ? C2 B DT 6 ? ? 116.73 121.30 -4.57 0.50 N 6 1 N1 B DT 6 ? ? C2 B DT 6 ? ? N3 B DT 6 ? ? 122.36 114.60 7.76 0.60 N 7 1 N1 B DT 6 ? ? C2 B DT 6 ? ? O2 B DT 6 ? ? 116.28 123.10 -6.82 0.80 N 8 1 N3 B DT 6 ? ? C4 B DT 6 ? ? O4 B DT 6 ? ? 124.33 119.90 4.43 0.60 N 9 1 C5 B DT 6 ? ? C4 B DT 6 ? ? O4 B DT 6 ? ? 118.94 124.90 -5.96 0.70 N # _pdbx_distant_solvent_atoms.id 1 _pdbx_distant_solvent_atoms.PDB_model_num 1 _pdbx_distant_solvent_atoms.auth_atom_id O _pdbx_distant_solvent_atoms.label_alt_id ? _pdbx_distant_solvent_atoms.auth_asym_id D _pdbx_distant_solvent_atoms.auth_comp_id HOH _pdbx_distant_solvent_atoms.auth_seq_id 220 _pdbx_distant_solvent_atoms.PDB_ins_code ? _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance . _pdbx_distant_solvent_atoms.neighbor_ligand_distance 5.91 # _ndb_struct_conf_na.entry_id 6GIM _ndb_struct_conf_na.feature 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 C DA 1 1_555 D DT 6 1_555 0.029 -0.135 -0.180 10.103 -13.229 0.566 1 A_DA1:DT6_B A 1 ? B 6 ? 20 1 1 C DA 2 1_555 D DT 5 1_555 0.091 -0.062 0.032 12.747 -9.196 0.627 2 A_DA2:DT5_B A 2 ? B 5 ? 20 1 1 C DA 3 1_555 D DT 4 1_555 0.142 -0.088 -0.068 7.519 -24.079 0.565 3 A_DA3:DT4_B A 3 ? B 4 ? 20 1 1 C DT 4 1_555 D DA 3 1_555 0.029 -0.096 -0.014 2.478 -19.982 9.110 4 A_DT4:DA3_B A 4 ? B 3 ? 20 1 1 C DT 5 1_555 D DA 2 1_555 -0.159 -0.092 -0.019 -3.092 -13.617 1.658 5 A_DT5:DA2_B A 5 ? B 2 ? 20 1 1 C DT 6 1_555 D DA 1 1_555 0.048 -0.116 0.010 11.787 -10.149 -0.353 6 A_DT6:DA1_B A 6 ? B 1 ? 20 1 1 B DA 1 1_555 B DT 6 2_655 0.029 -0.109 -0.097 8.783 -12.129 -0.164 7 C_DA1:DT6_C C 1 ? C 6 ? 20 1 1 B DA 2 1_555 B DT 5 2_655 0.176 -0.129 -0.060 10.002 -20.745 0.796 8 C_DA2:DT5_C C 2 ? C 5 ? 20 1 1 B DA 3 1_555 B DT 4 2_655 0.028 -0.102 -0.078 1.852 -21.428 5.431 9 C_DA3:DT4_C C 3 ? C 4 ? 20 1 1 B DT 4 1_555 B DA 3 2_655 -0.028 -0.102 -0.078 -1.852 -21.428 5.431 10 C_DT4:DA3_C C 4 ? C 3 ? 20 1 1 B DT 5 1_555 B DA 2 2_655 -0.176 -0.129 -0.060 -10.002 -20.745 0.796 11 C_DT5:DA2_C C 5 ? C 2 ? 20 1 1 B DT 6 1_555 B DA 1 2_655 -0.029 -0.109 -0.097 -8.783 -12.129 -0.164 12 C_DT6:DA1_C C 6 ? C 1 ? 20 1 1 A DA 1 1_555 A DT 6 2_556 -0.126 -0.136 -0.220 5.497 -13.779 2.961 13 D_DA1:DT6_D D 1 ? D 6 ? 20 1 1 A DA 2 1_555 A DT 5 2_556 0.201 -0.091 -0.009 7.264 -14.200 1.901 14 D_DA2:DT5_D D 2 ? D 5 ? 20 1 1 A DA 3 1_555 A DT 4 2_556 0.155 -0.125 0.052 2.480 -17.606 5.759 15 D_DA3:DT4_D D 3 ? D 4 ? 20 1 1 A DT 4 1_555 A DA 3 2_556 -0.155 -0.125 0.052 -2.480 -17.606 5.759 16 D_DT4:DA3_D D 4 ? D 3 ? 20 1 1 A DT 5 1_555 A DA 2 2_556 -0.201 -0.091 -0.009 -7.264 -14.200 1.901 17 D_DT5:DA2_D D 5 ? D 2 ? 20 1 1 A DT 6 1_555 A DA 1 2_556 0.126 -0.136 -0.220 -5.497 -13.779 2.961 18 D_DT6:DA1_D D 6 ? D 1 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 C DA 1 1_555 D DT 6 1_555 C DA 2 1_555 D DT 5 1_555 0.530 -0.171 3.183 -0.623 -0.533 33.199 -0.213 -1.028 3.175 -0.933 1.090 33.209 1 AA_DA1DA2:DT5DT6_BB A 1 ? B 6 ? A 2 ? B 5 ? 1 C DA 2 1_555 D DT 5 1_555 C DA 3 1_555 D DT 4 1_555 -0.765 0.095 3.349 -1.938 3.475 38.494 -0.296 0.910 3.377 5.254 2.930 38.691 2 AA_DA2DA3:DT4DT5_BB A 2 ? B 5 ? A 3 ? B 4 ? 1 C DA 3 1_555 D DT 4 1_555 C DT 4 1_555 D DA 3 1_555 0.816 -0.680 3.258 0.968 1.413 32.041 -1.483 -1.303 3.249 2.559 -1.752 32.085 3 AA_DA3DT4:DA3DT4_BB A 3 ? B 4 ? A 4 ? B 3 ? 1 C DT 4 1_555 D DA 3 1_555 C DT 5 1_555 D DA 2 1_555 0.093 -0.283 3.318 1.887 5.025 38.046 -1.062 0.096 3.257 7.662 -2.877 38.409 4 AA_DT4DT5:DA2DA3_BB A 4 ? B 3 ? A 5 ? B 2 ? 1 C DT 5 1_555 D DA 2 1_555 C DT 6 1_555 D DA 1 1_555 -0.229 -0.089 3.049 -2.846 5.559 34.476 -0.928 -0.020 3.007 9.286 4.753 35.020 5 AA_DT5DT6:DA1DA2_BB A 5 ? B 2 ? A 6 ? B 1 ? 1 B DA 1 1_555 B DT 6 2_655 B DA 2 1_555 B DT 5 2_655 -0.353 0.301 3.218 -0.526 1.599 37.374 0.263 0.483 3.232 2.494 0.820 37.411 6 CC_DA1DA2:DT5DT6_CC C 1 ? C 6 ? C 2 ? C 5 ? 1 B DA 2 1_555 B DT 5 2_655 B DA 3 1_555 B DT 4 2_655 0.273 -0.196 3.330 -0.820 4.299 37.678 -0.859 -0.527 3.282 6.629 1.265 37.922 7 CC_DA2DA3:DT4DT5_CC C 2 ? C 5 ? C 3 ? C 4 ? 1 B DA 3 1_555 B DT 4 2_655 B DT 4 1_555 B DA 3 2_655 0.000 -0.632 3.228 0.000 5.071 30.082 -2.183 0.000 3.082 9.683 0.000 30.497 8 CC_DA3DT4:DA3DT4_CC C 3 ? C 4 ? C 4 ? C 3 ? 1 B DT 4 1_555 B DA 3 2_655 B DT 5 1_555 B DA 2 2_655 -0.273 -0.196 3.330 0.820 4.299 37.678 -0.859 0.527 3.282 6.629 -1.265 37.922 9 CC_DT4DT5:DA2DA3_CC C 4 ? C 3 ? C 5 ? C 2 ? 1 B DT 5 1_555 B DA 2 2_655 B DT 6 1_555 B DA 1 2_655 0.353 0.301 3.218 0.526 1.599 37.374 0.263 -0.483 3.232 2.494 -0.820 37.411 10 CC_DT5DT6:DA1DA2_CC C 5 ? C 2 ? C 6 ? C 1 ? 1 A DA 1 1_555 A DT 6 2_556 A DA 2 1_555 A DT 5 2_556 0.239 -0.011 3.270 -0.788 2.660 32.868 -0.471 -0.554 3.253 4.691 1.390 32.982 11 DD_DA1DA2:DT5DT6_DD D 1 ? D 6 ? D 2 ? D 5 ? 1 A DA 2 1_555 A DT 5 2_556 A DA 3 1_555 A DT 4 2_556 0.169 -0.439 3.346 -0.961 2.239 37.081 -0.993 -0.396 3.309 3.516 1.509 37.158 12 DD_DA2DA3:DT4DT5_DD D 2 ? D 5 ? D 3 ? D 4 ? 1 A DA 3 1_555 A DT 4 2_556 A DT 4 1_555 A DA 3 2_556 0.000 -0.918 3.371 0.000 3.297 30.753 -2.370 0.000 3.257 6.194 0.000 30.925 13 DD_DA3DT4:DA3DT4_DD D 3 ? D 4 ? D 4 ? D 3 ? 1 A DT 4 1_555 A DA 3 2_556 A DT 5 1_555 A DA 2 2_556 -0.169 -0.439 3.346 0.961 2.239 37.081 -0.993 0.396 3.309 3.516 -1.509 37.158 14 DD_DT4DT5:DA2DA3_DD D 4 ? D 3 ? D 5 ? D 2 ? 1 A DT 5 1_555 A DA 2 2_556 A DT 6 1_555 A DA 1 2_556 -0.239 -0.011 3.270 0.788 2.660 32.868 -0.471 0.554 3.253 4.691 -1.390 32.982 15 DD_DT5DT6:DA1DA2_DD D 5 ? D 2 ? D 6 ? D 1 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Spanish Ministry of Economy and Competitiveness' Spain SAF2015-66690-R 1 'Spanish Ministry of Economy and Competitiveness' Spain BFU2009-10380 2 'Spanish Ministry of Economy and Competitiveness' Spain 'FPU12/04824, EST14/00449' 3 'Wellcome Trust' 'United Kingdom' 085349 4 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 '[4-[(3-chloranyl-4-imidazolidin-2-ylideneazaniumyl-phenyl)carbamoyl]phenyl]-imidazolidin-2-ylidene-azanium' EZK 3 'MAGNESIUM ION' MG 4 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'surface plasmon resonance' _pdbx_struct_assembly_auth_evidence.details ? #