data_4QIO # _entry.id 4QIO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 4QIO pdb_00004qio 10.2210/pdb4qio/pdb NDB NA3040 ? ? RCSB RCSB086103 ? ? WWPDB D_1000086103 ? ? # 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 2015-06-03 2 'Structure model' 1 1 2017-07-19 3 'Structure model' 1 2 2022-08-24 4 'Structure model' 1 3 2024-02-28 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _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' Advisory 2 2 'Structure model' 'Database references' 3 3 'Structure model' Advisory 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Data collection' # 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' citation 2 2 'Structure model' citation_author 3 2 'Structure model' pdbx_unobs_or_zero_occ_atoms 4 3 'Structure model' citation 5 3 'Structure model' citation_author 6 3 'Structure model' database_2 7 3 'Structure model' pdbx_struct_conn_angle 8 3 'Structure model' pdbx_unobs_or_zero_occ_atoms 9 3 'Structure model' struct_conn 10 3 'Structure model' struct_site 11 4 'Structure model' chem_comp_atom 12 4 'Structure model' chem_comp_bond # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.pdbx_database_id_DOI' 6 2 'Structure model' '_citation.pdbx_database_id_PubMed' 7 2 'Structure model' '_citation.title' 8 2 'Structure model' '_citation.year' 9 2 'Structure model' '_citation_author.name' 10 3 'Structure model' '_citation.journal_id_ISSN' 11 3 'Structure model' '_citation.journal_volume' 12 3 'Structure model' '_citation.page_first' 13 3 'Structure model' '_citation.page_last' 14 3 'Structure model' '_citation.title' 15 3 'Structure model' '_citation_author.identifier_ORCID' 16 3 'Structure model' '_database_2.pdbx_DOI' 17 3 'Structure model' '_database_2.pdbx_database_accession' 18 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 19 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 20 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 21 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 22 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 23 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 24 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 25 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 26 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 27 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 28 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 29 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 30 3 'Structure model' '_pdbx_struct_conn_angle.value' 31 3 'Structure model' '_struct_conn.pdbx_dist_value' 32 3 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 33 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 34 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 35 3 'Structure model' '_struct_conn.ptnr1_label_atom_id' 36 3 'Structure model' '_struct_conn.ptnr1_label_comp_id' 37 3 'Structure model' '_struct_conn.ptnr1_label_seq_id' 38 3 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 39 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 40 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 41 3 'Structure model' '_struct_conn.ptnr2_label_atom_id' 42 3 'Structure model' '_struct_conn.ptnr2_label_comp_id' 43 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 44 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 45 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4QIO _pdbx_database_status.recvd_initial_deposition_date 2014-06-01 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _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 _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3QRN _pdbx_database_related.details 'Lambda-[Ru(TAP)2(dppz)]2+ bound to d(TCGGCGCCGA) at high resolution' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Gurung, S.P.' 1 'Hall, J.P.' 2 'Cardin, C.J.' 3 # _citation.id primary _citation.title ;Inosine Can Increase DNA's Susceptibility to Photo-oxidation by a Ru II Complex due to Structural Change in the Minor Groove. ; _citation.journal_abbrev Chemistry _citation.journal_volume 23 _citation.page_first 10344 _citation.page_last 10351 _citation.year 2017 _citation.journal_id_ASTM ? _citation.country GE _citation.journal_id_ISSN 0947-6539 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 28543779 _citation.pdbx_database_id_DOI 10.1002/chem.201701447 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Keane, P.M.' 1 0000-0003-2828-8512 primary 'Hall, J.P.' 2 ? primary 'Poynton, F.E.' 3 ? primary 'Poulsen, B.C.' 4 ? primary 'Gurung, S.P.' 5 ? primary 'Clark, I.P.' 6 ? primary 'Sazanovich, I.V.' 7 ? primary 'Towrie, M.' 8 ? primary 'Gunnlaugsson, T.' 9 0000-0003-4814-6853 primary 'Quinn, S.J.' 10 0000-0002-7773-8842 primary 'Cardin, C.J.' 11 0000-0002-2556-9995 primary 'Kelly, J.M.' 12 0000-0002-3706-1777 # 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*IP*A)-3'" 3030.979 1 ? ? ? ? 2 non-polymer syn 'BARIUM ION' 137.327 1 ? ? ? ? 3 non-polymer syn 'Ru(tap)2(dppz) complex' 747.732 1 ? ? ? ? 4 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 5 water nat water 18.015 80 ? ? ? ? # _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)(DI)(DA)' _entity_poly.pdbx_seq_one_letter_code_can TCGGCGCCIA _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'BARIUM ION' BA 3 'Ru(tap)2(dppz) complex' RKL 4 'CHLORIDE ION' CL 5 water HOH # 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 DI n 1 10 DA n # 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 DI 'DNA linking' y "2'-DEOXYINOSINE-5'-MONOPHOSPHATE" ? 'C10 H13 N4 O7 P' 332.207 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 # 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 DI 9 9 9 DI DI 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 BA 1 101 12 BA BA A . C 3 RKL 1 102 2 RKL RKL A . D 4 CL 1 103 1 CL CL A . E 5 HOH 1 201 3 HOH HOH A . E 5 HOH 2 202 4 HOH HOH A . E 5 HOH 3 203 5 HOH HOH A . E 5 HOH 4 204 6 HOH HOH A . E 5 HOH 5 205 7 HOH HOH A . E 5 HOH 6 206 8 HOH HOH A . E 5 HOH 7 207 9 HOH HOH A . E 5 HOH 8 208 10 HOH HOH A . E 5 HOH 9 209 11 HOH HOH A . E 5 HOH 10 210 12 HOH HOH A . E 5 HOH 11 211 13 HOH HOH A . E 5 HOH 12 212 14 HOH HOH A . E 5 HOH 13 213 15 HOH HOH A . E 5 HOH 14 214 16 HOH HOH A . E 5 HOH 15 215 17 HOH HOH A . E 5 HOH 16 216 18 HOH HOH A . E 5 HOH 17 217 19 HOH HOH A . E 5 HOH 18 218 20 HOH HOH A . E 5 HOH 19 219 21 HOH HOH A . E 5 HOH 20 220 22 HOH HOH A . E 5 HOH 21 221 23 HOH HOH A . E 5 HOH 22 222 25 HOH HOH A . E 5 HOH 23 223 26 HOH HOH A . E 5 HOH 24 224 27 HOH HOH A . E 5 HOH 25 225 28 HOH HOH A . E 5 HOH 26 226 29 HOH HOH A . E 5 HOH 27 227 30 HOH HOH A . E 5 HOH 28 228 31 HOH HOH A . E 5 HOH 29 229 32 HOH HOH A . E 5 HOH 30 230 33 HOH HOH A . E 5 HOH 31 231 34 HOH HOH A . E 5 HOH 32 232 35 HOH HOH A . E 5 HOH 33 233 36 HOH HOH A . E 5 HOH 34 234 37 HOH HOH A . E 5 HOH 35 235 38 HOH HOH A . E 5 HOH 36 236 39 HOH HOH A . E 5 HOH 37 237 40 HOH HOH A . E 5 HOH 38 238 41 HOH HOH A . E 5 HOH 39 239 42 HOH HOH A . E 5 HOH 40 240 43 HOH HOH A . E 5 HOH 41 241 45 HOH HOH A . E 5 HOH 42 242 46 HOH HOH A . E 5 HOH 43 243 47 HOH HOH A . E 5 HOH 44 244 48 HOH HOH A . E 5 HOH 45 245 49 HOH HOH A . E 5 HOH 46 246 50 HOH HOH A . E 5 HOH 47 247 51 HOH HOH A . E 5 HOH 48 248 52 HOH HOH A . E 5 HOH 49 249 53 HOH HOH A . E 5 HOH 50 250 54 HOH HOH A . E 5 HOH 51 251 55 HOH HOH A . E 5 HOH 52 252 56 HOH HOH A . E 5 HOH 53 253 57 HOH HOH A . E 5 HOH 54 254 59 HOH HOH A . E 5 HOH 55 255 60 HOH HOH A . E 5 HOH 56 256 61 HOH HOH A . E 5 HOH 57 257 62 HOH HOH A . E 5 HOH 58 258 63 HOH HOH A . E 5 HOH 59 259 64 HOH HOH A . E 5 HOH 60 260 65 HOH HOH A . E 5 HOH 61 261 66 HOH HOH A . E 5 HOH 62 262 70 HOH HOH A . E 5 HOH 63 263 71 HOH HOH A . E 5 HOH 64 264 72 HOH HOH A . E 5 HOH 65 265 73 HOH HOH A . E 5 HOH 66 266 75 HOH HOH A . E 5 HOH 67 267 76 HOH HOH A . E 5 HOH 68 268 77 HOH HOH A . E 5 HOH 69 269 78 HOH HOH A . E 5 HOH 70 270 79 HOH HOH A . E 5 HOH 71 271 80 HOH HOH A . E 5 HOH 72 272 81 HOH HOH A . E 5 HOH 73 273 82 HOH HOH A . E 5 HOH 74 274 84 HOH HOH A . E 5 HOH 75 275 85 HOH HOH A . E 5 HOH 76 276 87 HOH HOH A . E 5 HOH 77 277 89 HOH HOH A . E 5 HOH 78 278 91 HOH HOH A . E 5 HOH 79 279 92 HOH HOH A . E 5 HOH 80 280 93 HOH HOH A . # _pdbx_unobs_or_zero_occ_atoms.id 1 _pdbx_unobs_or_zero_occ_atoms.PDB_model_num 1 _pdbx_unobs_or_zero_occ_atoms.polymer_flag N _pdbx_unobs_or_zero_occ_atoms.occupancy_flag 0 _pdbx_unobs_or_zero_occ_atoms.auth_asym_id A _pdbx_unobs_or_zero_occ_atoms.auth_comp_id HOH _pdbx_unobs_or_zero_occ_atoms.auth_seq_id 255 _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code ? _pdbx_unobs_or_zero_occ_atoms.auth_atom_id O _pdbx_unobs_or_zero_occ_atoms.label_alt_id A _pdbx_unobs_or_zero_occ_atoms.label_asym_id E _pdbx_unobs_or_zero_occ_atoms.label_comp_id HOH _pdbx_unobs_or_zero_occ_atoms.label_seq_id ? _pdbx_unobs_or_zero_occ_atoms.label_atom_id O # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal GDA 'data collection' . ? 1 PHASER phasing . ? 2 REFMAC refinement 5.8.0071 ? 3 XDS 'data reduction' . ? 4 SCALA 'data scaling' . ? 5 # _cell.entry_id 4QIO _cell.length_a 42.160 _cell.length_b 42.160 _cell.length_c 39.650 _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 4QIO _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 ? # _exptl.entry_id 4QIO _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.91 _exptl_crystal.density_percent_sol 57.68 _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 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;1 uL 1 mM d(TCGGCGCCIA)2 + 1 uL 4 mM rac-Ru(TAP)2(dppz).2Cl + 6uL 40 mM sodium cacodylate, 12 mM spermine, 10% MPD, 20 mM barium chloride, 80 mM potassium chloride equilibrated against 1 mL 35% MPD, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.pdbx_collection_date 2014-02-17 _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 'double crystal Si(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.82565 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'DIAMOND BEAMLINE I02' _diffrn_source.pdbx_synchrotron_site Diamond _diffrn_source.pdbx_synchrotron_beamline I02 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.82565 # _reflns.entry_id 4QIO _reflns.observed_criterion_sigma_I -3 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 23.828 _reflns.d_resolution_high 0.95 _reflns.number_obs 22994 _reflns.number_all 22994 _reflns.percent_possible_obs 99.5 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _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 0.95 _reflns_shell.d_res_low 0.97 _reflns_shell.percent_possible_all 98.9 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 4QIO _refine.ls_number_reflns_obs 21791 _refine.ls_number_reflns_all 21791 _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 23.828 _refine.ls_d_res_high 0.95 _refine.ls_percent_reflns_obs 99.29 _refine.ls_R_factor_obs 0.09655 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.09538 _refine.ls_R_factor_R_free 0.11928 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 1179 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.988 _refine.correlation_coeff_Fo_to_Fc_free 0.982 _refine.B_iso_mean 15.591 _refine.aniso_B[1][1] -0.26 _refine.aniso_B[2][2] -0.26 _refine.aniso_B[3][3] 0.52 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] -0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _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_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'PDB ENTRY 3QRN' _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 0.013 _refine.pdbx_overall_ESU_R_Free 0.015 _refine.overall_SU_ML 0.009 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 0.385 _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_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 201 _refine_hist.pdbx_number_atoms_ligand 53 _refine_hist.number_atoms_solvent 80 _refine_hist.number_atoms_total 334 _refine_hist.d_res_high 0.95 _refine_hist.d_res_low 23.828 # 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_bond_refined_d 0.021 0.014 ? 337 ? 'X-RAY DIFFRACTION' r_bond_other_d 0.002 0.020 ? 156 ? 'X-RAY DIFFRACTION' r_angle_refined_deg 3.084 1.773 ? 528 ? 'X-RAY DIFFRACTION' r_angle_other_deg 1.570 3.000 ? 360 ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg ? ? ? ? ? 'X-RAY DIFFRACTION' r_chiral_restr 0.096 0.200 ? 36 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.039 0.020 ? 197 ? 'X-RAY DIFFRACTION' r_gen_planes_other 0.008 0.020 ? 84 ? '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' r_scbond_it 2.583 1.355 ? 337 ? 'X-RAY DIFFRACTION' r_scbond_other 2.579 1.355 ? 338 ? 'X-RAY DIFFRACTION' r_scangle_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_scangle_other 3.555 2.011 ? 529 ? 'X-RAY DIFFRACTION' r_long_range_B_refined 4.599 14.783 ? 750 ? 'X-RAY DIFFRACTION' r_long_range_B_other 3.833 14.136 ? 705 ? 'X-RAY DIFFRACTION' r_rigid_bond_restr 9.069 3.000 ? 492 ? 'X-RAY DIFFRACTION' r_sphericity_free 20.959 5.000 ? 9 ? 'X-RAY DIFFRACTION' r_sphericity_bonded 15.046 5.000 ? 525 ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 0.950 _refine_ls_shell.d_res_low 0.975 _refine_ls_shell.number_reflns_R_work 1578 _refine_ls_shell.R_factor_R_work 0.175 _refine_ls_shell.percent_reflns_obs 98.58 _refine_ls_shell.R_factor_R_free 0.182 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 84 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 4QIO _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 # _struct.entry_id 4QIO _struct.title 'Lambda-[Ru(TAP)2(dppz)]2+ bound to d(TCGGCGCCIA) at high resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4QIO _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'intercalation, ruthenium complex, inosine, 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 4QIO _struct_ref.pdbx_db_accession 4QIO _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_seq_one_letter_code TCGGCGCCIA _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4QIO _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 4QIO _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 # _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 # 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)' 2130 ? 1 MORE -38 ? 1 'SSA (A^2)' 4570 ? # _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 # 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 # _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 _struct_conn.pdbx_role metalc1 metalc ? ? A DG 4 O6 ? ? ? 1_555 B BA . BA ? ? A DG 4 A BA 101 1_555 ? ? ? ? ? ? ? 2.851 ? ? metalc2 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 201 1_555 ? ? ? ? ? ? ? 2.794 ? ? metalc3 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 202 1_555 ? ? ? ? ? ? ? 2.782 ? ? metalc4 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 203 1_555 ? ? ? ? ? ? ? 2.776 ? ? metalc5 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 204 1_555 ? ? ? ? ? ? ? 2.829 ? ? metalc6 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 211 1_555 ? ? ? ? ? ? ? 2.851 ? ? metalc7 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 279 1_555 ? ? ? ? ? ? ? 2.786 ? ? hydrog1 hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DI 9 O6 A ? A DC 2 A DI 9 7_555 ? ? ? ? ? ? 'DC-DI PAIR' ? ? ? hydrog2 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 3 A DC 8 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC 7 N3 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC 7 O2 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC 7 N4 ? ? A DG 4 A DC 7 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 5 A DG 6 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 6 A DC 5 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DC 7 N3 ? ? ? 1_555 A DG 4 N1 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 7 N4 ? ? ? 1_555 A DG 4 O6 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 7 O2 ? ? ? 1_555 A DG 4 N2 ? ? A DC 7 A DG 4 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 8 A DG 3 7_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DI 9 N1 A ? ? 1_555 A DC 2 O2 ? ? A DI 9 A DC 2 7_555 ? ? ? ? ? ? 'DI-DC PAIR' ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 201 ? 1_555 138.9 ? 2 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 126.7 ? 3 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 67.0 ? 4 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 70.5 ? 5 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 78.3 ? 6 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 140.6 ? 7 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 204 ? 1_555 64.0 ? 8 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 204 ? 1_555 137.6 ? 9 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 204 ? 1_555 136.2 ? 10 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 204 ? 1_555 82.5 ? 11 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 211 ? 1_555 123.5 ? 12 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 211 ? 1_555 70.7 ? 13 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 211 ? 1_555 108.3 ? 14 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 211 ? 1_555 75.4 ? 15 O ? E HOH . ? A HOH 204 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 211 ? 1_555 68.1 ? 16 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 109.5 ? 17 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 111.1 ? 18 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 65.8 ? 19 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 148.9 ? 20 O ? E HOH . ? A HOH 204 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 70.8 ? 21 O ? E HOH . ? A HOH 211 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 279 ? 1_555 79.9 ? # 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 A BA 101 ? 8 'BINDING SITE FOR RESIDUE BA A 101' AC2 Software A RKL 102 ? 15 'BINDING SITE FOR RESIDUE RKL A 102' AC3 Software A CL 103 ? 4 'BINDING SITE FOR RESIDUE CL A 103' # 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 8 DG A 3 ? DG A 3 . ? 1_555 ? 2 AC1 8 DG A 4 ? DG A 4 . ? 1_555 ? 3 AC1 8 HOH E . ? HOH A 201 . ? 1_555 ? 4 AC1 8 HOH E . ? HOH A 202 . ? 1_555 ? 5 AC1 8 HOH E . ? HOH A 203 . ? 1_555 ? 6 AC1 8 HOH E . ? HOH A 204 . ? 1_555 ? 7 AC1 8 HOH E . ? HOH A 211 . ? 1_555 ? 8 AC1 8 HOH E . ? HOH A 279 . ? 1_555 ? 9 AC2 15 DT A 1 ? DT A 1 . ? 7_555 ? 10 AC2 15 DC A 2 ? DC A 2 . ? 7_555 ? 11 AC2 15 DG A 3 ? DG A 3 . ? 7_555 ? 12 AC2 15 DG A 3 ? DG A 3 . ? 5_444 ? 13 AC2 15 DG A 4 ? DG A 4 . ? 5_444 ? 14 AC2 15 DC A 5 ? DC A 5 . ? 5_444 ? 15 AC2 15 DC A 7 ? DC A 7 . ? 3_444 ? 16 AC2 15 DC A 8 ? DC A 8 . ? 3_444 ? 17 AC2 15 DI A 9 ? DI A 9 . ? 1_555 ? 18 AC2 15 DA A 10 ? DA A 10 . ? 3_444 ? 19 AC2 15 DA A 10 ? DA A 10 . ? 1_555 ? 20 AC2 15 CL D . ? CL A 103 . ? 5_444 ? 21 AC2 15 HOH E . ? HOH A 223 . ? 1_555 ? 22 AC2 15 HOH E . ? HOH A 262 . ? 7_555 ? 23 AC2 15 HOH E . ? HOH A 262 . ? 5_444 ? 24 AC3 4 DG A 4 ? DG A 4 . ? 1_555 ? 25 AC3 4 DC A 5 ? DC A 5 . ? 1_555 ? 26 AC3 4 RKL C . ? RKL A 102 . ? 5_454 ? 27 AC3 4 HOH E . ? HOH A 206 . ? 5_454 ? # 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 DC 8 ? ? "O3'" A DC 8 ? ? P A DI 9 ? A 127.87 119.70 8.17 1.20 Y 2 1 "O5'" A DA 10 ? A P A DA 10 ? A OP1 A DA 10 ? A 95.88 105.70 -9.82 0.90 N 3 1 "O5'" A DA 10 ? B P A DA 10 ? B OP1 A DA 10 ? B 99.14 105.70 -6.56 0.90 N # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id DC _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 5 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.117 _pdbx_validate_planes.type 'SIDE CHAIN' # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal BA BA BA N N 1 CL CL CL N N 2 DA OP3 O N N 3 DA P P N N 4 DA OP1 O N N 5 DA OP2 O N N 6 DA "O5'" O N N 7 DA "C5'" C N N 8 DA "C4'" C N R 9 DA "O4'" O N N 10 DA "C3'" C N S 11 DA "O3'" O N N 12 DA "C2'" C N N 13 DA "C1'" C N R 14 DA N9 N Y N 15 DA C8 C Y N 16 DA N7 N Y N 17 DA C5 C Y N 18 DA C6 C Y N 19 DA N6 N N N 20 DA N1 N Y N 21 DA C2 C Y N 22 DA N3 N Y N 23 DA C4 C Y N 24 DA HOP3 H N N 25 DA HOP2 H N N 26 DA "H5'" H N N 27 DA "H5''" H N N 28 DA "H4'" H N N 29 DA "H3'" H N N 30 DA "HO3'" H N N 31 DA "H2'" H N N 32 DA "H2''" H N N 33 DA "H1'" H N N 34 DA H8 H N N 35 DA H61 H N N 36 DA H62 H N N 37 DA H2 H N N 38 DC OP3 O N N 39 DC P P N N 40 DC OP1 O N N 41 DC OP2 O N N 42 DC "O5'" O N N 43 DC "C5'" C N N 44 DC "C4'" C N R 45 DC "O4'" O N N 46 DC "C3'" C N S 47 DC "O3'" O N N 48 DC "C2'" C N N 49 DC "C1'" C N R 50 DC N1 N N N 51 DC C2 C N N 52 DC O2 O N N 53 DC N3 N N N 54 DC C4 C N N 55 DC N4 N N N 56 DC C5 C N N 57 DC C6 C N N 58 DC HOP3 H N N 59 DC HOP2 H N N 60 DC "H5'" H N N 61 DC "H5''" H N N 62 DC "H4'" H N N 63 DC "H3'" H N N 64 DC "HO3'" H N N 65 DC "H2'" H N N 66 DC "H2''" H N N 67 DC "H1'" H N N 68 DC H41 H N N 69 DC H42 H N N 70 DC H5 H N N 71 DC H6 H N N 72 DG OP3 O N N 73 DG P P N N 74 DG OP1 O N N 75 DG OP2 O N N 76 DG "O5'" O N N 77 DG "C5'" C N N 78 DG "C4'" C N R 79 DG "O4'" O N N 80 DG "C3'" C N S 81 DG "O3'" O N N 82 DG "C2'" C N N 83 DG "C1'" C N R 84 DG N9 N Y N 85 DG C8 C Y N 86 DG N7 N Y N 87 DG C5 C Y N 88 DG C6 C N N 89 DG O6 O N N 90 DG N1 N N N 91 DG C2 C N N 92 DG N2 N N N 93 DG N3 N N N 94 DG C4 C Y N 95 DG HOP3 H N N 96 DG HOP2 H N N 97 DG "H5'" H N N 98 DG "H5''" H N N 99 DG "H4'" H N N 100 DG "H3'" H N N 101 DG "HO3'" H N N 102 DG "H2'" H N N 103 DG "H2''" H N N 104 DG "H1'" H N N 105 DG H8 H N N 106 DG H1 H N N 107 DG H21 H N N 108 DG H22 H N N 109 DI OP3 O N N 110 DI P P N N 111 DI OP1 O N N 112 DI OP2 O N N 113 DI "O5'" O N N 114 DI "C5'" C N N 115 DI "C4'" C N R 116 DI "O4'" O N N 117 DI "C3'" C N S 118 DI "O3'" O N N 119 DI "C2'" C N N 120 DI "C1'" C N R 121 DI N9 N Y N 122 DI C8 C Y N 123 DI N7 N Y N 124 DI C5 C Y N 125 DI C6 C N N 126 DI O6 O N N 127 DI N1 N N N 128 DI C2 C N N 129 DI N3 N N N 130 DI C4 C Y N 131 DI HOP3 H N N 132 DI HOP2 H N N 133 DI "H5'" H N N 134 DI "H5''" H N N 135 DI "H4'" H N N 136 DI "H3'" H N N 137 DI "HO3'" H N N 138 DI "H2'" H N N 139 DI "H2''" H N N 140 DI "H1'" H N N 141 DI H8 H N N 142 DI H1 H N N 143 DI H2 H N N 144 DT OP3 O N N 145 DT P P N N 146 DT OP1 O N N 147 DT OP2 O N N 148 DT "O5'" O N N 149 DT "C5'" C N N 150 DT "C4'" C N R 151 DT "O4'" O N N 152 DT "C3'" C N S 153 DT "O3'" O N N 154 DT "C2'" C N N 155 DT "C1'" C N R 156 DT N1 N N N 157 DT C2 C N N 158 DT O2 O N N 159 DT N3 N N N 160 DT C4 C N N 161 DT O4 O N N 162 DT C5 C N N 163 DT C7 C N N 164 DT C6 C N N 165 DT HOP3 H N N 166 DT HOP2 H N N 167 DT "H5'" H N N 168 DT "H5''" H N N 169 DT "H4'" H N N 170 DT "H3'" H N N 171 DT "HO3'" H N N 172 DT "H2'" H N N 173 DT "H2''" H N N 174 DT "H1'" H N N 175 DT H3 H N N 176 DT H71 H N N 177 DT H72 H N N 178 DT H73 H N N 179 DT H6 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H N N 183 RKL RU RU N N 184 RKL C1 C Y N 185 RKL N1 N Y N 186 RKL C2 C Y N 187 RKL N2 N Y N 188 RKL C3 C Y N 189 RKL N3 N Y N 190 RKL C4 C Y N 191 RKL N4 N Y N 192 RKL C5 C Y N 193 RKL N5 N Y N 194 RKL C6 C Y N 195 RKL N6 N Y N 196 RKL C7 C Y N 197 RKL N7 N Y N 198 RKL C8 C Y N 199 RKL N8 N Y N 200 RKL C9 C Y N 201 RKL N9 N Y N 202 RKL C10 C Y N 203 RKL N10 N Y N 204 RKL C11 C Y N 205 RKL N11 N Y N 206 RKL C12 C Y N 207 RKL N12 N Y N 208 RKL C13 C Y N 209 RKL C14 C Y N 210 RKL C15 C Y N 211 RKL C16 C Y N 212 RKL C17 C Y N 213 RKL C18 C Y N 214 RKL C19 C Y N 215 RKL C20 C Y N 216 RKL C21 C Y N 217 RKL C22 C Y N 218 RKL C23 C Y N 219 RKL C24 C Y N 220 RKL C25 C Y N 221 RKL C26 C Y N 222 RKL C27 C Y N 223 RKL C28 C Y N 224 RKL C29 C Y N 225 RKL C30 C Y N 226 RKL C31 C Y N 227 RKL C32 C Y N 228 RKL C33 C Y N 229 RKL C34 C Y N 230 RKL C35 C Y N 231 RKL C36 C Y N 232 RKL C37 C Y N 233 RKL C38 C Y N 234 RKL H2 H N N 235 RKL H3 H N N 236 RKL H4 H N N 237 RKL H9 H N N 238 RKL H11 H N N 239 RKL H12 H N N 240 RKL H14 H N N 241 RKL H16 H N N 242 RKL H17 H N N 243 RKL H18 H N N 244 RKL H20 H N N 245 RKL H21 H N N 246 RKL H23 H N N 247 RKL H24 H N N 248 RKL H27 H N N 249 RKL H28 H N N 250 RKL H30 H N N 251 RKL H31 H N N 252 RKL H33 H N N 253 RKL H34 H N N 254 RKL H37 H N N 255 RKL H38 H N N 256 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal DA OP3 P sing N N 1 DA OP3 HOP3 sing N N 2 DA P OP1 doub N N 3 DA P OP2 sing N N 4 DA P "O5'" sing N N 5 DA OP2 HOP2 sing N N 6 DA "O5'" "C5'" sing N N 7 DA "C5'" "C4'" sing N N 8 DA "C5'" "H5'" sing N N 9 DA "C5'" "H5''" sing N N 10 DA "C4'" "O4'" sing N N 11 DA "C4'" "C3'" sing N N 12 DA "C4'" "H4'" sing N N 13 DA "O4'" "C1'" sing N N 14 DA "C3'" "O3'" sing N N 15 DA "C3'" "C2'" sing N N 16 DA "C3'" "H3'" sing N N 17 DA "O3'" "HO3'" sing N N 18 DA "C2'" "C1'" sing N N 19 DA "C2'" "H2'" sing N N 20 DA "C2'" "H2''" sing N N 21 DA "C1'" N9 sing N N 22 DA "C1'" "H1'" sing N N 23 DA N9 C8 sing Y N 24 DA N9 C4 sing Y N 25 DA C8 N7 doub Y N 26 DA C8 H8 sing N N 27 DA N7 C5 sing Y N 28 DA C5 C6 sing Y N 29 DA C5 C4 doub Y N 30 DA C6 N6 sing N N 31 DA C6 N1 doub Y N 32 DA N6 H61 sing N N 33 DA N6 H62 sing N N 34 DA N1 C2 sing Y N 35 DA C2 N3 doub Y N 36 DA C2 H2 sing N N 37 DA N3 C4 sing Y N 38 DC OP3 P sing N N 39 DC OP3 HOP3 sing N N 40 DC P OP1 doub N N 41 DC P OP2 sing N N 42 DC P "O5'" sing N N 43 DC OP2 HOP2 sing N N 44 DC "O5'" "C5'" sing N N 45 DC "C5'" "C4'" sing N N 46 DC "C5'" "H5'" sing N N 47 DC "C5'" "H5''" sing N N 48 DC "C4'" "O4'" sing N N 49 DC "C4'" "C3'" sing N N 50 DC "C4'" "H4'" sing N N 51 DC "O4'" "C1'" sing N N 52 DC "C3'" "O3'" sing N N 53 DC "C3'" "C2'" sing N N 54 DC "C3'" "H3'" sing N N 55 DC "O3'" "HO3'" sing N N 56 DC "C2'" "C1'" sing N N 57 DC "C2'" "H2'" sing N N 58 DC "C2'" "H2''" sing N N 59 DC "C1'" N1 sing N N 60 DC "C1'" "H1'" sing N N 61 DC N1 C2 sing N N 62 DC N1 C6 sing N N 63 DC C2 O2 doub N N 64 DC C2 N3 sing N N 65 DC N3 C4 doub N N 66 DC C4 N4 sing N N 67 DC C4 C5 sing N N 68 DC N4 H41 sing N N 69 DC N4 H42 sing N N 70 DC C5 C6 doub N N 71 DC C5 H5 sing N N 72 DC C6 H6 sing N N 73 DG OP3 P sing N N 74 DG OP3 HOP3 sing N N 75 DG P OP1 doub N N 76 DG P OP2 sing N N 77 DG P "O5'" sing N N 78 DG OP2 HOP2 sing N N 79 DG "O5'" "C5'" sing N N 80 DG "C5'" "C4'" sing N N 81 DG "C5'" "H5'" sing N N 82 DG "C5'" "H5''" sing N N 83 DG "C4'" "O4'" sing N N 84 DG "C4'" "C3'" sing N N 85 DG "C4'" "H4'" sing N N 86 DG "O4'" "C1'" sing N N 87 DG "C3'" "O3'" sing N N 88 DG "C3'" "C2'" sing N N 89 DG "C3'" "H3'" sing N N 90 DG "O3'" "HO3'" sing N N 91 DG "C2'" "C1'" sing N N 92 DG "C2'" "H2'" sing N N 93 DG "C2'" "H2''" sing N N 94 DG "C1'" N9 sing N N 95 DG "C1'" "H1'" sing N N 96 DG N9 C8 sing Y N 97 DG N9 C4 sing Y N 98 DG C8 N7 doub Y N 99 DG C8 H8 sing N N 100 DG N7 C5 sing Y N 101 DG C5 C6 sing N N 102 DG C5 C4 doub Y N 103 DG C6 O6 doub N N 104 DG C6 N1 sing N N 105 DG N1 C2 sing N N 106 DG N1 H1 sing N N 107 DG C2 N2 sing N N 108 DG C2 N3 doub N N 109 DG N2 H21 sing N N 110 DG N2 H22 sing N N 111 DG N3 C4 sing N N 112 DI OP3 P sing N N 113 DI OP3 HOP3 sing N N 114 DI P OP1 doub N N 115 DI P OP2 sing N N 116 DI P "O5'" sing N N 117 DI OP2 HOP2 sing N N 118 DI "O5'" "C5'" sing N N 119 DI "C5'" "C4'" sing N N 120 DI "C5'" "H5'" sing N N 121 DI "C5'" "H5''" sing N N 122 DI "C4'" "O4'" sing N N 123 DI "C4'" "C3'" sing N N 124 DI "C4'" "H4'" sing N N 125 DI "O4'" "C1'" sing N N 126 DI "C3'" "O3'" sing N N 127 DI "C3'" "C2'" sing N N 128 DI "C3'" "H3'" sing N N 129 DI "O3'" "HO3'" sing N N 130 DI "C2'" "C1'" sing N N 131 DI "C2'" "H2'" sing N N 132 DI "C2'" "H2''" sing N N 133 DI "C1'" N9 sing N N 134 DI "C1'" "H1'" sing N N 135 DI N9 C8 sing Y N 136 DI N9 C4 sing Y N 137 DI C8 N7 doub Y N 138 DI C8 H8 sing N N 139 DI N7 C5 sing Y N 140 DI C5 C6 sing N N 141 DI C5 C4 doub Y N 142 DI C6 O6 doub N N 143 DI C6 N1 sing N N 144 DI N1 C2 sing N N 145 DI N1 H1 sing N N 146 DI C2 N3 doub N N 147 DI C2 H2 sing N N 148 DI N3 C4 sing N N 149 DT OP3 P sing N N 150 DT OP3 HOP3 sing N N 151 DT P OP1 doub N N 152 DT P OP2 sing N N 153 DT P "O5'" sing N N 154 DT OP2 HOP2 sing N N 155 DT "O5'" "C5'" sing N N 156 DT "C5'" "C4'" sing N N 157 DT "C5'" "H5'" sing N N 158 DT "C5'" "H5''" sing N N 159 DT "C4'" "O4'" sing N N 160 DT "C4'" "C3'" sing N N 161 DT "C4'" "H4'" sing N N 162 DT "O4'" "C1'" sing N N 163 DT "C3'" "O3'" sing N N 164 DT "C3'" "C2'" sing N N 165 DT "C3'" "H3'" sing N N 166 DT "O3'" "HO3'" sing N N 167 DT "C2'" "C1'" sing N N 168 DT "C2'" "H2'" sing N N 169 DT "C2'" "H2''" sing N N 170 DT "C1'" N1 sing N N 171 DT "C1'" "H1'" sing N N 172 DT N1 C2 sing N N 173 DT N1 C6 sing N N 174 DT C2 O2 doub N N 175 DT C2 N3 sing N N 176 DT N3 C4 sing N N 177 DT N3 H3 sing N N 178 DT C4 O4 doub N N 179 DT C4 C5 sing N N 180 DT C5 C7 sing N N 181 DT C5 C6 doub N N 182 DT C7 H71 sing N N 183 DT C7 H72 sing N N 184 DT C7 H73 sing N N 185 DT C6 H6 sing N N 186 HOH O H1 sing N N 187 HOH O H2 sing N N 188 RKL RU N1 sing N N 189 RKL RU N2 sing N N 190 RKL RU N5 sing N N 191 RKL RU N8 sing N N 192 RKL RU N9 sing N N 193 RKL RU N12 sing N N 194 RKL C1 N2 doub Y N 195 RKL C1 C5 sing Y N 196 RKL C1 C10 sing Y N 197 RKL N1 C10 doub Y N 198 RKL N1 C12 sing Y N 199 RKL C2 N2 sing Y N 200 RKL C2 C3 doub Y N 201 RKL C2 H2 sing N N 202 RKL C3 C4 sing Y N 203 RKL C3 H3 sing N N 204 RKL N3 C6 doub Y N 205 RKL N3 C15 sing Y N 206 RKL C4 C5 doub Y N 207 RKL C4 H4 sing N N 208 RKL N4 C7 doub Y N 209 RKL N4 C13 sing Y N 210 RKL C5 C6 sing Y N 211 RKL N5 C19 doub Y N 212 RKL N5 C20 sing Y N 213 RKL C6 C7 sing Y N 214 RKL N6 C21 sing Y N 215 RKL N6 C22 doub Y N 216 RKL C7 C8 sing Y N 217 RKL N7 C25 doub Y N 218 RKL N7 C27 sing Y N 219 RKL C8 C9 doub Y N 220 RKL C8 C10 sing Y N 221 RKL N8 C26 doub Y N 222 RKL N8 C28 sing Y N 223 RKL C9 C11 sing Y N 224 RKL C9 H9 sing N N 225 RKL N9 C29 doub Y N 226 RKL N9 C30 sing Y N 227 RKL N10 C31 sing Y N 228 RKL N10 C32 doub Y N 229 RKL C11 C12 doub Y N 230 RKL C11 H11 sing N N 231 RKL N11 C35 doub Y N 232 RKL N11 C37 sing Y N 233 RKL C12 H12 sing N N 234 RKL N12 C36 doub Y N 235 RKL N12 C38 sing Y N 236 RKL C13 C14 sing Y N 237 RKL C13 C15 doub Y N 238 RKL C14 C18 doub Y N 239 RKL C14 H14 sing N N 240 RKL C15 C16 sing Y N 241 RKL C16 C17 doub Y N 242 RKL C16 H16 sing N N 243 RKL C17 C18 sing Y N 244 RKL C17 H17 sing N N 245 RKL C18 H18 sing N N 246 RKL C19 C22 sing Y N 247 RKL C19 C26 sing Y N 248 RKL C20 C21 doub Y N 249 RKL C20 H20 sing N N 250 RKL C21 H21 sing N N 251 RKL C22 C23 sing Y N 252 RKL C23 C24 doub Y N 253 RKL C23 H23 sing N N 254 RKL C24 C25 sing Y N 255 RKL C24 H24 sing N N 256 RKL C25 C26 sing Y N 257 RKL C27 C28 doub Y N 258 RKL C27 H27 sing N N 259 RKL C28 H28 sing N N 260 RKL C29 C32 sing Y N 261 RKL C29 C36 sing Y N 262 RKL C30 C31 doub Y N 263 RKL C30 H30 sing N N 264 RKL C31 H31 sing N N 265 RKL C32 C33 sing Y N 266 RKL C33 C34 doub Y N 267 RKL C33 H33 sing N N 268 RKL C34 C35 sing Y N 269 RKL C34 H34 sing N N 270 RKL C35 C36 sing Y N 271 RKL C37 C38 doub Y N 272 RKL C37 H37 sing N N 273 RKL C38 H38 sing N N 274 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4QIO 'double helix' 4QIO '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 DI 9 7_555 0.298 -0.212 0.237 -10.091 6.593 7.546 1 A_DC2:DI9_A A 2 ? A 9 ? ? 1 1 A DG 3 1_555 A DC 8 7_555 -0.153 -0.030 0.066 23.088 -4.100 -0.009 2 A_DG3:DC8_A A 3 ? A 8 ? 19 1 1 A DG 4 1_555 A DC 7 7_555 -0.217 -0.147 -0.017 -8.177 1.765 -1.831 3 A_DG4:DC7_A A 4 ? A 7 ? 19 1 1 A DC 5 1_555 A DG 6 7_555 0.217 -0.092 0.257 -3.712 -4.597 -0.773 4 A_DC5:DG6_A A 5 ? A 6 ? 19 1 1 A DG 6 1_555 A DC 5 7_555 -0.217 -0.092 0.257 3.712 -4.597 -0.773 5 A_DG6:DC5_A A 6 ? A 5 ? 19 1 1 A DC 7 1_555 A DG 4 7_555 0.217 -0.147 -0.017 8.177 1.765 -1.831 6 A_DC7:DG4_A A 7 ? A 4 ? 19 1 1 A DC 8 1_555 A DG 3 7_555 0.153 -0.030 0.066 -23.088 -4.100 -0.009 7 A_DC8:DG3_A A 8 ? A 3 ? 19 1 1 A DI 9 1_555 A DC 2 7_555 -0.298 -0.212 0.237 10.091 6.593 7.546 8 A_DI9:DC2_A A 9 ? A 2 ? ? 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 DI 9 7_555 A DG 3 1_555 A DC 8 7_555 -0.484 1.398 2.617 4.560 4.204 20.904 2.333 2.758 2.678 11.270 -12.226 21.795 1 AA_DC2DG3:DC8DI9_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 0.071 0.786 5.119 -2.695 50.959 16.446 -5.106 -0.396 2.368 73.216 3.872 53.445 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 -0.755 0.085 3.254 -2.321 -3.738 38.910 0.575 0.848 3.270 -5.589 3.471 39.149 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 0.771 3.397 0.000 26.046 27.663 -2.661 0.000 3.026 44.053 0.000 37.821 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 0.755 0.085 3.254 2.321 -3.738 38.910 0.575 -0.848 3.270 -5.589 -3.471 39.149 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 -0.071 0.786 5.119 2.695 50.958 16.446 -5.106 0.396 2.368 73.216 -3.872 53.445 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 DI 9 1_555 A DC 2 7_555 0.484 1.398 2.617 -4.560 4.204 20.904 2.333 -2.758 2.678 11.270 12.226 21.795 7 AA_DC8DI9:DC2DG3_AA A 8 ? A 3 ? A 9 ? A 2 ? # _atom_sites.entry_id 4QIO _atom_sites.fract_transf_matrix[1][1] 0.023719 _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] 0.023719 _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] 0.025221 _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 H N O P RU # loop_