data_3S80 # _entry.id 3S80 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.280 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3S80 NDB NA1158 RCSB RCSB065876 WWPDB D_1000065876 # _pdbx_database_PDB_obs_spr.id OBSLTE _pdbx_database_PDB_obs_spr.date 2017-03-08 _pdbx_database_PDB_obs_spr.pdb_id 4LTG _pdbx_database_PDB_obs_spr.replace_pdb_id 3S80 _pdbx_database_PDB_obs_spr.details ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3QRN 'The high resolution structure for the other crystal form' unspecified PDB 3QF8 'The medium resolution structure for the other crystal form' unspecified # _pdbx_database_status.status_code OBS _pdbx_database_status.entry_id 3S80 _pdbx_database_status.recvd_initial_deposition_date 2011-05-27 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf OBS _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _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 'Cardin, C.J.' 1 'Hall, J.P.' 2 # _citation.id primary _citation.title 'Base flipping in a crystal of Ru[TAP)2dppz)2+ bound to DNA' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Hall, J.P.' 1 primary ;O'Sullivan, K. ; 2 primary 'Naseer, A.' 3 primary 'Smith, J.' 4 primary 'Kelly, J.M.' 5 primary 'Cardin, C.J.' 6 # _cell.entry_id 3S80 _cell.length_a 44.348 _cell.length_b 44.348 _cell.length_c 27.203 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3S80 _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? # 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 "5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'" 3045.992 1 ? ? ? ? 2 non-polymer syn 'Ru(tap)2(dppz) complex' 747.732 1 ? ? ? ? 3 non-polymer syn 'BARIUM ION' 137.327 1 ? ? ? ? 4 non-polymer syn 'pyrazino[2,3-f]quinoxaline' 182.181 1 ? ? ? ? 5 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 6 water nat water 18.015 44 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DT)(DC)(DG)(DG)(DC)(DG)(DC)(DC)(DG)(DA)' _entity_poly.pdbx_seq_one_letter_code_can TCGGCGCCGA _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DC n 1 3 DG n 1 4 DG n 1 5 DC n 1 6 DG n 1 7 DC n 1 8 DC n 1 9 DG n 1 10 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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Synthesised by ATDBio (University of Southampton, UK)' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3S80 _struct_ref.pdbx_db_accession 3S80 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3S80 _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 10 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 3S80 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 10 _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 10 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 RKL non-polymer . 'Ru(tap)2(dppz) complex' ? 'C38 H22 N12 Ru 2' 747.732 RKT non-polymer . 'pyrazino[2,3-f]quinoxaline' ? 'C10 H6 N4' 182.181 # _exptl.entry_id 3S80 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.20 _exptl_crystal.density_percent_sol 43.98 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 278 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6 _exptl_crystal_grow.pdbx_details ;7.5% MPD, 30mM sodium cacodylate, 8mM spermine, 60mM sodium chloride, 10mM Barium chloride, 0.125mM DNA, 0.125M ruthenium complex (1) equilibrated against 35% MPD, VAPOR DIFFUSION, SITTING DROP, temperature 278K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 180 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'OXFORD SAPPHIRE CCD' _diffrn_detector.pdbx_collection_date 2011-01-14 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'SEALED TUBE' _diffrn_source.type 'OXFORD DIFFRACTION ENHANCE ULTRA' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 # _reflns.entry_id 3S80 _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 31.36 _reflns.d_resolution_high 1.92 _reflns.number_obs 1920 _reflns.number_all ? _reflns.percent_possible_obs 83.1 _reflns.pdbx_Rmerge_I_obs 0.106 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 13.5 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 9.9 _reflns.R_free_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.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.92 _reflns_shell.d_res_low 2.03 _reflns_shell.percent_possible_all 24.2 _reflns_shell.Rmerge_I_obs 0.424 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 1.3 _reflns_shell.pdbx_redundancy 1.3 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 73 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3S80 _refine.ls_number_reflns_obs 1849 _refine.ls_number_reflns_all 1933 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 14.78 _refine.ls_d_res_high 1.92 _refine.ls_percent_reflns_obs 84.41 _refine.ls_R_factor_obs 0.17710 _refine.ls_R_factor_all 0.1733 _refine.ls_R_factor_R_work 0.17327 _refine.ls_R_factor_R_free 0.26470 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.3 _refine.ls_number_reflns_R_free 84 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.953 _refine.correlation_coeff_Fo_to_Fc_free 0.866 _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free 0.225 _refine.overall_SU_ML 0.150 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 202 _refine_hist.pdbx_number_atoms_ligand 67 _refine_hist.number_atoms_solvent 44 _refine_hist.number_atoms_total 313 _refine_hist.d_res_high 1.92 _refine_hist.d_res_low 14.78 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id r_angle_refined_deg 1.9837 ? ? ? ? 'X-RAY DIFFRACTION' r_bond_refined_d 0.0128 ? ? ? ? 'X-RAY DIFFRACTION' r_chiral_restr 0.1356 ? ? ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.922 _refine_ls_shell.d_res_low 1.972 _refine_ls_shell.number_reflns_R_work 22 _refine_ls_shell.R_factor_R_work 0.350 _refine_ls_shell.percent_reflns_obs 14.72 _refine_ls_shell.R_factor_R_free 0.266 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 2 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 22 _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 3S80 _struct.title 'Crystal form 2 of a chiral ruthenium complex bound to DNA' _struct.pdbx_descriptor "5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'" _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3S80 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'Kinked DNA, intercalation, semi-intercalation, 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 4 ? E N N 5 ? F N N 6 ? # _struct_biol.id 1 _struct_biol.details ? # 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 ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 12 A HOH 36 1_555 ? ? ? ? ? ? ? 2.638 ? metalc2 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 12 A HOH 34 1_555 ? ? ? ? ? ? ? 2.642 ? metalc3 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 12 A HOH 28 1_555 ? ? ? ? ? ? ? 3.114 ? metalc4 metalc ? ? C BA . BA ? ? ? 1_555 E CL . CL ? ? A BA 12 A CL 13 1_555 ? ? ? ? ? ? ? 3.191 ? metalc5 metalc ? ? A DG 3 N7 ? ? ? 1_555 C BA . BA ? ? A DG 3 A BA 12 1_555 ? ? ? ? ? ? ? 3.011 ? metalc6 metalc ? ? A DG 4 O6 ? ? ? 1_555 C BA . BA ? ? A DG 4 A BA 12 1_555 ? ? ? ? ? ? ? 2.994 ? metalc7 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 12 A HOH 52 1_555 ? ? ? ? ? ? ? 3.067 ? metalc8 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 12 A HOH 33 1_555 ? ? ? ? ? ? ? 3.116 ? hydrog1 hydrog ? ? A DC 2 N3 ? ? ? 1_555 A DG 9 N1 ? ? A DC 2 A DG 9 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog2 hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DG 9 O6 ? ? A DC 2 A DG 9 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog3 hydrog ? ? A DC 2 O2 ? ? ? 1_555 A DG 9 N2 ? ? A DC 2 A DG 9 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog4 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog6 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC 7 N3 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC 7 O2 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC 7 N4 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog13 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog14 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog15 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog16 hydrog ? ? A DC 7 N3 ? ? ? 1_555 A DG 4 N1 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog17 hydrog ? ? A DC 7 N4 ? ? ? 1_555 A DG 4 O6 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog18 hydrog ? ? A DC 7 O2 ? ? ? 1_555 A DG 4 N2 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog19 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog20 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog21 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog22 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DC 2 N3 ? ? A DG 9 A DC 2 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog23 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DC 2 O2 ? ? A DG 9 A DC 2 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? hydrog24 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DC 2 N4 ? ? A DG 9 A DC 2 7_555 ? ? ? ? ? ? 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 ? ? ? ? 15 'BINDING SITE FOR RESIDUE RKL A 11' AC2 Software ? ? ? ? 8 'BINDING SITE FOR RESIDUE BA A 12' AC3 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE RKT A 50' AC4 Software ? ? ? ? 6 'BINDING SITE FOR RESIDUE CL A 13' # 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 15 DT A 1 ? DT A 1 . ? 5_655 ? 2 AC1 15 DC A 2 ? DC A 2 . ? 3_654 ? 3 AC1 15 DG A 3 ? DG A 3 . ? 3_654 ? 4 AC1 15 DG A 3 ? DG A 3 . ? 1_555 ? 5 AC1 15 DG A 4 ? DG A 4 . ? 1_555 ? 6 AC1 15 DC A 5 ? DC A 5 . ? 1_555 ? 7 AC1 15 DC A 7 ? DC A 7 . ? 7_555 ? 8 AC1 15 DC A 8 ? DC A 8 . ? 7_555 ? 9 AC1 15 DG A 9 ? DG A 9 . ? 5_654 ? 10 AC1 15 DA A 10 ? DA A 10 . ? 5_654 ? 11 AC1 15 DA A 10 ? DA A 10 . ? 8_674 ? 12 AC1 15 HOH F . ? HOH A 24 . ? 1_555 ? 13 AC1 15 HOH F . ? HOH A 31 . ? 1_555 ? 14 AC1 15 HOH F . ? HOH A 37 . ? 1_555 ? 15 AC1 15 HOH F . ? HOH A 38 . ? 1_555 ? 16 AC2 8 DG A 3 ? DG A 3 . ? 1_555 ? 17 AC2 8 DG A 4 ? DG A 4 . ? 1_555 ? 18 AC2 8 CL E . ? CL A 13 . ? 7_555 ? 19 AC2 8 CL E . ? CL A 13 . ? 1_555 ? 20 AC2 8 HOH F . ? HOH A 28 . ? 7_555 ? 21 AC2 8 HOH F . ? HOH A 34 . ? 1_555 ? 22 AC2 8 HOH F . ? HOH A 36 . ? 1_555 ? 23 AC2 8 HOH F . ? HOH A 52 . ? 1_555 ? 24 AC3 4 DC A 5 ? DC A 5 . ? 7_555 ? 25 AC3 4 DG A 6 ? DG A 6 . ? 7_555 ? 26 AC3 4 HOH F . ? HOH A 14 . ? 7_555 ? 27 AC3 4 HOH F . ? HOH A 30 . ? 1_555 ? 28 AC4 6 DG A 4 ? DG A 4 . ? 1_555 ? 29 AC4 6 DG A 4 ? DG A 4 . ? 7_555 ? 30 AC4 6 DC A 5 ? DC A 5 . ? 7_555 ? 31 AC4 6 DC A 5 ? DC A 5 . ? 1_555 ? 32 AC4 6 BA C . ? BA A 12 . ? 1_555 ? 33 AC4 6 BA C . ? BA A 12 . ? 7_555 ? # _database_PDB_matrix.entry_id 3S80 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3S80 _atom_sites.fract_transf_matrix[1][1] 0.022549 _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] 0.022549 _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] 0.036761 _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 BA C CL N O P RU # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DT 1 1 1 DT DT A . n A 1 2 DC 2 2 2 DC DC A . n A 1 3 DG 3 3 3 DG DG A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DC 5 5 5 DC DC A . n A 1 6 DG 6 6 6 DG DG A . n A 1 7 DC 7 7 7 DC DC A . n A 1 8 DC 8 8 8 DC DC A . n A 1 9 DG 9 9 9 DG DG A . n A 1 10 DA 10 10 10 DA DA A . 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 B 2 RKL 1 11 11 RKL RKL A . C 3 BA 1 12 12 BA BA A . D 4 RKT 1 50 50 RKT RKT A . E 5 CL 1 13 13 CL CL A . F 6 HOH 1 14 14 HOH HOH A . F 6 HOH 2 15 15 HOH HOH A . F 6 HOH 3 16 16 HOH HOH A . F 6 HOH 4 17 17 HOH HOH A . F 6 HOH 5 18 18 HOH HOH A . F 6 HOH 6 19 19 HOH HOH A . F 6 HOH 7 20 20 HOH HOH A . F 6 HOH 8 21 21 HOH HOH A . F 6 HOH 9 22 22 HOH HOH A . F 6 HOH 10 23 23 HOH HOH A . F 6 HOH 11 24 24 HOH HOH A . F 6 HOH 12 25 25 HOH HOH A . F 6 HOH 13 26 26 HOH HOH A . F 6 HOH 14 27 27 HOH HOH A . F 6 HOH 15 28 28 HOH HOH A . F 6 HOH 16 29 29 HOH HOH A . F 6 HOH 17 30 30 HOH HOH A . F 6 HOH 18 31 31 HOH HOH A . F 6 HOH 19 32 32 HOH HOH A . F 6 HOH 20 33 33 HOH HOH A . F 6 HOH 21 34 34 HOH HOH A . F 6 HOH 22 35 35 HOH HOH A . F 6 HOH 23 36 36 HOH HOH A . F 6 HOH 24 37 37 HOH HOH A . F 6 HOH 25 38 38 HOH HOH A . F 6 HOH 26 39 39 HOH HOH A . F 6 HOH 27 40 40 HOH HOH A . F 6 HOH 28 41 41 HOH HOH A . F 6 HOH 29 42 42 HOH HOH A . F 6 HOH 30 43 43 HOH HOH A . F 6 HOH 31 44 44 HOH HOH A . F 6 HOH 32 45 45 HOH HOH A . F 6 HOH 33 46 46 HOH HOH A . F 6 HOH 34 47 47 HOH HOH A . F 6 HOH 35 48 48 HOH HOH A . F 6 HOH 36 49 49 HOH HOH A . F 6 HOH 37 51 51 HOH HOH A . F 6 HOH 38 52 52 HOH HOH A . F 6 HOH 39 53 53 HOH HOH A . F 6 HOH 40 54 54 HOH HOH A . F 6 HOH 41 55 55 HOH HOH A . F 6 HOH 42 56 56 HOH HOH A . F 6 HOH 43 57 57 HOH HOH A . F 6 HOH 44 58 58 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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # 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)' 820 ? 1 MORE -7 ? 1 'SSA (A^2)' 4440 ? # 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' 7_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 CL _pdbx_struct_special_symmetry.auth_seq_id 13 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id E _pdbx_struct_special_symmetry.label_comp_id CL _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 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 34 ? 1_555 127.4 ? 2 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 28 ? 1_555 66.1 ? 3 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 28 ? 1_555 80.5 ? 4 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 CL ? E CL . ? A CL 13 ? 1_555 68.5 ? 5 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 CL ? E CL . ? A CL 13 ? 1_555 133.7 ? 6 O ? F HOH . ? A HOH 28 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 CL ? E CL . ? A CL 13 ? 1_555 67.4 ? 7 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 N7 ? A DG 3 ? A DG 3 ? 1_555 138.0 ? 8 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 N7 ? A DG 3 ? A DG 3 ? 1_555 68.5 ? 9 O ? F HOH . ? A HOH 28 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 N7 ? A DG 3 ? A DG 3 ? 1_555 148.7 ? 10 CL ? E CL . ? A CL 13 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 N7 ? A DG 3 ? A DG 3 ? 1_555 133.1 ? 11 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 70.7 ? 12 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 134.0 ? 13 O ? F HOH . ? A HOH 28 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 136.3 ? 14 CL ? E CL . ? A CL 13 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 91.3 ? 15 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 73.1 ? 16 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 80.5 ? 17 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 69.6 ? 18 O ? F HOH . ? A HOH 28 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 104.3 ? 19 CL ? E CL . ? A CL 13 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 148.7 ? 20 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 69.6 ? 21 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 52 ? 1_555 74.0 ? 22 O ? F HOH . ? A HOH 36 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 138.4 ? 23 O ? F HOH . ? A HOH 34 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 69.2 ? 24 O ? F HOH . ? A HOH 28 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 83.0 ? 25 CL ? E CL . ? A CL 13 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 74.4 ? 26 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 82.0 ? 27 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 129.2 ? 28 O ? F HOH . ? A HOH 52 ? 1_555 BA ? C BA . ? A BA 12 ? 1_555 O ? F HOH . ? A HOH 33 ? 1_555 136.1 ? # 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 2012-05-30 2 'Structure model' 1 1 2017-03-08 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description 1 1 'Structure model' repository 'Initial release' ? 2 2 'Structure model' repository Obsolete ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group Other # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 36.610 _pdbx_refine_tls.origin_y 34.301 _pdbx_refine_tls.origin_z -3.768 _pdbx_refine_tls.T[1][1] 0.1432 _pdbx_refine_tls.T[2][2] 0.1677 _pdbx_refine_tls.T[3][3] 0.1579 _pdbx_refine_tls.T[1][2] -0.0125 _pdbx_refine_tls.T[1][3] 0.0044 _pdbx_refine_tls.T[2][3] -0.0020 _pdbx_refine_tls.L[1][1] 0.7207 _pdbx_refine_tls.L[2][2] 1.6300 _pdbx_refine_tls.L[3][3] 1.1864 _pdbx_refine_tls.L[1][2] -0.9166 _pdbx_refine_tls.L[1][3] 0.1689 _pdbx_refine_tls.L[2][3] 0.6118 _pdbx_refine_tls.S[1][1] 0.0572 _pdbx_refine_tls.S[1][2] 0.0350 _pdbx_refine_tls.S[1][3] -0.0237 _pdbx_refine_tls.S[2][1] -0.1710 _pdbx_refine_tls.S[2][2] -0.0600 _pdbx_refine_tls.S[2][3] 0.0503 _pdbx_refine_tls.S[3][1] -0.1328 _pdbx_refine_tls.S[3][2] -0.1686 _pdbx_refine_tls.S[3][3] 0.0028 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 1 _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 10 _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.selection_details ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CrysalisPro 'data collection' . ? 1 Shelxc/d/e 'model building' . ? 2 REFMAC refinement 5.5.0110 ? 3 CrysalisPro 'data reduction' . ? 4 SCALA 'data scaling' . ? 5 Shelxc/d/e phasing . ? 6 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 24 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 45 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 1.99 # 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 "C3'" A DT 1 ? ? "C2'" A DT 1 ? ? "C1'" A DT 1 ? ? 97.12 102.40 -5.28 0.80 N 2 1 "O4'" A DT 1 ? ? "C1'" A DT 1 ? ? N1 A DT 1 ? ? 101.75 108.00 -6.25 0.70 N 3 1 "O5'" A DG 6 ? ? P A DG 6 ? ? OP2 A DG 6 ? ? 99.94 105.70 -5.76 0.90 N 4 1 C5 A DG 6 ? ? C6 A DG 6 ? ? O6 A DG 6 ? ? 124.59 128.60 -4.01 0.60 N 5 1 "O4'" A DC 7 ? ? "C4'" A DC 7 ? ? "C3'" A DC 7 ? ? 99.63 104.50 -4.87 0.40 N 6 1 "O4'" A DG 9 ? ? "C1'" A DG 9 ? ? N9 A DG 9 ? ? 112.05 108.30 3.75 0.30 N 7 1 "O4'" A DA 10 ? ? "C1'" A DA 10 ? ? N9 A DA 10 ? ? 111.45 108.30 3.15 0.30 N # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3S80 'double helix' 3S80 '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 A DC 2 1_555 A DG 9 7_555 0.067 -0.241 -0.173 -5.484 1.776 -2.884 1 A_DC2:DG9_A A 2 ? A 9 ? 19 1 1 A DG 3 1_555 A DC 8 7_555 -0.440 -0.011 0.505 26.089 -6.185 -0.026 2 A_DG3:DC8_A A 3 ? A 8 ? 19 1 1 A DG 4 1_555 A DC 7 7_555 -0.475 -0.231 -0.030 -0.926 7.493 -1.320 3 A_DG4:DC7_A A 4 ? A 7 ? 19 1 1 A DC 5 1_555 A DG 6 7_555 0.181 -0.164 -0.300 16.993 -6.804 -1.207 4 A_DC5:DG6_A A 5 ? A 6 ? 19 1 1 A DG 6 1_555 A DC 5 7_555 -0.181 -0.164 -0.300 -16.993 -6.804 -1.207 5 A_DG6:DC5_A A 6 ? A 5 ? 19 1 1 A DC 7 1_555 A DG 4 7_555 0.475 -0.231 -0.030 0.926 7.493 -1.320 6 A_DC7:DG4_A A 7 ? A 4 ? 19 1 1 A DC 8 1_555 A DG 3 7_555 0.440 -0.011 0.505 -26.089 -6.185 -0.026 7 A_DC8:DG3_A A 8 ? A 3 ? 19 1 1 A DG 9 1_555 A DC 2 7_555 -0.067 -0.241 -0.173 5.484 1.776 -2.884 8 A_DG9:DC2_A A 9 ? A 2 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 2 1_555 A DG 9 7_555 A DG 3 1_555 A DC 8 7_555 0.073 1.528 2.743 -3.762 6.236 23.232 1.865 -1.234 2.996 15.018 9.059 24.332 1 AA_DC2DG3:DC8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ? 1 A DG 3 1_555 A DC 8 7_555 A DG 4 1_555 A DC 7 7_555 -0.438 0.397 4.991 0.009 47.680 20.661 -5.028 0.503 2.414 67.912 -0.013 51.723 2 AA_DG3DG4:DC7DC8_AA A 3 ? A 8 ? A 4 ? A 7 ? 1 A DG 4 1_555 A DC 7 7_555 A DC 5 1_555 A DG 6 7_555 -1.050 0.090 2.841 2.109 2.071 35.424 -0.112 1.984 2.777 3.397 -3.459 35.543 3 AA_DG4DC5:DG6DC7_AA A 4 ? A 7 ? A 5 ? A 6 ? 1 A DC 5 1_555 A DG 6 7_555 A DG 6 1_555 A DC 5 7_555 0.000 1.845 5.076 0.000 55.806 13.183 -4.684 0.000 3.008 77.769 0.000 57.220 4 AA_DC5DG6:DC5DG6_AA A 5 ? A 6 ? A 6 ? A 5 ? 1 A DG 6 1_555 A DC 5 7_555 A DC 7 1_555 A DG 4 7_555 1.050 0.090 2.841 -2.109 2.071 35.424 -0.112 -1.984 2.777 3.396 3.459 35.543 5 AA_DG6DC7:DG4DC5_AA A 6 ? A 5 ? A 7 ? A 4 ? 1 A DC 7 1_555 A DG 4 7_555 A DC 8 1_555 A DG 3 7_555 0.438 0.397 4.991 -0.009 47.680 20.661 -5.028 -0.503 2.414 67.912 0.013 51.723 6 AA_DC7DC8:DG3DG4_AA A 7 ? A 4 ? A 8 ? A 3 ? 1 A DC 8 1_555 A DG 3 7_555 A DG 9 1_555 A DC 2 7_555 -0.073 1.528 2.743 3.762 6.236 23.232 1.865 1.234 2.996 15.018 -9.059 24.332 7 AA_DC8DG9:DC2DG3_AA A 8 ? A 3 ? A 9 ? A 2 ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'Ru(tap)2(dppz) complex' RKL 3 'BARIUM ION' BA 4 'pyrazino[2,3-f]quinoxaline' RKT 5 'CHLORIDE ION' CL 6 water HOH #