data_1D8X # _entry.id 1D8X # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _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 1D8X pdb_00001d8x 10.2210/pdb1d8x/pdb NDB BD0024 ? ? RCSB RCSB009901 ? ? WWPDB D_1000009901 ? ? # 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 1999-11-05 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-04 5 'Structure model' 1 4 2024-02-07 # _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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 4 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.value' 16 5 'Structure model' '_struct_conn.pdbx_dist_value' 17 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 18 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 19 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 20 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 21 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 22 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 23 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 24 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 25 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 26 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 27 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 28 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 29 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 30 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 31 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1D8X _pdbx_database_status.recvd_initial_deposition_date 1999-10-26 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name NDB _pdbx_database_related.db_id BD0025 _pdbx_database_related.details 'CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Gao, Y.-G.' 1 'Robinson, H.' 2 'Sanishvili, R.' 3 'Joachimiak, A.' 4 'Wang, A.H.-J.' 5 # _citation.id primary _citation.title 'Structure and recognition of sheared tandem G x A base pairs associated with human centromere DNA sequence at atomic resolution.' _citation.journal_abbrev Biochemistry _citation.journal_volume 38 _citation.page_first 16452 _citation.page_last 16460 _citation.year 1999 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 10600106 _citation.pdbx_database_id_DOI 10.1021/bi9914614 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Gao, Y.G.' 1 ? primary 'Robinson, H.' 2 ? primary 'Sanishvili, R.' 3 ? primary 'Joachimiak, A.' 4 ? primary 'Wang, A.H.' 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 "5'-D(*CP*CP*GP*AP*AP*TP*GP*AP*GP*G)-3'" 3094.042 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 3 non-polymer syn 'COBALT HEXAMMINE(III)' 161.116 1 ? ? ? ? 4 water nat water 18.015 138 ? ? ? ? # _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 '(DC)(DC)(DG)(DA)(DA)(DT)(DG)(DA)(DG)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CCGAATGAGG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 'COBALT HEXAMMINE(III)' NCO 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DC n 1 3 DG n 1 4 DA n 1 5 DA n 1 6 DT n 1 7 DG n 1 8 DA n 1 9 DG n 1 10 DG 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 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 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 NCO non-polymer . 'COBALT HEXAMMINE(III)' ? 'Co H18 N6 3' 161.116 # 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 DC 1 1 1 DC C A . n A 1 2 DC 2 2 2 DC C A . n A 1 3 DG 3 3 3 DG G A . n A 1 4 DA 4 4 4 DA A A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DT 6 6 6 DT T A . n A 1 7 DG 7 7 7 DG G A . n A 1 8 DA 8 8 8 DA A A . n A 1 9 DG 9 9 9 DG G A . n A 1 10 DG 10 10 10 DG G A . n B 1 1 DC 1 11 11 DC C B . n B 1 2 DC 2 12 12 DC C B . n B 1 3 DG 3 13 13 DG G B . n B 1 4 DA 4 14 14 DA A B . n B 1 5 DA 5 15 15 DA A B . n B 1 6 DT 6 16 16 DT T B . n B 1 7 DG 7 17 17 DG G B . n B 1 8 DA 8 18 18 DA A B . n B 1 9 DG 9 19 19 DG G B . n B 1 10 DG 10 20 20 DG G B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG 1 22 22 MG MO5 A . D 2 MG 1 23 23 MG MO5 A . E 3 NCO 1 21 21 NCO NCO A . F 4 HOH 1 100 100 HOH HOH A . F 4 HOH 2 101 101 HOH HOH A . F 4 HOH 3 102 102 HOH HOH A . F 4 HOH 4 105 105 HOH HOH A . F 4 HOH 5 107 107 HOH HOH A . F 4 HOH 6 110 110 HOH HOH A . F 4 HOH 7 111 111 HOH HOH A . F 4 HOH 8 114 114 HOH HOH A . F 4 HOH 9 115 115 HOH HOH A . F 4 HOH 10 116 116 HOH HOH A . F 4 HOH 11 117 117 HOH HOH A . F 4 HOH 12 118 118 HOH HOH A . F 4 HOH 13 119 119 HOH HOH A . F 4 HOH 14 120 120 HOH HOH A . F 4 HOH 15 121 121 HOH HOH A . F 4 HOH 16 122 122 HOH HOH A . F 4 HOH 17 123 123 HOH HOH A . F 4 HOH 18 124 124 HOH HOH A . F 4 HOH 19 126 126 HOH HOH A . F 4 HOH 20 131 131 HOH HOH A . F 4 HOH 21 134 134 HOH HOH A . F 4 HOH 22 135 135 HOH HOH A . F 4 HOH 23 137 137 HOH HOH A . F 4 HOH 24 140 140 HOH HOH A . F 4 HOH 25 143 143 HOH HOH A . F 4 HOH 26 144 144 HOH HOH A . F 4 HOH 27 146 146 HOH HOH A . F 4 HOH 28 147 147 HOH HOH A . F 4 HOH 29 148 148 HOH HOH A . F 4 HOH 30 152 152 HOH HOH A . F 4 HOH 31 155 155 HOH HOH A . F 4 HOH 32 156 156 HOH HOH A . F 4 HOH 33 157 157 HOH HOH A . F 4 HOH 34 158 158 HOH HOH A . F 4 HOH 35 160 160 HOH HOH A . F 4 HOH 36 161 161 HOH HOH A . F 4 HOH 37 162 162 HOH HOH A . F 4 HOH 38 165 165 HOH HOH A . F 4 HOH 39 167 167 HOH HOH A . F 4 HOH 40 168 168 HOH HOH A . F 4 HOH 41 170 170 HOH HOH A . F 4 HOH 42 171 171 HOH HOH A . F 4 HOH 43 172 172 HOH HOH A . F 4 HOH 44 173 173 HOH HOH A . F 4 HOH 45 174 174 HOH HOH A . F 4 HOH 46 175 175 HOH HOH A . F 4 HOH 47 176 176 HOH HOH A . F 4 HOH 48 178 178 HOH HOH A . F 4 HOH 49 183 183 HOH HOH A . F 4 HOH 50 184 184 HOH HOH A . F 4 HOH 51 185 185 HOH HOH A . F 4 HOH 52 188 188 HOH HOH A . F 4 HOH 53 190 190 HOH HOH A . F 4 HOH 54 191 191 HOH HOH A . F 4 HOH 55 192 192 HOH HOH A . F 4 HOH 56 193 193 HOH HOH A . F 4 HOH 57 195 195 HOH HOH A . F 4 HOH 58 199 199 HOH HOH A . F 4 HOH 59 200 200 HOH HOH A . F 4 HOH 60 201 201 HOH HOH A . F 4 HOH 61 202 202 HOH HOH A . F 4 HOH 62 204 204 HOH HOH A . F 4 HOH 63 206 206 HOH HOH A . F 4 HOH 64 208 208 HOH HOH A . F 4 HOH 65 209 209 HOH HOH A . F 4 HOH 66 210 210 HOH HOH A . F 4 HOH 67 211 211 HOH HOH A . F 4 HOH 68 213 213 HOH HOH A . F 4 HOH 69 214 214 HOH HOH A . F 4 HOH 70 215 215 HOH HOH A . F 4 HOH 71 217 217 HOH HOH A . F 4 HOH 72 221 221 HOH HOH A . F 4 HOH 73 224 224 HOH HOH A . F 4 HOH 74 225 225 HOH HOH A . F 4 HOH 75 228 22 HOH MO5 A . F 4 HOH 76 229 22 HOH MO5 A . F 4 HOH 77 230 22 HOH MO5 A . F 4 HOH 78 231 22 HOH MO5 A . F 4 HOH 79 232 22 HOH MO5 A . F 4 HOH 80 233 23 HOH MO5 A . F 4 HOH 81 234 23 HOH MO5 A . F 4 HOH 82 235 23 HOH MO5 A . F 4 HOH 83 236 23 HOH MO5 A . F 4 HOH 84 237 23 HOH MO5 A . G 4 HOH 1 103 103 HOH HOH B . G 4 HOH 2 104 104 HOH HOH B . G 4 HOH 3 106 106 HOH HOH B . G 4 HOH 4 108 108 HOH HOH B . G 4 HOH 5 109 109 HOH HOH B . G 4 HOH 6 112 112 HOH HOH B . G 4 HOH 7 113 113 HOH HOH B . G 4 HOH 8 125 125 HOH HOH B . G 4 HOH 9 127 127 HOH HOH B . G 4 HOH 10 128 128 HOH HOH B . G 4 HOH 11 129 129 HOH HOH B . G 4 HOH 12 130 130 HOH HOH B . G 4 HOH 13 132 132 HOH HOH B . G 4 HOH 14 133 133 HOH HOH B . G 4 HOH 15 136 136 HOH HOH B . G 4 HOH 16 138 138 HOH HOH B . G 4 HOH 17 139 139 HOH HOH B . G 4 HOH 18 141 141 HOH HOH B . G 4 HOH 19 142 142 HOH HOH B . G 4 HOH 20 145 145 HOH HOH B . G 4 HOH 21 149 149 HOH HOH B . G 4 HOH 22 150 150 HOH HOH B . G 4 HOH 23 151 151 HOH HOH B . G 4 HOH 24 153 153 HOH HOH B . G 4 HOH 25 154 154 HOH HOH B . G 4 HOH 26 159 159 HOH HOH B . G 4 HOH 27 163 163 HOH HOH B . G 4 HOH 28 164 164 HOH HOH B . G 4 HOH 29 166 166 HOH HOH B . G 4 HOH 30 169 169 HOH HOH B . G 4 HOH 31 177 177 HOH HOH B . G 4 HOH 32 179 179 HOH HOH B . G 4 HOH 33 180 180 HOH HOH B . G 4 HOH 34 181 181 HOH HOH B . G 4 HOH 35 182 182 HOH HOH B . G 4 HOH 36 186 186 HOH HOH B . G 4 HOH 37 187 187 HOH HOH B . G 4 HOH 38 189 189 HOH HOH B . G 4 HOH 39 194 194 HOH HOH B . G 4 HOH 40 196 196 HOH HOH B . G 4 HOH 41 197 197 HOH HOH B . G 4 HOH 42 198 198 HOH HOH B . G 4 HOH 43 203 203 HOH HOH B . G 4 HOH 44 205 205 HOH HOH B . G 4 HOH 45 207 207 HOH HOH B . G 4 HOH 46 212 212 HOH HOH B . G 4 HOH 47 216 216 HOH HOH B . G 4 HOH 48 218 218 HOH HOH B . G 4 HOH 49 219 219 HOH HOH B . G 4 HOH 50 220 220 HOH HOH B . G 4 HOH 51 222 222 HOH HOH B . G 4 HOH 52 223 223 HOH HOH B . G 4 HOH 53 226 226 HOH HOH B . G 4 HOH 54 227 227 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal X-PLOR 'model building' . ? 1 SHELXL-97 refinement . ? 2 d*TREK 'data scaling' 'V. 5.1' ? 3 X-PLOR phasing . ? 4 # _cell.entry_id 1D8X _cell.length_a 62.784 _cell.length_b 35.685 _cell.length_c 22.466 _cell.angle_alpha 90.00 _cell.angle_beta 104.38 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D8X _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 5 # _exptl.entry_id 1D8X _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.83 _exptl_crystal.density_percent_sol 33.0 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pdbx_details 'MPD, COBALT HEXAMMINE, MGCL2, TRIS, pH 7.5, VAPOR DIFFUSION, temperature 298K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'COBALT HEXAMMINE' ? ? ? 1 2 1 MGCL2 ? ? ? 1 3 1 TRIS ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 123 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IIC' _diffrn_detector.pdbx_collection_date 1998-02-06 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU RU200' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 1D8X _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 1.20 _reflns.number_obs 12550 _reflns.number_all 12550 _reflns.percent_possible_obs 81.7 _reflns.pdbx_Rmerge_I_obs 0.0450000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 16.5 _reflns.B_iso_Wilson_estimate 31.9 _reflns.pdbx_redundancy 1.6 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.20 _reflns_shell.d_res_low 1.24 _reflns_shell.percent_possible_all 46.8 _reflns_shell.Rmerge_I_obs 0.3900000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 3.7 _reflns_shell.pdbx_redundancy 1.25 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1D8X _refine.ls_number_reflns_obs ? _refine.ls_number_reflns_all 12550 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.0 _refine.ls_d_res_high 1.20 _refine.ls_percent_reflns_obs 81.7 _refine.ls_R_factor_obs 0.1880000 _refine.ls_R_factor_all 0.1880000 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free 0.2460000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5 _refine.ls_number_reflns_R_free 633 _refine.ls_number_parameters 4386 _refine.ls_number_restraints 5330 _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'SHELXL SWAT OPTION' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method 'A POSTERIORI' _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'G.PARKINSON, J.VOJTECHOVSKY, L.CLOWNEY, A.T.BRUNGER, H.M.BERMAN' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1D8X _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 0 _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _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 412 _refine_hist.pdbx_number_atoms_ligand 19 _refine_hist.number_atoms_solvent 128 _refine_hist.number_atoms_total 559 _refine_hist.d_res_high 1.20 _refine_hist.d_res_low 20.0 # 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_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.010 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.029 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.073 ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.007 ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt 0.004 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt 0.044 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 1D8X _pdbx_refine.R_factor_all_no_cutoff ? _pdbx_refine.R_factor_obs_no_cutoff ? _pdbx_refine.free_R_factor_no_cutoff ? _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff ? _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff 0.1820000 _pdbx_refine.R_factor_obs_4sig_cutoff 0.1820000 _pdbx_refine.free_R_factor_4sig_cutoff 0.2380000 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff 5 _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 566 _pdbx_refine.number_reflns_obs_4sig_cutoff 11236 _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _database_PDB_matrix.entry_id 1D8X _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 1D8X _struct.title 'CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G A BASE PAIRS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1D8X _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'TANDEM GA BASE PAIRS, GA MISMATCH, DNA' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1D8X _struct_ref.pdbx_db_accession 1D8X _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1D8X A 1 ? 10 ? 1D8X 1 ? 10 ? 1 10 2 1 1D8X B 1 ? 10 ? 1D8X 11 ? 20 ? 11 20 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 # 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 DA 5 OP2 ? ? ? 1_555 C MG . MG ? ? A DA 5 A MG 22 1_555 ? ? ? ? ? ? ? 1.969 ? ? metalc2 metalc ? ? A DG 9 OP1 ? ? ? 1_555 D MG . MG ? ? A DG 9 A MG 23 1_555 ? ? ? ? ? ? ? 2.080 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 22 A HOH 228 1_555 ? ? ? ? ? ? ? 2.066 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 22 A HOH 229 1_555 ? ? ? ? ? ? ? 2.042 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 22 A HOH 230 1_555 ? ? ? ? ? ? ? 2.072 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 22 A HOH 231 1_555 ? ? ? ? ? ? ? 2.073 ? ? metalc7 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 22 A HOH 232 1_555 ? ? ? ? ? ? ? 2.054 ? ? metalc8 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 23 A HOH 233 1_555 ? ? ? ? ? ? ? 2.031 ? ? metalc9 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 23 A HOH 234 1_555 ? ? ? ? ? ? ? 2.061 ? ? metalc10 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 23 A HOH 235 1_555 ? ? ? ? ? ? ? 2.039 ? ? metalc11 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 23 A HOH 236 1_555 ? ? ? ? ? ? ? 2.087 ? ? metalc12 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 23 A HOH 237 1_555 ? ? ? ? ? ? ? 2.077 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 1 B DG 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DC 2 N3 ? ? ? 1_555 B DG 9 N1 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 2 N4 ? ? ? 1_555 B DG 9 O6 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 2 O2 ? ? ? 1_555 B DG 9 N2 ? ? A DC 2 B DG 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DG 3 N2 ? ? ? 1_555 B DA 8 N7 ? ? A DG 3 B DA 18 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog8 hydrog ? ? A DG 3 N3 ? ? ? 1_555 B DA 8 N6 ? ? A DG 3 B DA 18 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog9 hydrog ? ? A DA 4 N6 ? ? ? 1_555 B DG 7 N3 ? ? A DA 4 B DG 17 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog10 hydrog ? ? A DA 4 N7 ? ? ? 1_555 B DG 7 N2 ? ? A DA 4 B DG 17 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog11 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 6 N3 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 6 O4 ? ? A DA 5 B DT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 6 B DA 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DG 7 N2 ? ? ? 1_555 B DA 4 N7 ? ? A DG 7 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog16 hydrog ? ? A DG 7 N3 ? ? ? 1_555 B DA 4 N6 ? ? A DG 7 B DA 14 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog17 hydrog ? ? A DA 8 N6 ? ? ? 1_555 B DG 3 N3 ? ? A DA 8 B DG 13 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog18 hydrog ? ? A DA 8 N7 ? ? ? 1_555 B DG 3 N2 ? ? A DA 8 B DG 13 1_555 ? ? ? ? ? ? TYPE_11_PAIR ? ? ? hydrog19 hydrog ? ? A DG 9 N1 ? ? ? 1_555 B DC 2 N3 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DG 9 N2 ? ? ? 1_555 B DC 2 O2 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DG 9 O6 ? ? ? 1_555 B DC 2 N4 ? ? A DG 9 B DC 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 10 B DC 11 1_555 ? ? ? ? ? ? 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 OP2 ? A DA 5 ? A DA 5 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 228 ? 1_555 86.3 ? 2 OP2 ? A DA 5 ? A DA 5 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 229 ? 1_555 95.1 ? 3 O ? F HOH . ? A HOH 228 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 229 ? 1_555 178.0 ? 4 OP2 ? A DA 5 ? A DA 5 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 230 ? 1_555 88.8 ? 5 O ? F HOH . ? A HOH 228 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 230 ? 1_555 89.9 ? 6 O ? F HOH . ? A HOH 229 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 230 ? 1_555 88.7 ? 7 OP2 ? A DA 5 ? A DA 5 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 231 ? 1_555 173.0 ? 8 O ? F HOH . ? A HOH 228 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 231 ? 1_555 88.7 ? 9 O ? F HOH . ? A HOH 229 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 231 ? 1_555 89.8 ? 10 O ? F HOH . ? A HOH 230 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 231 ? 1_555 86.3 ? 11 OP2 ? A DA 5 ? A DA 5 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 95.6 ? 12 O ? F HOH . ? A HOH 228 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 91.5 ? 13 O ? F HOH . ? A HOH 229 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 89.8 ? 14 O ? F HOH . ? A HOH 230 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 175.5 ? 15 O ? F HOH . ? A HOH 231 ? 1_555 MG ? C MG . ? A MG 22 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 89.4 ? 16 OP1 ? A DG 9 ? A DG 9 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 233 ? 1_555 87.6 ? 17 OP1 ? A DG 9 ? A DG 9 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 234 ? 1_555 89.6 ? 18 O ? F HOH . ? A HOH 233 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 234 ? 1_555 173.2 ? 19 OP1 ? A DG 9 ? A DG 9 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 235 ? 1_555 89.9 ? 20 O ? F HOH . ? A HOH 233 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 235 ? 1_555 95.6 ? 21 O ? F HOH . ? A HOH 234 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 235 ? 1_555 90.6 ? 22 OP1 ? A DG 9 ? A DG 9 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 236 ? 1_555 175.6 ? 23 O ? F HOH . ? A HOH 233 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 236 ? 1_555 93.4 ? 24 O ? F HOH . ? A HOH 234 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 236 ? 1_555 89.9 ? 25 O ? F HOH . ? A HOH 235 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 236 ? 1_555 85.8 ? 26 OP1 ? A DG 9 ? A DG 9 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 237 ? 1_555 97.8 ? 27 O ? F HOH . ? A HOH 233 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 237 ? 1_555 85.1 ? 28 O ? F HOH . ? A HOH 234 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 237 ? 1_555 89.2 ? 29 O ? F HOH . ? A HOH 235 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 237 ? 1_555 172.4 ? 30 O ? F HOH . ? A HOH 236 ? 1_555 MG ? D MG . ? A MG 23 ? 1_555 O ? F HOH . ? A HOH 237 ? 1_555 86.6 ? # 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 MG 22 ? 6 'BINDING SITE FOR RESIDUE MG A 22' AC2 Software A MG 23 ? 6 'BINDING SITE FOR RESIDUE MG A 23' AC3 Software A NCO 21 ? 9 'BINDING SITE FOR RESIDUE NCO A 21' # 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 6 DA A 5 ? DA A 5 . ? 1_555 ? 2 AC1 6 HOH F . ? HOH A 228 . ? 1_555 ? 3 AC1 6 HOH F . ? HOH A 229 . ? 1_555 ? 4 AC1 6 HOH F . ? HOH A 230 . ? 1_555 ? 5 AC1 6 HOH F . ? HOH A 231 . ? 1_555 ? 6 AC1 6 HOH F . ? HOH A 232 . ? 1_555 ? 7 AC2 6 DG A 9 ? DG A 9 . ? 1_555 ? 8 AC2 6 HOH F . ? HOH A 233 . ? 1_555 ? 9 AC2 6 HOH F . ? HOH A 234 . ? 1_555 ? 10 AC2 6 HOH F . ? HOH A 235 . ? 1_555 ? 11 AC2 6 HOH F . ? HOH A 236 . ? 1_555 ? 12 AC2 6 HOH F . ? HOH A 237 . ? 1_555 ? 13 AC3 9 DG A 3 ? DG A 3 . ? 1_556 ? 14 AC3 9 DT A 6 ? DT A 6 . ? 1_555 ? 15 AC3 9 DG A 7 ? DG A 7 . ? 1_555 ? 16 AC3 9 HOH F . ? HOH A 167 . ? 1_555 ? 17 AC3 9 HOH F . ? HOH A 170 . ? 1_555 ? 18 AC3 9 HOH F . ? HOH A 209 . ? 1_555 ? 19 AC3 9 DG B 3 ? DG B 13 . ? 1_555 ? 20 AC3 9 DG B 7 ? DG B 17 . ? 1_556 ? 21 AC3 9 HOH G . ? HOH B 125 . ? 1_556 ? # 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 C6 A DC 1 ? ? N1 A DC 1 ? ? C2 A DC 1 ? ? 117.83 120.30 -2.47 0.40 N 2 1 N3 A DC 1 ? ? C4 A DC 1 ? ? C5 A DC 1 ? ? 117.50 121.90 -4.40 0.40 N 3 1 C6 A DG 3 ? ? C5 A DG 3 ? ? N7 A DG 3 ? ? 126.25 130.40 -4.15 0.60 N 4 1 C8 A DA 4 ? ? N9 A DA 4 ? ? C4 A DA 4 ? ? 102.99 105.80 -2.81 0.40 N 5 1 N9 A DA 4 ? ? C4 A DA 4 ? ? C5 A DA 4 ? ? 108.69 105.80 2.89 0.40 N 6 1 "O4'" A DA 5 ? ? "C4'" A DA 5 ? ? "C3'" A DA 5 ? ? 101.33 104.50 -3.17 0.40 N 7 1 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 114.21 118.60 -4.39 0.60 N 8 1 "O5'" A DG 7 ? ? P A DG 7 ? ? OP2 A DG 7 ? ? 99.66 105.70 -6.04 0.90 N 9 1 "O4'" A DG 7 ? ? "C1'" A DG 7 ? ? N9 A DG 7 ? ? 111.38 108.30 3.08 0.30 N 10 1 C6 A DG 7 ? ? N1 A DG 7 ? ? C2 A DG 7 ? ? 121.38 125.10 -3.72 0.60 N 11 1 N1 A DG 7 ? ? C2 A DG 7 ? ? N3 A DG 7 ? ? 128.13 123.90 4.23 0.60 N 12 1 N3 B DC 11 ? ? C4 B DC 11 ? ? C5 B DC 11 ? ? 125.56 121.90 3.66 0.40 N 13 1 C4 B DC 11 ? ? C5 B DC 11 ? ? C6 B DC 11 ? ? 114.33 117.40 -3.07 0.50 N 14 1 "C3'" B DC 11 ? ? "O3'" B DC 11 ? ? P B DC 12 ? ? 110.25 119.70 -9.45 1.20 Y 15 1 "O4'" B DA 14 ? ? "C1'" B DA 14 ? ? N9 B DA 14 ? ? 110.79 108.30 2.49 0.30 N 16 1 "O4'" B DA 15 ? ? "C4'" B DA 15 ? ? "C3'" B DA 15 ? ? 101.23 104.50 -3.27 0.40 N # loop_ _pdbx_validate_planes.id _pdbx_validate_planes.PDB_model_num _pdbx_validate_planes.auth_comp_id _pdbx_validate_planes.auth_asym_id _pdbx_validate_planes.auth_seq_id _pdbx_validate_planes.PDB_ins_code _pdbx_validate_planes.label_alt_id _pdbx_validate_planes.rmsd _pdbx_validate_planes.type 1 1 DA A 5 ? ? 0.081 'SIDE CHAIN' 2 1 DC B 11 ? ? 0.078 'SIDE CHAIN' 3 1 DA B 14 ? ? 0.077 'SIDE CHAIN' # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 100 ? F HOH . 2 1 A HOH 101 ? F HOH . 3 1 A HOH 211 ? F HOH . 4 1 B HOH 219 ? G HOH . # 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 DA OP3 O N N 1 DA P P N N 2 DA OP1 O N N 3 DA OP2 O N N 4 DA "O5'" O N N 5 DA "C5'" C N N 6 DA "C4'" C N R 7 DA "O4'" O N N 8 DA "C3'" C N S 9 DA "O3'" O N N 10 DA "C2'" C N N 11 DA "C1'" C N R 12 DA N9 N Y N 13 DA C8 C Y N 14 DA N7 N Y N 15 DA C5 C Y N 16 DA C6 C Y N 17 DA N6 N N N 18 DA N1 N Y N 19 DA C2 C Y N 20 DA N3 N Y N 21 DA C4 C Y N 22 DA HOP3 H N N 23 DA HOP2 H N N 24 DA "H5'" H N N 25 DA "H5''" H N N 26 DA "H4'" H N N 27 DA "H3'" H N N 28 DA "HO3'" H N N 29 DA "H2'" H N N 30 DA "H2''" H N N 31 DA "H1'" H N N 32 DA H8 H N N 33 DA H61 H N N 34 DA H62 H N N 35 DA H2 H N N 36 DC OP3 O N N 37 DC P P N N 38 DC OP1 O N N 39 DC OP2 O N N 40 DC "O5'" O N N 41 DC "C5'" C N N 42 DC "C4'" C N R 43 DC "O4'" O N N 44 DC "C3'" C N S 45 DC "O3'" O N N 46 DC "C2'" C N N 47 DC "C1'" C N R 48 DC N1 N N N 49 DC C2 C N N 50 DC O2 O N N 51 DC N3 N N N 52 DC C4 C N N 53 DC N4 N N N 54 DC C5 C N N 55 DC C6 C N N 56 DC HOP3 H N N 57 DC HOP2 H N N 58 DC "H5'" H N N 59 DC "H5''" H N N 60 DC "H4'" H N N 61 DC "H3'" H N N 62 DC "HO3'" H N N 63 DC "H2'" H N N 64 DC "H2''" H N N 65 DC "H1'" H N N 66 DC H41 H N N 67 DC H42 H N N 68 DC H5 H N N 69 DC H6 H N N 70 DG OP3 O N N 71 DG P P N N 72 DG OP1 O N N 73 DG OP2 O N N 74 DG "O5'" O N N 75 DG "C5'" C N N 76 DG "C4'" C N R 77 DG "O4'" O N N 78 DG "C3'" C N S 79 DG "O3'" O N N 80 DG "C2'" C N N 81 DG "C1'" C N R 82 DG N9 N Y N 83 DG C8 C Y N 84 DG N7 N Y N 85 DG C5 C Y N 86 DG C6 C N N 87 DG O6 O N N 88 DG N1 N N N 89 DG C2 C N N 90 DG N2 N N N 91 DG N3 N N N 92 DG C4 C Y N 93 DG HOP3 H N N 94 DG HOP2 H N N 95 DG "H5'" H N N 96 DG "H5''" H N N 97 DG "H4'" H N N 98 DG "H3'" H N N 99 DG "HO3'" H N N 100 DG "H2'" H N N 101 DG "H2''" H N N 102 DG "H1'" H N N 103 DG H8 H N N 104 DG H1 H N N 105 DG H21 H N N 106 DG H22 H N N 107 DT OP3 O N N 108 DT P P N N 109 DT OP1 O N N 110 DT OP2 O N N 111 DT "O5'" O N N 112 DT "C5'" C N N 113 DT "C4'" C N R 114 DT "O4'" O N N 115 DT "C3'" C N S 116 DT "O3'" O N N 117 DT "C2'" C N N 118 DT "C1'" C N R 119 DT N1 N N N 120 DT C2 C N N 121 DT O2 O N N 122 DT N3 N N N 123 DT C4 C N N 124 DT O4 O N N 125 DT C5 C N N 126 DT C7 C N N 127 DT C6 C N N 128 DT HOP3 H N N 129 DT HOP2 H N N 130 DT "H5'" H N N 131 DT "H5''" H N N 132 DT "H4'" H N N 133 DT "H3'" H N N 134 DT "HO3'" H N N 135 DT "H2'" H N N 136 DT "H2''" H N N 137 DT "H1'" H N N 138 DT H3 H N N 139 DT H71 H N N 140 DT H72 H N N 141 DT H73 H N N 142 DT H6 H N N 143 HOH O O N N 144 HOH H1 H N N 145 HOH H2 H N N 146 MG MG MG N N 147 NCO CO CO N N 148 NCO N1 N N N 149 NCO N2 N N N 150 NCO N3 N N N 151 NCO N4 N N N 152 NCO N5 N N N 153 NCO N6 N N N 154 NCO HN11 H N N 155 NCO HN12 H N N 156 NCO HN13 H N N 157 NCO HN21 H N N 158 NCO HN22 H N N 159 NCO HN23 H N N 160 NCO HN31 H N N 161 NCO HN32 H N N 162 NCO HN33 H N N 163 NCO HN41 H N N 164 NCO HN42 H N N 165 NCO HN43 H N N 166 NCO HN51 H N N 167 NCO HN52 H N N 168 NCO HN53 H N N 169 NCO HN61 H N N 170 NCO HN62 H N N 171 NCO HN63 H N N 172 # 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 DT OP3 P sing N N 113 DT OP3 HOP3 sing N N 114 DT P OP1 doub N N 115 DT P OP2 sing N N 116 DT P "O5'" sing N N 117 DT OP2 HOP2 sing N N 118 DT "O5'" "C5'" sing N N 119 DT "C5'" "C4'" sing N N 120 DT "C5'" "H5'" sing N N 121 DT "C5'" "H5''" sing N N 122 DT "C4'" "O4'" sing N N 123 DT "C4'" "C3'" sing N N 124 DT "C4'" "H4'" sing N N 125 DT "O4'" "C1'" sing N N 126 DT "C3'" "O3'" sing N N 127 DT "C3'" "C2'" sing N N 128 DT "C3'" "H3'" sing N N 129 DT "O3'" "HO3'" sing N N 130 DT "C2'" "C1'" sing N N 131 DT "C2'" "H2'" sing N N 132 DT "C2'" "H2''" sing N N 133 DT "C1'" N1 sing N N 134 DT "C1'" "H1'" sing N N 135 DT N1 C2 sing N N 136 DT N1 C6 sing N N 137 DT C2 O2 doub N N 138 DT C2 N3 sing N N 139 DT N3 C4 sing N N 140 DT N3 H3 sing N N 141 DT C4 O4 doub N N 142 DT C4 C5 sing N N 143 DT C5 C7 sing N N 144 DT C5 C6 doub N N 145 DT C7 H71 sing N N 146 DT C7 H72 sing N N 147 DT C7 H73 sing N N 148 DT C6 H6 sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 NCO CO N1 sing N N 152 NCO CO N2 sing N N 153 NCO CO N3 sing N N 154 NCO CO N4 sing N N 155 NCO CO N5 sing N N 156 NCO CO N6 sing N N 157 NCO N1 HN11 sing N N 158 NCO N1 HN12 sing N N 159 NCO N1 HN13 sing N N 160 NCO N2 HN21 sing N N 161 NCO N2 HN22 sing N N 162 NCO N2 HN23 sing N N 163 NCO N3 HN31 sing N N 164 NCO N3 HN32 sing N N 165 NCO N3 HN33 sing N N 166 NCO N4 HN41 sing N N 167 NCO N4 HN42 sing N N 168 NCO N4 HN43 sing N N 169 NCO N5 HN51 sing N N 170 NCO N5 HN52 sing N N 171 NCO N5 HN53 sing N N 172 NCO N6 HN61 sing N N 173 NCO N6 HN62 sing N N 174 NCO N6 HN63 sing N N 175 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1D8X 'double helix' 1D8X 'b-form double helix' 1D8X 'mismatched base pair' # 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 1 1_555 B DG 10 1_555 0.103 -0.053 0.112 0.294 -6.065 -1.714 1 A_DC1:DG20_B A 1 ? B 20 ? 19 1 1 A DC 2 1_555 B DG 9 1_555 0.321 -0.075 -0.122 5.782 9.555 -0.015 2 A_DC2:DG19_B A 2 ? B 19 ? 19 1 1 A DG 3 1_555 B DA 8 1_555 6.536 -4.340 0.568 34.320 3.911 4.702 3 A_DG3:DA18_B A 3 ? B 18 ? 11 9 1 A DA 4 1_555 B DG 7 1_555 -6.601 -4.171 0.961 -42.679 -9.392 4.643 4 A_DA4:DG17_B A 4 ? B 17 ? 11 9 1 A DA 5 1_555 B DT 6 1_555 0.129 -0.135 0.025 -14.987 14.930 2.750 5 A_DA5:DT16_B A 5 ? B 16 ? 20 1 1 A DT 6 1_555 B DA 5 1_555 0.049 -0.074 0.117 12.912 9.833 0.804 6 A_DT6:DA15_B A 6 ? B 15 ? 20 1 1 A DG 7 1_555 B DA 4 1_555 6.502 -4.223 1.044 38.614 -5.772 6.814 7 A_DG7:DA14_B A 7 ? B 14 ? 11 9 1 A DA 8 1_555 B DG 3 1_555 -6.516 -4.370 0.839 -31.656 -1.622 6.447 8 A_DA8:DG13_B A 8 ? B 13 ? 11 9 1 A DG 9 1_555 B DC 2 1_555 -0.218 -0.112 -0.271 -5.507 7.126 -0.993 9 A_DG9:DC12_B A 9 ? B 12 ? 19 1 1 A DG 10 1_555 B DC 1 1_555 -0.086 -0.010 0.262 4.248 -9.274 -0.577 10 A_DG10:DC11_B A 10 ? B 11 ? 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 1 1_555 B DG 10 1_555 A DC 2 1_555 B DG 9 1_555 1.176 0.332 3.383 8.109 12.132 35.537 -1.156 -0.680 3.488 18.923 -12.648 38.327 1 AA_DC1DC2:DG19DG20_BB A 1 ? B 20 ? A 2 ? B 19 ? 1 A DC 2 1_555 B DG 9 1_555 A DG 3 1_555 B DA 8 1_555 0.730 1.439 2.992 -1.551 5.025 56.661 1.252 -0.846 3.079 5.282 1.630 56.884 2 AA_DC2DG3:DA18DG19_BB A 2 ? B 19 ? A 3 ? B 18 ? 1 A DG 3 1_555 B DA 8 1_555 A DA 4 1_555 B DG 7 1_555 0.075 -1.320 5.254 -1.716 -1.623 -2.586 58.923 -38.230 3.305 29.138 -30.810 -3.502 3 AA_DG3DA4:DG17DA18_BB A 3 ? B 18 ? A 4 ? B 17 ? 1 A DA 4 1_555 B DG 7 1_555 A DA 5 1_555 B DT 6 1_555 -0.436 1.209 3.141 -0.373 2.358 67.096 1.005 0.380 3.179 2.133 0.338 67.133 4 AA_DA4DA5:DT16DG17_BB A 4 ? B 17 ? A 5 ? B 16 ? 1 A DA 5 1_555 B DT 6 1_555 A DT 6 1_555 B DA 5 1_555 0.056 -0.544 3.001 -0.300 5.635 19.499 -3.826 -0.280 2.735 16.203 0.862 20.292 5 AA_DA5DT6:DA15DT16_BB A 5 ? B 16 ? A 6 ? B 15 ? 1 A DT 6 1_555 B DA 5 1_555 A DG 7 1_555 B DA 4 1_555 0.790 0.859 3.101 1.616 6.974 61.161 0.524 -0.699 3.190 6.829 -1.582 61.538 6 AA_DT6DG7:DA14DA15_BB A 6 ? B 15 ? A 7 ? B 14 ? 1 A DG 7 1_555 B DA 4 1_555 A DA 8 1_555 B DG 3 1_555 0.026 -1.716 5.114 1.229 -2.298 -3.319 57.228 18.487 3.082 33.637 17.986 -4.219 7 AA_DG7DA8:DG13DA14_BB A 7 ? B 14 ? A 8 ? B 13 ? 1 A DA 8 1_555 B DG 3 1_555 A DG 9 1_555 B DC 2 1_555 -0.873 1.551 3.014 6.210 6.883 57.376 1.257 1.208 3.064 7.118 -6.422 58.057 8 AA_DA8DG9:DC12DG13_BB A 8 ? B 13 ? A 9 ? B 12 ? 1 A DG 9 1_555 B DC 2 1_555 A DG 10 1_555 B DC 1 1_555 -1.262 1.499 3.346 -7.490 4.840 33.857 1.694 0.861 3.705 8.137 12.591 34.978 9 AA_DG9DG10:DC11DC12_BB A 9 ? B 12 ? A 10 ? B 11 ? # _atom_sites.entry_id 1D8X _atom_sites.fract_transf_matrix[1][1] 0.015928 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004084 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.028023 _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] 0.045951 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CO MG N O P # loop_