data_4MJ9 # _entry.id 4MJ9 # _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 4MJ9 pdb_00004mj9 10.2210/pdb4mj9/pdb NDB NA2718 ? ? RCSB RCSB081979 ? ? WWPDB D_1000081979 ? ? # 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 2014-09-24 2 'Structure model' 1 1 2015-02-18 3 'Structure model' 1 2 2015-05-13 4 'Structure model' 1 3 2017-11-15 5 'Structure model' 1 4 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' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' pdbx_struct_conn_angle 6 5 'Structure model' struct_conn 7 5 'Structure model' struct_site # 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 4 'Structure model' '_software.classification' 2 4 'Structure model' '_software.name' 3 4 'Structure model' '_software.version' 4 5 'Structure model' '_database_2.pdbx_DOI' 5 5 'Structure model' '_database_2.pdbx_database_accession' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.value' 19 5 'Structure model' '_struct_conn.pdbx_dist_value' 20 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 21 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 22 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 23 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 24 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 25 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 26 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 27 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 28 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 29 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 30 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 31 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 32 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 33 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4MJ9 _pdbx_database_status.recvd_initial_deposition_date 2013-09-03 _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 4III _pdbx_database_related.details '11-Cl derivative with the same sequence' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Hall, J.P.' 1 'Cardin, C.J.' 2 # _citation.id primary _citation.title 'The Structural Effect of Methyl Substitution on the Binding of Polypyridyl Ru dppz Complexes to DNA' _citation.journal_abbrev Organometallics _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year 2015 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 0276-7333 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI 10.1021/om501208x # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hall, J.P.' 1 ? primary 'Beer, H.' 2 ? primary 'Buchner, K.' 3 ? primary 'Cardin, D.J.' 4 ? primary 'Cardin, C.J.' 5 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn ;DNA (5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3') ; 3045.992 1 ? ? ? ? 2 non-polymer syn "(10-methyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)" 761.758 1 ? ? ? ? 3 non-polymer syn 'BARIUM ION' 137.327 1 ? ? ? ? 4 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 5 water nat water 18.015 116 ? ? ? ? # _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_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 "(10-methyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)" 2J0 3 'BARIUM ION' BA 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 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 'DNA synthesised by ATDBio' # 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 2J0 non-polymer . "(10-methyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)" ? 'C39 H24 N12 Ru 2' 761.758 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 # 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 2J0 1 101 1 2J0 RKE A . C 3 BA 1 102 1 BA BA A . D 4 CL 1 103 1 CL CL A . E 5 HOH 1 201 2 HOH HOH A . E 5 HOH 2 202 3 HOH HOH A . E 5 HOH 3 203 4 HOH HOH A . E 5 HOH 4 204 5 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 24 HOH HOH A . E 5 HOH 23 223 25 HOH HOH A . E 5 HOH 24 224 26 HOH HOH A . E 5 HOH 25 225 27 HOH HOH A . E 5 HOH 26 226 28 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 44 HOH HOH A . E 5 HOH 42 242 45 HOH HOH A . E 5 HOH 43 243 47 HOH HOH A . E 5 HOH 44 244 50 HOH HOH A . E 5 HOH 45 245 51 HOH HOH A . E 5 HOH 46 246 52 HOH HOH A . E 5 HOH 47 247 55 HOH HOH A . E 5 HOH 48 248 56 HOH HOH A . E 5 HOH 49 249 57 HOH HOH A . E 5 HOH 50 250 58 HOH HOH A . E 5 HOH 51 251 59 HOH HOH A . E 5 HOH 52 252 60 HOH HOH A . E 5 HOH 53 253 61 HOH HOH A . E 5 HOH 54 254 62 HOH HOH A . E 5 HOH 55 255 63 HOH HOH A . E 5 HOH 56 256 64 HOH HOH A . E 5 HOH 57 257 65 HOH HOH A . E 5 HOH 58 258 66 HOH HOH A . E 5 HOH 59 259 67 HOH HOH A . E 5 HOH 60 260 69 HOH HOH A . E 5 HOH 61 261 70 HOH HOH A . E 5 HOH 62 262 71 HOH HOH A . E 5 HOH 63 263 73 HOH HOH A . E 5 HOH 64 264 74 HOH HOH A . E 5 HOH 65 265 77 HOH HOH A . E 5 HOH 66 266 80 HOH HOH A . E 5 HOH 67 267 82 HOH HOH A . E 5 HOH 68 268 83 HOH HOH A . E 5 HOH 69 269 84 HOH HOH A . E 5 HOH 70 270 86 HOH HOH A . E 5 HOH 71 271 87 HOH HOH A . E 5 HOH 72 272 89 HOH HOH A . E 5 HOH 73 273 91 HOH HOH A . E 5 HOH 74 274 92 HOH HOH A . E 5 HOH 75 275 93 HOH HOH A . E 5 HOH 76 276 96 HOH HOH A . E 5 HOH 77 277 97 HOH HOH A . E 5 HOH 78 278 98 HOH HOH A . E 5 HOH 79 279 99 HOH HOH A . E 5 HOH 80 280 100 HOH HOH A . E 5 HOH 81 281 101 HOH HOH A . E 5 HOH 82 282 103 HOH HOH A . E 5 HOH 83 283 104 HOH HOH A . E 5 HOH 84 284 105 HOH HOH A . E 5 HOH 85 285 106 HOH HOH A . E 5 HOH 86 286 109 HOH HOH A . E 5 HOH 87 287 110 HOH HOH A . E 5 HOH 88 288 114 HOH HOH A . E 5 HOH 89 289 115 HOH HOH A . E 5 HOH 90 290 116 HOH HOH A . E 5 HOH 91 291 119 HOH HOH A . E 5 HOH 92 292 120 HOH HOH A . E 5 HOH 93 293 121 HOH HOH A . E 5 HOH 94 294 122 HOH HOH A . E 5 HOH 95 295 123 HOH HOH A . E 5 HOH 96 296 124 HOH HOH A . E 5 HOH 97 297 125 HOH HOH A . E 5 HOH 98 298 126 HOH HOH A . E 5 HOH 99 299 127 HOH HOH A . E 5 HOH 100 300 128 HOH HOH A . E 5 HOH 101 301 129 HOH HOH A . E 5 HOH 102 302 131 HOH HOH A . E 5 HOH 103 303 132 HOH HOH A . E 5 HOH 104 304 133 HOH HOH A . E 5 HOH 105 305 134 HOH HOH A . E 5 HOH 106 306 135 HOH HOH A . E 5 HOH 107 307 136 HOH HOH A . E 5 HOH 108 308 137 HOH HOH A . E 5 HOH 109 309 138 HOH HOH A . E 5 HOH 110 310 139 HOH HOH A . E 5 HOH 111 311 140 HOH HOH A . E 5 HOH 112 312 141 HOH HOH A . E 5 HOH 113 313 142 HOH HOH A . E 5 HOH 114 314 143 HOH HOH A . E 5 HOH 115 315 144 HOH HOH A . E 5 HOH 116 316 145 HOH HOH A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal GDA 'data collection' . ? 1 SHELXCD phasing . ? 2 SHELXE 'model building' . ? 3 REFMAC refinement 5.7.0032 ? 4 XDS 'data reduction' . ? 5 Aimless 'data scaling' . ? 6 # _cell.entry_id 4MJ9 _cell.length_a 42.270 _cell.length_b 42.270 _cell.length_c 39.670 _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 4MJ9 _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 4MJ9 _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 57.71 _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 6.3 _exptl_crystal_grow.pdbx_details ;1ul 1mM d(TCGGCGCCGA)2, 1ul 4mM rac-Ru(TAP)2(dppz-10-Me)]2+, 6ul 40mM Na cacodylate pH 6.3, 12mM spermine-tetra HCl, 20mM BaCl2, 80mM KCl, 10% 2-methyl-2,4-pentanediol equilibriated against 1ml 35% 2-methyl-2,4-pentanediol , 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 2013-05-12 _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 'dual 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 0.8856 _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 0.8856 # _reflns.entry_id 4MJ9 _reflns.observed_criterion_sigma_I 2.6 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 21.14 _reflns.d_resolution_high 0.97 _reflns.number_obs 20804 _reflns.number_all 20804 _reflns.percent_possible_obs 95.9 _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 0.97 _reflns_shell.d_res_low 1.00 _reflns_shell.percent_possible_all 98.7 _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 4MJ9 _refine.ls_number_reflns_obs 19713 _refine.ls_number_reflns_all ? _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 21.14 _refine.ls_d_res_high 0.97 _refine.ls_percent_reflns_obs 94.98 _refine.ls_R_factor_obs 0.08650 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.08601 _refine.ls_R_factor_R_free 0.09564 _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 1069 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.991 _refine.correlation_coeff_Fo_to_Fc_free 0.989 _refine.B_iso_mean 17.357 _refine.aniso_B[1][1] -0.14 _refine.aniso_B[2][2] -0.14 _refine.aniso_B[3][3] 0.28 _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 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 0.013 _refine.pdbx_overall_ESU_R_Free 0.013 _refine.overall_SU_ML 0.008 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 0.328 _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 202 _refine_hist.pdbx_number_atoms_ligand 54 _refine_hist.number_atoms_solvent 116 _refine_hist.number_atoms_total 372 _refine_hist.d_res_high 0.97 _refine_hist.d_res_low 21.14 # 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 0.032 0.013 ? 291 ? 'X-RAY DIFFRACTION' r_bond_other_d 0.002 0.020 ? 137 ? 'X-RAY DIFFRACTION' r_angle_refined_deg 2.549 1.604 ? 458 ? 'X-RAY DIFFRACTION' r_angle_other_deg 1.428 3.000 ? 313 ? '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 0.060 0.200 ? 30 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.031 0.020 ? 177 ? 'X-RAY DIFFRACTION' r_gen_planes_other 0.006 0.020 ? 77 ? '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 1.273 1.306 ? 291 ? 'X-RAY DIFFRACTION' r_scbond_other 1.271 1.308 ? 292 ? 'X-RAY DIFFRACTION' r_scangle_it ? ? ? ? ? 'X-RAY DIFFRACTION' r_scangle_other 1.722 1.958 ? 459 ? 'X-RAY DIFFRACTION' r_long_range_B_refined 4.446 15.964 ? 756 ? 'X-RAY DIFFRACTION' r_long_range_B_other 2.933 14.934 ? 681 ? 'X-RAY DIFFRACTION' r_rigid_bond_restr 2.265 3.000 ? 427 ? 'X-RAY DIFFRACTION' r_sphericity_free 45.644 5.000 ? 26 ? 'X-RAY DIFFRACTION' r_sphericity_bonded 13.429 5.000 ? 483 ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 0.970 _refine_ls_shell.d_res_low 0.995 _refine_ls_shell.number_reflns_R_work 1475 _refine_ls_shell.R_factor_R_work 0.191 _refine_ls_shell.percent_reflns_obs 98.24 _refine_ls_shell.R_factor_R_free 0.162 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 89 _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 4MJ9 _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 4MJ9 _struct.title 'lambda-[Ru(TAP)2(dppz-10-Me)]2+ bound to a synthetic DNA oligomer' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4MJ9 _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'methyl-substituted, Intercalation, Ruthenium, asymmetric substitution, 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 4MJ9 _struct_ref.pdbx_db_accession 4MJ9 _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code TCGGCGCCGA _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4MJ9 _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 4MJ9 _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)' 760 ? 1 MORE -4 ? 1 'SSA (A^2)' 4260 ? # _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_556 y,x,-z+1 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 39.6700000000 # _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 C BA . BA ? ? A DG 4 A BA 102 1_555 ? ? ? ? ? ? ? 2.854 ? ? metalc2 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 201 1_555 ? ? ? ? ? ? ? 2.804 ? ? metalc3 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 202 1_555 ? ? ? ? ? ? ? 2.815 ? ? metalc4 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 203 1_555 ? ? ? ? ? ? ? 2.764 ? ? metalc5 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 206 1_555 ? ? ? ? ? ? ? 2.797 ? ? metalc6 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 209 1_555 ? ? ? ? ? ? ? 2.807 ? ? metalc7 metalc ? ? C BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 102 A HOH 219 1_555 ? ? ? ? ? ? ? 2.821 ? ? hydrog1 hydrog ? ? A DC 2 N3 ? ? ? 1_555 A DG 9 N1 ? ? A DC 2 A DG 9 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DG 9 O6 ? ? A DC 2 A DG 9 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 2 O2 ? ? ? 1_555 A DG 9 N2 ? ? A DC 2 A DG 9 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 3 A DC 8 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 3 A DC 8 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 3 A DC 8 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC 7 N3 ? ? A DG 4 A DC 7 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC 7 O2 ? ? A DG 4 A DC 7 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC 7 N4 ? ? A DG 4 A DC 7 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 5 A DG 6 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 5 A DG 6 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 5 A DG 6 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 6 A DC 5 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 6 A DC 5 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 6 A DC 5 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 7 N3 ? ? ? 1_555 A DG 4 N1 ? ? A DC 7 A DG 4 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 7 N4 ? ? ? 1_555 A DG 4 O6 ? ? A DC 7 A DG 4 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DC 7 O2 ? ? ? 1_555 A DG 4 N2 ? ? A DC 7 A DG 4 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 8 A DG 3 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 8 A DG 3 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 8 A DG 3 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DC 2 N3 ? ? A DG 9 A DC 2 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DC 2 O2 ? ? A DG 9 A DC 2 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DC 2 N4 ? ? A DG 9 A DC 2 7_556 ? ? ? ? ? ? WATSON-CRICK ? ? ? # 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 ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 201 ? 1_555 138.3 ? 2 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 127.2 ? 3 O ? E HOH . ? A HOH 201 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 67.5 ? 4 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 71.6 ? 5 O ? E HOH . ? A HOH 201 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 76.3 ? 6 O ? E HOH . ? A HOH 202 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 139.5 ? 7 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 206 ? 1_555 124.0 ? 8 O ? E HOH . ? A HOH 201 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 206 ? 1_555 71.2 ? 9 O ? E HOH . ? A HOH 202 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 206 ? 1_555 107.0 ? 10 O ? E HOH . ? A HOH 203 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 206 ? 1_555 76.6 ? 11 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 209 ? 1_555 109.2 ? 12 O ? E HOH . ? A HOH 201 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 209 ? 1_555 112.0 ? 13 O ? E HOH . ? A HOH 202 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 209 ? 1_555 65.9 ? 14 O ? E HOH . ? A HOH 203 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 209 ? 1_555 149.2 ? 15 O ? E HOH . ? A HOH 206 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 209 ? 1_555 78.4 ? 16 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 64.0 ? 17 O ? E HOH . ? A HOH 201 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 137.1 ? 18 O ? E HOH . ? A HOH 202 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 136.4 ? 19 O ? E HOH . ? A HOH 203 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 83.1 ? 20 O ? E HOH . ? A HOH 206 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 67.6 ? 21 O ? E HOH . ? A HOH 209 ? 1_555 BA ? C BA . ? A BA 102 ? 1_555 O ? E HOH . ? A HOH 219 ? 1_555 70.8 ? # 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 2J0 101 ? 11 'BINDING SITE FOR RESIDUE 2J0 A 101' AC2 Software A BA 102 ? 8 'BINDING SITE FOR RESIDUE BA A 102' AC3 Software A CL 103 ? 3 '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 11 DT A 1 ? DT A 1 . ? 4_455 ? 2 AC1 11 DC A 2 ? DC A 2 . ? 4_455 ? 3 AC1 11 DG A 3 ? DG A 3 . ? 4_455 ? 4 AC1 11 DG A 3 ? DG A 3 . ? 1_555 ? 5 AC1 11 DG A 4 ? DG A 4 . ? 1_555 ? 6 AC1 11 DC A 5 ? DC A 5 . ? 1_555 ? 7 AC1 11 DC A 7 ? DC A 7 . ? 7_556 ? 8 AC1 11 DC A 8 ? DC A 8 . ? 7_556 ? 9 AC1 11 DG A 9 ? DG A 9 . ? 6_456 ? 10 AC1 11 DA A 10 ? DA A 10 . ? 7_556 ? 11 AC1 11 HOH E . ? HOH A 296 . ? 4_455 ? 12 AC2 8 DG A 3 ? DG A 3 . ? 1_555 ? 13 AC2 8 DG A 4 ? DG A 4 . ? 1_555 ? 14 AC2 8 HOH E . ? HOH A 201 . ? 1_555 ? 15 AC2 8 HOH E . ? HOH A 202 . ? 1_555 ? 16 AC2 8 HOH E . ? HOH A 203 . ? 1_555 ? 17 AC2 8 HOH E . ? HOH A 206 . ? 1_555 ? 18 AC2 8 HOH E . ? HOH A 209 . ? 1_555 ? 19 AC2 8 HOH E . ? HOH A 219 . ? 1_555 ? 20 AC3 3 DG A 4 ? DG A 4 . ? 1_555 ? 21 AC3 3 DC A 5 ? DC A 5 . ? 1_555 ? 22 AC3 3 HOH E . ? HOH A 277 . ? 1_555 ? # _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 0.081 _pdbx_validate_planes.type 'SIDE CHAIN' # _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 HOH _pdbx_struct_special_symmetry.auth_seq_id 301 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id E _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # 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 2J0 C14 C Y N 1 2J0 C13 C Y N 2 2J0 N4 N Y N 3 2J0 C7 C Y N 4 2J0 C8 C Y N 5 2J0 C9 C Y N 6 2J0 C11 C Y N 7 2J0 C12 C Y N 8 2J0 C10 C Y N 9 2J0 N1 N Y N 10 2J0 C18 C Y N 11 2J0 C17 C Y N 12 2J0 C16 C Y N 13 2J0 C15 C Y N 14 2J0 N3 N Y N 15 2J0 C6 C Y N 16 2J0 C5 C Y N 17 2J0 C1 C Y N 18 2J0 C4 C Y N 19 2J0 C3 C Y N 20 2J0 C2 C Y N 21 2J0 N2 N Y N 22 2J0 RU RU N N 23 2J0 N12 N Y N 24 2J0 C36 C Y N 25 2J0 C38 C Y N 26 2J0 N5 N Y N 27 2J0 C20 C Y N 28 2J0 C21 C Y N 29 2J0 N6 N Y N 30 2J0 C19 C Y N 31 2J0 C22 C Y N 32 2J0 C23 C Y N 33 2J0 C24 C Y N 34 2J0 C25 C Y N 35 2J0 N7 N Y N 36 2J0 C27 C Y N 37 2J0 C28 C Y N 38 2J0 C26 C Y N 39 2J0 N8 N Y N 40 2J0 N9 N Y N 41 2J0 C29 C Y N 42 2J0 C30 C Y N 43 2J0 C31 C Y N 44 2J0 N10 N Y N 45 2J0 C32 C Y N 46 2J0 C33 C Y N 47 2J0 C34 C Y N 48 2J0 C35 C Y N 49 2J0 N11 N Y N 50 2J0 C37 C Y N 51 2J0 C39 C N N 52 2J0 H9 H N N 53 2J0 H11 H N N 54 2J0 H12 H N N 55 2J0 H18 H N N 56 2J0 H17 H N N 57 2J0 H16 H N N 58 2J0 H4 H N N 59 2J0 H3 H N N 60 2J0 H2 H N N 61 2J0 H38 H N N 62 2J0 H20 H N N 63 2J0 H21 H N N 64 2J0 H23 H N N 65 2J0 H24 H N N 66 2J0 H27 H N N 67 2J0 H28 H N N 68 2J0 H30 H N N 69 2J0 H31 H N N 70 2J0 H33 H N N 71 2J0 H34 H N N 72 2J0 H37 H N N 73 2J0 H392 H N N 74 2J0 H39 H N N 75 2J0 H391 H N N 76 BA BA BA N N 77 CL CL CL N N 78 DA OP3 O N N 79 DA P P N N 80 DA OP1 O N N 81 DA OP2 O N N 82 DA "O5'" O N N 83 DA "C5'" C N N 84 DA "C4'" C N R 85 DA "O4'" O N N 86 DA "C3'" C N S 87 DA "O3'" O N N 88 DA "C2'" C N N 89 DA "C1'" C N R 90 DA N9 N Y N 91 DA C8 C Y N 92 DA N7 N Y N 93 DA C5 C Y N 94 DA C6 C Y N 95 DA N6 N N N 96 DA N1 N Y N 97 DA C2 C Y N 98 DA N3 N Y N 99 DA C4 C Y N 100 DA HOP3 H N N 101 DA HOP2 H N N 102 DA "H5'" H N N 103 DA "H5''" H N N 104 DA "H4'" H N N 105 DA "H3'" H N N 106 DA "HO3'" H N N 107 DA "H2'" H N N 108 DA "H2''" H N N 109 DA "H1'" H N N 110 DA H8 H N N 111 DA H61 H N N 112 DA H62 H N N 113 DA H2 H N N 114 DC OP3 O N N 115 DC P P N N 116 DC OP1 O N N 117 DC OP2 O N N 118 DC "O5'" O N N 119 DC "C5'" C N N 120 DC "C4'" C N R 121 DC "O4'" O N N 122 DC "C3'" C N S 123 DC "O3'" O N N 124 DC "C2'" C N N 125 DC "C1'" C N R 126 DC N1 N N N 127 DC C2 C N N 128 DC O2 O N N 129 DC N3 N N N 130 DC C4 C N N 131 DC N4 N N N 132 DC C5 C N N 133 DC C6 C N N 134 DC HOP3 H N N 135 DC HOP2 H N N 136 DC "H5'" H N N 137 DC "H5''" H N N 138 DC "H4'" H N N 139 DC "H3'" H N N 140 DC "HO3'" H N N 141 DC "H2'" H N N 142 DC "H2''" H N N 143 DC "H1'" H N N 144 DC H41 H N N 145 DC H42 H N N 146 DC H5 H N N 147 DC H6 H N N 148 DG OP3 O N N 149 DG P P N N 150 DG OP1 O N N 151 DG OP2 O N N 152 DG "O5'" O N N 153 DG "C5'" C N N 154 DG "C4'" C N R 155 DG "O4'" O N N 156 DG "C3'" C N S 157 DG "O3'" O N N 158 DG "C2'" C N N 159 DG "C1'" C N R 160 DG N9 N Y N 161 DG C8 C Y N 162 DG N7 N Y N 163 DG C5 C Y N 164 DG C6 C N N 165 DG O6 O N N 166 DG N1 N N N 167 DG C2 C N N 168 DG N2 N N N 169 DG N3 N N N 170 DG C4 C Y N 171 DG HOP3 H N N 172 DG HOP2 H N N 173 DG "H5'" H N N 174 DG "H5''" H N N 175 DG "H4'" H N N 176 DG "H3'" H N N 177 DG "HO3'" H N N 178 DG "H2'" H N N 179 DG "H2''" H N N 180 DG "H1'" H N N 181 DG H8 H N N 182 DG H1 H N N 183 DG H21 H N N 184 DG H22 H N N 185 DT OP3 O N N 186 DT P P N N 187 DT OP1 O N N 188 DT OP2 O N N 189 DT "O5'" O N N 190 DT "C5'" C N N 191 DT "C4'" C N R 192 DT "O4'" O N N 193 DT "C3'" C N S 194 DT "O3'" O N N 195 DT "C2'" C N N 196 DT "C1'" C N R 197 DT N1 N N N 198 DT C2 C N N 199 DT O2 O N N 200 DT N3 N N N 201 DT C4 C N N 202 DT O4 O N N 203 DT C5 C N N 204 DT C7 C N N 205 DT C6 C N N 206 DT HOP3 H N N 207 DT HOP2 H N N 208 DT "H5'" H N N 209 DT "H5''" H N N 210 DT "H4'" H N N 211 DT "H3'" H N N 212 DT "HO3'" H N N 213 DT "H2'" H N N 214 DT "H2''" H N N 215 DT "H1'" H N N 216 DT H3 H N N 217 DT H71 H N N 218 DT H72 H N N 219 DT H73 H N N 220 DT H6 H N N 221 HOH O O N N 222 HOH H1 H N N 223 HOH H2 H N N 224 # 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 2J0 C17 C16 doub Y N 1 2J0 C17 C18 sing Y N 2 2J0 C16 C15 sing Y N 3 2J0 C18 C14 doub Y N 4 2J0 C15 N3 doub Y N 5 2J0 C15 C13 sing Y N 6 2J0 C14 C13 sing Y N 7 2J0 C14 C39 sing N N 8 2J0 N3 C6 sing Y N 9 2J0 N10 C31 doub Y N 10 2J0 N10 C32 sing Y N 11 2J0 C13 N4 doub Y N 12 2J0 C31 C30 sing Y N 13 2J0 C33 C32 doub Y N 14 2J0 C33 C34 sing Y N 15 2J0 C4 C5 doub Y N 16 2J0 C4 C3 sing Y N 17 2J0 C6 C5 sing Y N 18 2J0 C6 C7 doub Y N 19 2J0 N4 C7 sing Y N 20 2J0 C32 C29 sing Y N 21 2J0 C5 C1 sing Y N 22 2J0 C3 C2 doub Y N 23 2J0 C7 C8 sing Y N 24 2J0 C30 N9 doub Y N 25 2J0 C34 C35 doub Y N 26 2J0 C29 N9 sing Y N 27 2J0 C29 C36 doub Y N 28 2J0 C1 N2 doub Y N 29 2J0 C1 C10 sing Y N 30 2J0 C2 N2 sing Y N 31 2J0 N9 RU sing N N 32 2J0 C8 C10 doub Y N 33 2J0 C8 C9 sing Y N 34 2J0 N2 RU sing N N 35 2J0 C10 N1 sing Y N 36 2J0 C9 C11 doub Y N 37 2J0 C35 C36 sing Y N 38 2J0 C35 N11 sing Y N 39 2J0 C36 N12 sing Y N 40 2J0 N11 C37 doub Y N 41 2J0 C11 C12 sing Y N 42 2J0 N1 RU sing N N 43 2J0 N1 C12 doub Y N 44 2J0 RU N12 sing N N 45 2J0 RU N8 sing N N 46 2J0 RU N5 sing N N 47 2J0 N12 C38 doub Y N 48 2J0 C37 C38 sing Y N 49 2J0 C28 N8 doub Y N 50 2J0 C28 C27 sing Y N 51 2J0 N8 C26 sing Y N 52 2J0 N5 C20 doub Y N 53 2J0 N5 C19 sing Y N 54 2J0 C20 C21 sing Y N 55 2J0 C27 N7 doub Y N 56 2J0 C26 C19 doub Y N 57 2J0 C26 C25 sing Y N 58 2J0 C19 C22 sing Y N 59 2J0 C21 N6 doub Y N 60 2J0 N7 C25 sing Y N 61 2J0 C25 C24 doub Y N 62 2J0 C22 N6 sing Y N 63 2J0 C22 C23 doub Y N 64 2J0 C24 C23 sing Y N 65 2J0 C9 H9 sing N N 66 2J0 C11 H11 sing N N 67 2J0 C12 H12 sing N N 68 2J0 C18 H18 sing N N 69 2J0 C17 H17 sing N N 70 2J0 C16 H16 sing N N 71 2J0 C4 H4 sing N N 72 2J0 C3 H3 sing N N 73 2J0 C2 H2 sing N N 74 2J0 C38 H38 sing N N 75 2J0 C20 H20 sing N N 76 2J0 C21 H21 sing N N 77 2J0 C23 H23 sing N N 78 2J0 C24 H24 sing N N 79 2J0 C27 H27 sing N N 80 2J0 C28 H28 sing N N 81 2J0 C30 H30 sing N N 82 2J0 C31 H31 sing N N 83 2J0 C33 H33 sing N N 84 2J0 C34 H34 sing N N 85 2J0 C37 H37 sing N N 86 2J0 C39 H392 sing N N 87 2J0 C39 H39 sing N N 88 2J0 C39 H391 sing N N 89 DA OP3 P sing N N 90 DA OP3 HOP3 sing N N 91 DA P OP1 doub N N 92 DA P OP2 sing N N 93 DA P "O5'" sing N N 94 DA OP2 HOP2 sing N N 95 DA "O5'" "C5'" sing N N 96 DA "C5'" "C4'" sing N N 97 DA "C5'" "H5'" sing N N 98 DA "C5'" "H5''" sing N N 99 DA "C4'" "O4'" sing N N 100 DA "C4'" "C3'" sing N N 101 DA "C4'" "H4'" sing N N 102 DA "O4'" "C1'" sing N N 103 DA "C3'" "O3'" sing N N 104 DA "C3'" "C2'" sing N N 105 DA "C3'" "H3'" sing N N 106 DA "O3'" "HO3'" sing N N 107 DA "C2'" "C1'" sing N N 108 DA "C2'" "H2'" sing N N 109 DA "C2'" "H2''" sing N N 110 DA "C1'" N9 sing N N 111 DA "C1'" "H1'" sing N N 112 DA N9 C8 sing Y N 113 DA N9 C4 sing Y N 114 DA C8 N7 doub Y N 115 DA C8 H8 sing N N 116 DA N7 C5 sing Y N 117 DA C5 C6 sing Y N 118 DA C5 C4 doub Y N 119 DA C6 N6 sing N N 120 DA C6 N1 doub Y N 121 DA N6 H61 sing N N 122 DA N6 H62 sing N N 123 DA N1 C2 sing Y N 124 DA C2 N3 doub Y N 125 DA C2 H2 sing N N 126 DA N3 C4 sing Y N 127 DC OP3 P sing N N 128 DC OP3 HOP3 sing N N 129 DC P OP1 doub N N 130 DC P OP2 sing N N 131 DC P "O5'" sing N N 132 DC OP2 HOP2 sing N N 133 DC "O5'" "C5'" sing N N 134 DC "C5'" "C4'" sing N N 135 DC "C5'" "H5'" sing N N 136 DC "C5'" "H5''" sing N N 137 DC "C4'" "O4'" sing N N 138 DC "C4'" "C3'" sing N N 139 DC "C4'" "H4'" sing N N 140 DC "O4'" "C1'" sing N N 141 DC "C3'" "O3'" sing N N 142 DC "C3'" "C2'" sing N N 143 DC "C3'" "H3'" sing N N 144 DC "O3'" "HO3'" sing N N 145 DC "C2'" "C1'" sing N N 146 DC "C2'" "H2'" sing N N 147 DC "C2'" "H2''" sing N N 148 DC "C1'" N1 sing N N 149 DC "C1'" "H1'" sing N N 150 DC N1 C2 sing N N 151 DC N1 C6 sing N N 152 DC C2 O2 doub N N 153 DC C2 N3 sing N N 154 DC N3 C4 doub N N 155 DC C4 N4 sing N N 156 DC C4 C5 sing N N 157 DC N4 H41 sing N N 158 DC N4 H42 sing N N 159 DC C5 C6 doub N N 160 DC C5 H5 sing N N 161 DC C6 H6 sing N N 162 DG OP3 P sing N N 163 DG OP3 HOP3 sing N N 164 DG P OP1 doub N N 165 DG P OP2 sing N N 166 DG P "O5'" sing N N 167 DG OP2 HOP2 sing N N 168 DG "O5'" "C5'" sing N N 169 DG "C5'" "C4'" sing N N 170 DG "C5'" "H5'" sing N N 171 DG "C5'" "H5''" sing N N 172 DG "C4'" "O4'" sing N N 173 DG "C4'" "C3'" sing N N 174 DG "C4'" "H4'" sing N N 175 DG "O4'" "C1'" sing N N 176 DG "C3'" "O3'" sing N N 177 DG "C3'" "C2'" sing N N 178 DG "C3'" "H3'" sing N N 179 DG "O3'" "HO3'" sing N N 180 DG "C2'" "C1'" sing N N 181 DG "C2'" "H2'" sing N N 182 DG "C2'" "H2''" sing N N 183 DG "C1'" N9 sing N N 184 DG "C1'" "H1'" sing N N 185 DG N9 C8 sing Y N 186 DG N9 C4 sing Y N 187 DG C8 N7 doub Y N 188 DG C8 H8 sing N N 189 DG N7 C5 sing Y N 190 DG C5 C6 sing N N 191 DG C5 C4 doub Y N 192 DG C6 O6 doub N N 193 DG C6 N1 sing N N 194 DG N1 C2 sing N N 195 DG N1 H1 sing N N 196 DG C2 N2 sing N N 197 DG C2 N3 doub N N 198 DG N2 H21 sing N N 199 DG N2 H22 sing N N 200 DG N3 C4 sing N N 201 DT OP3 P sing N N 202 DT OP3 HOP3 sing N N 203 DT P OP1 doub N N 204 DT P OP2 sing N N 205 DT P "O5'" sing N N 206 DT OP2 HOP2 sing N N 207 DT "O5'" "C5'" sing N N 208 DT "C5'" "C4'" sing N N 209 DT "C5'" "H5'" sing N N 210 DT "C5'" "H5''" sing N N 211 DT "C4'" "O4'" sing N N 212 DT "C4'" "C3'" sing N N 213 DT "C4'" "H4'" sing N N 214 DT "O4'" "C1'" sing N N 215 DT "C3'" "O3'" sing N N 216 DT "C3'" "C2'" sing N N 217 DT "C3'" "H3'" sing N N 218 DT "O3'" "HO3'" sing N N 219 DT "C2'" "C1'" sing N N 220 DT "C2'" "H2'" sing N N 221 DT "C2'" "H2''" sing N N 222 DT "C1'" N1 sing N N 223 DT "C1'" "H1'" sing N N 224 DT N1 C2 sing N N 225 DT N1 C6 sing N N 226 DT C2 O2 doub N N 227 DT C2 N3 sing N N 228 DT N3 C4 sing N N 229 DT N3 H3 sing N N 230 DT C4 O4 doub N N 231 DT C4 C5 sing N N 232 DT C5 C7 sing N N 233 DT C5 C6 doub N N 234 DT C7 H71 sing N N 235 DT C7 H72 sing N N 236 DT C7 H73 sing N N 237 DT C6 H6 sing N N 238 HOH O H1 sing N N 239 HOH O H2 sing N N 240 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 4MJ9 'double helix' 4MJ9 '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_556 0.142 -0.085 0.260 -12.203 7.315 1.485 1 A_DC2:DG9_A A 2 ? A 9 ? 19 1 1 A DG 3 1_555 A DC 8 7_556 -0.233 -0.032 0.148 24.671 -4.395 -0.677 2 A_DG3:DC8_A A 3 ? A 8 ? 19 1 1 A DG 4 1_555 A DC 7 7_556 -0.203 -0.148 -0.031 -8.275 1.489 -1.523 3 A_DG4:DC7_A A 4 ? A 7 ? 19 1 1 A DC 5 1_555 A DG 6 7_556 0.231 -0.105 0.303 -4.276 -5.505 -0.612 4 A_DC5:DG6_A A 5 ? A 6 ? 19 1 1 A DG 6 1_555 A DC 5 7_556 -0.231 -0.105 0.303 4.276 -5.505 -0.612 5 A_DG6:DC5_A A 6 ? A 5 ? 19 1 1 A DC 7 1_555 A DG 4 7_556 0.203 -0.148 -0.031 8.275 1.489 -1.523 6 A_DC7:DG4_A A 7 ? A 4 ? 19 1 1 A DC 8 1_555 A DG 3 7_556 0.233 -0.032 0.148 -24.671 -4.395 -0.677 7 A_DC8:DG3_A A 8 ? A 3 ? 19 1 1 A DG 9 1_555 A DC 2 7_556 -0.142 -0.085 0.260 12.203 7.315 1.485 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_556 A DG 3 1_555 A DC 8 7_556 -0.506 1.648 2.596 2.414 3.219 19.377 3.532 2.421 2.747 9.432 -7.073 19.787 1 AA_DC2DG3:DC8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ? 1 A DG 3 1_555 A DC 8 7_556 A DG 4 1_555 A DC 7 7_556 -0.144 0.797 5.223 -2.740 50.807 15.503 -5.302 -0.173 2.344 74.062 3.995 53.039 2 AA_DG3DG4:DC7DC8_AA A 3 ? A 8 ? A 4 ? A 7 ? 1 A DG 4 1_555 A DC 7 7_556 A DC 5 1_555 A DG 6 7_556 -0.836 0.076 3.257 -3.489 -3.789 38.954 0.566 0.826 3.296 -5.651 5.205 39.280 3 AA_DG4DC5:DG6DC7_AA A 4 ? A 7 ? A 5 ? A 6 ? 1 A DC 5 1_555 A DG 6 7_556 A DG 6 1_555 A DC 5 7_556 0.000 0.713 3.386 0.000 23.691 27.717 -2.596 0.000 3.058 41.207 0.000 36.311 4 AA_DC5DG6:DC5DG6_AA A 5 ? A 6 ? A 6 ? A 5 ? 1 A DG 6 1_555 A DC 5 7_556 A DC 7 1_555 A DG 4 7_556 0.836 0.076 3.257 3.489 -3.789 38.954 0.566 -0.826 3.296 -5.651 -5.204 39.280 5 AA_DG6DC7:DG4DC5_AA A 6 ? A 5 ? A 7 ? A 4 ? 1 A DC 7 1_555 A DG 4 7_556 A DC 8 1_555 A DG 3 7_556 0.144 0.797 5.223 2.740 50.807 15.503 -5.302 0.173 2.344 74.062 -3.995 53.039 6 AA_DC7DC8:DG3DG4_AA A 7 ? A 4 ? A 8 ? A 3 ? 1 A DC 8 1_555 A DG 3 7_556 A DG 9 1_555 A DC 2 7_556 0.506 1.648 2.596 -2.414 3.219 19.377 3.532 -2.421 2.747 9.432 7.073 19.787 7 AA_DC8DG9:DC2DG3_AA A 8 ? A 3 ? A 9 ? A 2 ? # _atom_sites.entry_id 4MJ9 _atom_sites.fract_transf_matrix[1][1] 0.023657 _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] 0.023657 _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] 0.025208 _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_