data_461D # _entry.id 461D # _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 461D pdb_0000461d 10.2210/pdb461d/pdb RCSB BD0013 ? ? WWPDB D_1000179241 ? ? # 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 1999-04-08 2 'Structure model' 1 1 2008-05-22 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-28 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 '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' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 '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' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_comp_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_atom_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_comp_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 17 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 18 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 19 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 20 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 21 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 22 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 23 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 24 4 'Structure model' '_pdbx_struct_conn_angle.value' 25 4 'Structure model' '_struct_conn.conn_type_id' 26 4 'Structure model' '_struct_conn.id' 27 4 'Structure model' '_struct_conn.pdbx_dist_value' 28 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 29 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 30 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 31 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 32 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 33 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 34 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 35 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 36 4 'Structure model' '_struct_conn.ptnr1_symmetry' 37 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 38 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 39 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 40 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 41 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 42 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 43 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 44 4 'Structure model' '_struct_conn.ptnr2_symmetry' 45 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 46 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 47 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 461D _pdbx_database_status.recvd_initial_deposition_date 1999-03-12 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Tereshko, V.' 1 'Minasov, G.' 2 'Egli, M.' 3 # _citation.id primary _citation.title ;A "Hydrat-Ion Spine" in a B-DNA minor groove ; _citation.journal_abbrev J.Am.Chem.Soc. _citation.journal_volume 121 _citation.page_first 3590 _citation.page_last 3595 _citation.year 1999 _citation.journal_id_ASTM JACSAT _citation.country US _citation.journal_id_ISSN 0002-7863 _citation.journal_id_CSD 0004 _citation.book_publisher ? _citation.pdbx_database_id_PubMed -1 _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Tereshko, V.' 1 ? primary 'Minasov, G.' 2 ? primary 'Egli, M.' 3 ? # 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(*CP*GP*CP*GP*AP*AP*(TAF)P*TP*CP*GP*CP*G)-3') ; 3681.383 2 ? ? ? ? 2 non-polymer syn 'RUBIDIUM ION' 85.468 1 ? ? ? ? 3 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 4 water nat water 18.015 160 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(TAF)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _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 'RUBIDIUM ION' RB 3 'MAGNESIUM ION' MG 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 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 TAF n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 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 RB non-polymer . 'RUBIDIUM ION' ? 'Rb 1' 85.468 TAF 'DNA linking' n ;2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL THYMINE-5'-PHOSPHATE ; ? 'C10 H14 F N2 O8 P' 340.199 # 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 DG 2 2 2 DG G A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 DG 4 4 4 DG G A . n A 1 5 DA 5 5 5 DA A A . n A 1 6 DA 6 6 6 DA A A . n A 1 7 TAF 7 7 7 TAF TAF A . n A 1 8 DT 8 8 8 DT T A . n A 1 9 DC 9 9 9 DC C A . n A 1 10 DG 10 10 10 DG G A . n A 1 11 DC 11 11 11 DC C A . n A 1 12 DG 12 12 12 DG G A . n B 1 1 DC 1 13 13 DC C B . n B 1 2 DG 2 14 14 DG G B . n B 1 3 DC 3 15 15 DC C B . n B 1 4 DG 4 16 16 DG G B . n B 1 5 DA 5 17 17 DA A B . n B 1 6 DA 6 18 18 DA A B . n B 1 7 TAF 7 19 19 TAF TAF B . n B 1 8 DT 8 20 20 DT T B . n B 1 9 DC 9 21 21 DC C B . n B 1 10 DG 10 22 22 DG G B . n B 1 11 DC 11 23 23 DC C B . n B 1 12 DG 12 24 24 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 RB 1 110 110 RB RB A . D 3 MG 1 25 25 MG MG A . E 3 MG 1 32 32 MG MG B . F 4 HOH 1 26 26 HOH H2O A . F 4 HOH 2 28 28 HOH H2O A . F 4 HOH 3 35 35 HOH H2O A . F 4 HOH 4 36 36 HOH H2O A . F 4 HOH 5 53 53 HOH H2O A . F 4 HOH 6 55 55 HOH H2O A . F 4 HOH 7 56 56 HOH H2O A . F 4 HOH 8 57 57 HOH H2O A . F 4 HOH 9 61 61 HOH H2O A . F 4 HOH 10 62 62 HOH H2O A . F 4 HOH 11 63 63 HOH H2O A . F 4 HOH 12 64 64 HOH H2O A . F 4 HOH 13 65 65 HOH H2O A . F 4 HOH 14 67 67 HOH H2O A . F 4 HOH 15 68 68 HOH H2O A . F 4 HOH 16 76 76 HOH H2O A . F 4 HOH 17 78 78 HOH H2O A . F 4 HOH 18 101 101 HOH H2O A . F 4 HOH 19 102 102 HOH H2O A . F 4 HOH 20 103 103 HOH H2O A . F 4 HOH 21 104 104 HOH H2O A . F 4 HOH 22 106 106 HOH H2O A . F 4 HOH 23 107 107 HOH H2O A . F 4 HOH 24 108 108 HOH H2O A . F 4 HOH 25 112 112 HOH H2O A . F 4 HOH 26 113 113 HOH H2O A . F 4 HOH 27 114 114 HOH H2O A . F 4 HOH 28 117 117 HOH H2O A . F 4 HOH 29 118 118 HOH H2O A . F 4 HOH 30 120 120 HOH H2O A . F 4 HOH 31 122 122 HOH H2O A . F 4 HOH 32 123 123 HOH H2O A . F 4 HOH 33 124 124 HOH H2O A . F 4 HOH 34 125 125 HOH H2O A . F 4 HOH 35 126 126 HOH H2O A . F 4 HOH 36 131 131 HOH H2O A . F 4 HOH 37 133 133 HOH H2O A . F 4 HOH 38 134 134 HOH H2O A . F 4 HOH 39 135 135 HOH H2O A . F 4 HOH 40 139 139 HOH H2O A . F 4 HOH 41 140 140 HOH H2O A . F 4 HOH 42 141 141 HOH H2O A . F 4 HOH 43 142 142 HOH H2O A . F 4 HOH 44 146 146 HOH H2O A . F 4 HOH 45 147 147 HOH H2O A . F 4 HOH 46 149 149 HOH H2O A . F 4 HOH 47 150 150 HOH H2O A . F 4 HOH 48 152 152 HOH H2O A . F 4 HOH 49 153 153 HOH H2O A . F 4 HOH 50 154 154 HOH H2O A . F 4 HOH 51 155 155 HOH H2O A . F 4 HOH 52 156 156 HOH H2O A . F 4 HOH 53 157 157 HOH H2O A . F 4 HOH 54 158 158 HOH H2O A . F 4 HOH 55 159 159 HOH H2O A . F 4 HOH 56 160 160 HOH H2O A . F 4 HOH 57 162 162 HOH H2O A . F 4 HOH 58 165 165 HOH H2O A . F 4 HOH 59 166 166 HOH H2O A . F 4 HOH 60 168 168 HOH H2O A . F 4 HOH 61 173 173 HOH H2O A . F 4 HOH 62 174 174 HOH H2O A . F 4 HOH 63 177 177 HOH H2O A . F 4 HOH 64 179 179 HOH H2O A . F 4 HOH 65 182 182 HOH H2O A . F 4 HOH 66 184 184 HOH H2O A . F 4 HOH 67 186 186 HOH H2O A . F 4 HOH 68 188 188 HOH H2O A . F 4 HOH 69 197 197 HOH H2O A . F 4 HOH 70 198 198 HOH H2O A . F 4 HOH 71 201 201 HOH H2O A . F 4 HOH 72 203 203 HOH H2O A . F 4 HOH 73 208 208 HOH H2O A . F 4 HOH 74 222 222 HOH H2O A . F 4 HOH 75 223 223 HOH H2O A . F 4 HOH 76 227 227 HOH H2O A . F 4 HOH 77 235 235 HOH H2O A . F 4 HOH 78 247 247 HOH H2O A . F 4 HOH 79 249 249 HOH H2O A . F 4 HOH 80 265 265 HOH H2O A . F 4 HOH 81 267 267 HOH H2O A . F 4 HOH 82 268 268 HOH H2O A . F 4 HOH 83 271 271 HOH H2O A . F 4 HOH 84 272 272 HOH H2O A . F 4 HOH 85 273 273 HOH H2O A . F 4 HOH 86 277 277 HOH H2O A . F 4 HOH 87 1126 1126 HOH H2O A . F 4 HOH 88 1157 1157 HOH H2O A . F 4 HOH 89 1159 1159 HOH H2O A . F 4 HOH 90 1208 1208 HOH H2O A . F 4 HOH 91 2001 2001 HOH H2O A . G 4 HOH 1 27 27 HOH H2O B . G 4 HOH 2 29 29 HOH H2O B . G 4 HOH 3 30 30 HOH H2O B . G 4 HOH 4 31 31 HOH H2O B . G 4 HOH 5 33 33 HOH H2O B . G 4 HOH 6 34 34 HOH H2O B . G 4 HOH 7 37 37 HOH H2O B . G 4 HOH 8 48 48 HOH H2O B . G 4 HOH 9 69 69 HOH H2O B . G 4 HOH 10 70 70 HOH H2O B . G 4 HOH 11 72 72 HOH H2O B . G 4 HOH 12 73 73 HOH H2O B . G 4 HOH 13 74 74 HOH H2O B . G 4 HOH 14 75 75 HOH H2O B . G 4 HOH 15 79 79 HOH H2O B . G 4 HOH 16 105 105 HOH H2O B . G 4 HOH 17 109 109 HOH H2O B . G 4 HOH 18 111 111 HOH H2O B . G 4 HOH 19 115 115 HOH H2O B . G 4 HOH 20 116 116 HOH H2O B . G 4 HOH 21 119 119 HOH H2O B . G 4 HOH 22 121 121 HOH H2O B . G 4 HOH 23 127 127 HOH H2O B . G 4 HOH 24 128 128 HOH H2O B . G 4 HOH 25 129 129 HOH H2O B . G 4 HOH 26 130 130 HOH H2O B . G 4 HOH 27 132 132 HOH H2O B . G 4 HOH 28 136 136 HOH H2O B . G 4 HOH 29 137 137 HOH H2O B . G 4 HOH 30 143 143 HOH H2O B . G 4 HOH 31 144 144 HOH H2O B . G 4 HOH 32 145 145 HOH H2O B . G 4 HOH 33 148 148 HOH H2O B . G 4 HOH 34 151 151 HOH H2O B . G 4 HOH 35 161 161 HOH H2O B . G 4 HOH 36 163 163 HOH H2O B . G 4 HOH 37 164 164 HOH H2O B . G 4 HOH 38 167 167 HOH H2O B . G 4 HOH 39 169 169 HOH H2O B . G 4 HOH 40 170 170 HOH H2O B . G 4 HOH 41 172 172 HOH H2O B . G 4 HOH 42 175 175 HOH H2O B . G 4 HOH 43 176 176 HOH H2O B . G 4 HOH 44 181 181 HOH H2O B . G 4 HOH 45 183 183 HOH H2O B . G 4 HOH 46 187 187 HOH H2O B . G 4 HOH 47 190 190 HOH H2O B . G 4 HOH 48 191 191 HOH H2O B . G 4 HOH 49 192 192 HOH H2O B . G 4 HOH 50 193 193 HOH H2O B . G 4 HOH 51 195 195 HOH H2O B . G 4 HOH 52 202 202 HOH H2O B . G 4 HOH 53 207 207 HOH H2O B . G 4 HOH 54 209 209 HOH H2O B . G 4 HOH 55 211 211 HOH H2O B . G 4 HOH 56 213 213 HOH H2O B . G 4 HOH 57 228 228 HOH H2O B . G 4 HOH 58 230 230 HOH H2O B . G 4 HOH 59 242 242 HOH H2O B . G 4 HOH 60 257 257 HOH H2O B . G 4 HOH 61 264 264 HOH H2O B . G 4 HOH 62 270 270 HOH H2O B . G 4 HOH 63 274 274 HOH H2O B . G 4 HOH 64 278 278 HOH H2O B . G 4 HOH 65 279 279 HOH H2O B . G 4 HOH 66 285 285 HOH H2O B . G 4 HOH 67 286 286 HOH H2O B . G 4 HOH 68 1174 1174 HOH H2O B . G 4 HOH 69 1212 1212 HOH H2O B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 SHELXL-97 refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 461D _cell.length_a 25.070 _cell.length_b 39.720 _cell.length_c 65.770 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 461D _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 # _exptl.entry_id 461D _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.22 _exptl_crystal.density_percent_sol 44.69 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 295 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.9 _exptl_crystal_grow.pdbx_details ;SITTING DROPLETS CONTAINING 1.2 MM OLIGONUCLEOTIDE, 20 MM RB CACODYLATE PH 6.9, 6.2 MM MAGNESIUM ACETATE, 3.2 MM SPERMINE TETRACHLORIDE AGAINST RESERVOIR OF 40% MPD, VAPOR DIFFUSION, SITTING DROP, temperature 295K ; _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 'RB CACODYLATE' ? ? ? 1 2 1 'MAGNESIUM ACETATE' ? ? ? 1 3 1 SPERMINE ? ? ? 1 4 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _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 1998-11-17 _diffrn_detector.details MIRRORS # _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 461D _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.0 _reflns.d_resolution_high 1.5 _reflns.number_obs 10813 _reflns.number_all 10813 _reflns.percent_possible_obs 98.8 _reflns.pdbx_Rmerge_I_obs 0.0840000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 4.3 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.50 _reflns_shell.d_res_low 1.55 _reflns_shell.percent_possible_all 96.1 _reflns_shell.Rmerge_I_obs 0.0940000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 461D _refine.ls_number_reflns_obs 10813 _refine.ls_number_reflns_all 10813 _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 1.5 _refine.ls_percent_reflns_obs 98.8 _refine.ls_R_factor_obs 0.1860000 _refine.ls_R_factor_all 0.1860000 _refine.ls_R_factor_R_work ? _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _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 ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _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_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 508 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 160 _refine_hist.number_atoms_total 671 _refine_hist.d_res_high 1.5 _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 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.017 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist ? ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes ? ? ? ? 'X-RAY DIFFRACTION' ? s_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol ? ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr ? ? ? ? 'X-RAY DIFFRACTION' ? s_rigid_bond_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_similar_adp_cmpnt ? ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps ? ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 461D _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 461D _struct.title ;A "HYDRAT-ION SPINE" IN A B-DNA MINOR GROOVE ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 461D _struct_keywords.pdbx_keywords DNA _struct_keywords.text 'B-DNA, DODECAMER DUPLEX, TYPE 2 RB+ FORM CRYSTAL, 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 3 ? 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 461D _struct_ref.pdbx_db_accession 461D _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 461D A 1 ? 12 ? 461D 1 ? 12 ? 1 12 2 1 461D B 1 ? 12 ? 461D 13 ? 24 ? 13 24 # _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 covale1 covale both ? A DA 6 "O3'" ? ? ? 1_555 A TAF 7 P ? ? A DA 6 A TAF 7 1_555 ? ? ? ? ? ? ? 1.603 ? ? covale2 covale one ? A TAF 7 "O3'" ? ? ? 1_555 A DT 8 P ? ? A TAF 7 A DT 8 1_555 ? ? ? ? ? ? ? 1.611 ? ? covale3 covale both ? B DA 6 "O3'" ? ? ? 1_555 B TAF 7 P ? ? B DA 18 B TAF 19 1_555 ? ? ? ? ? ? ? 1.602 ? ? covale4 covale one ? B TAF 7 "O3'" ? ? ? 1_555 B DT 8 P ? ? B TAF 19 B DT 20 1_555 ? ? ? ? ? ? ? 1.608 ? ? metalc1 metalc ? ? A TAF 7 O2 ? ? ? 1_555 C RB . RB ? ? A TAF 7 A RB 110 1_555 ? ? ? ? ? ? ? 2.818 ? ? metalc2 metalc ? ? A DT 8 "O4'" ? ? ? 1_555 C RB . RB ? ? A DT 8 A RB 110 1_555 ? ? ? ? ? ? ? 3.469 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 25 A HOH 26 1_555 ? ? ? ? ? ? ? 2.208 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 25 A HOH 28 1_555 ? ? ? ? ? ? ? 2.083 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 25 B HOH 27 1_555 ? ? ? ? ? ? ? 2.121 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 25 B HOH 29 1_555 ? ? ? ? ? ? ? 2.133 ? ? metalc7 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 25 B HOH 30 1_555 ? ? ? ? ? ? ? 2.143 ? ? metalc8 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 25 B HOH 31 1_555 ? ? ? ? ? ? ? 2.144 ? ? metalc9 metalc ? ? F HOH . O ? ? ? 2_554 E MG . MG ? ? A HOH 35 B MG 32 1_555 ? ? ? ? ? ? ? 1.986 ? ? metalc10 metalc ? ? F HOH . O ? ? ? 2_554 E MG . MG ? ? A HOH 36 B MG 32 1_555 ? ? ? ? ? ? ? 2.124 ? ? metalc11 metalc ? ? C RB . RB ? ? ? 1_555 F HOH . O ? ? A RB 110 A HOH 131 1_555 ? ? ? ? ? ? ? 2.800 ? ? metalc12 metalc ? ? C RB . RB ? ? ? 1_555 F HOH . O ? ? A RB 110 A HOH 265 1_555 ? ? ? ? ? ? ? 3.211 ? ? metalc13 metalc ? ? C RB . RB ? ? ? 1_555 B TAF 7 O2 ? ? A RB 110 B TAF 19 1_555 ? ? ? ? ? ? ? 2.707 ? ? metalc14 metalc ? ? C RB . RB ? ? ? 1_555 B DT 8 "O4'" ? ? A RB 110 B DT 20 1_555 ? ? ? ? ? ? ? 3.305 ? ? metalc15 metalc ? ? C RB . RB ? ? ? 1_555 G HOH . O ? ? A RB 110 B HOH 145 1_555 ? ? ? ? ? ? ? 2.768 ? ? metalc16 metalc ? ? F HOH . O ? ? ? 2_554 E MG . MG ? ? A HOH 2001 B MG 32 1_555 ? ? ? ? ? ? ? 1.888 ? ? metalc17 metalc ? ? B TAF 7 OP1 ? ? ? 3_645 E MG . MG ? ? B TAF 19 B MG 32 1_555 ? ? ? ? ? ? ? 2.176 ? ? metalc18 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 32 B HOH 33 3_645 ? ? ? ? ? ? ? 2.057 ? ? metalc19 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 32 B HOH 34 1_555 ? ? ? ? ? ? ? 2.175 ? ? metalc20 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 32 B HOH 37 1_555 ? ? ? ? ? ? ? 2.049 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B TAF 7 N3 ? ? A DA 6 B TAF 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B TAF 7 O4 ? ? A DA 6 B TAF 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A TAF 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A TAF 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A TAF 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A TAF 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 A ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 A ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 A ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? 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 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? A DT 8 ? A DT 8 ? 1_555 64.7 ? 2 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? F HOH . ? A HOH 131 ? 1_555 114.2 ? 3 "O4'" ? A DT 8 ? A DT 8 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? F HOH . ? A HOH 131 ? 1_555 76.5 ? 4 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? F HOH . ? A HOH 265 ? 1_555 137.1 ? 5 "O4'" ? A DT 8 ? A DT 8 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? F HOH . ? A HOH 265 ? 1_555 75.7 ? 6 O ? F HOH . ? A HOH 131 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? F HOH . ? A HOH 265 ? 1_555 69.0 ? 7 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O2 ? B TAF 7 ? B TAF 19 ? 1_555 78.8 ? 8 "O4'" ? A DT 8 ? A DT 8 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O2 ? B TAF 7 ? B TAF 19 ? 1_555 133.8 ? 9 O ? F HOH . ? A HOH 131 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O2 ? B TAF 7 ? B TAF 19 ? 1_555 95.0 ? 10 O ? F HOH . ? A HOH 265 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O2 ? B TAF 7 ? B TAF 19 ? 1_555 143.8 ? 11 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? B DT 8 ? B DT 20 ? 1_555 133.9 ? 12 "O4'" ? A DT 8 ? A DT 8 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? B DT 8 ? B DT 20 ? 1_555 159.5 ? 13 O ? F HOH . ? A HOH 131 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? B DT 8 ? B DT 20 ? 1_555 98.0 ? 14 O ? F HOH . ? A HOH 265 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? B DT 8 ? B DT 20 ? 1_555 83.9 ? 15 O2 ? B TAF 7 ? B TAF 19 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 "O4'" ? B DT 8 ? B DT 20 ? 1_555 65.8 ? 16 O2 ? A TAF 7 ? A TAF 7 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 97.0 ? 17 "O4'" ? A DT 8 ? A DT 8 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 94.6 ? 18 O ? F HOH . ? A HOH 131 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 138.6 ? 19 O ? F HOH . ? A HOH 265 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 69.7 ? 20 O2 ? B TAF 7 ? B TAF 19 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 118.1 ? 21 "O4'" ? B DT 8 ? B DT 20 ? 1_555 RB ? C RB . ? A RB 110 ? 1_555 O ? G HOH . ? B HOH 145 ? 1_555 76.4 ? 22 O ? F HOH . ? A HOH 26 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? F HOH . ? A HOH 28 ? 1_555 93.1 ? 23 O ? F HOH . ? A HOH 26 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 27 ? 1_555 175.1 ? 24 O ? F HOH . ? A HOH 28 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 27 ? 1_555 86.7 ? 25 O ? F HOH . ? A HOH 26 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 29 ? 1_555 87.3 ? 26 O ? F HOH . ? A HOH 28 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 29 ? 1_555 175.6 ? 27 O ? G HOH . ? B HOH 27 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 29 ? 1_555 93.3 ? 28 O ? F HOH . ? A HOH 26 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 30 ? 1_555 95.7 ? 29 O ? F HOH . ? A HOH 28 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 30 ? 1_555 86.7 ? 30 O ? G HOH . ? B HOH 27 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 30 ? 1_555 89.3 ? 31 O ? G HOH . ? B HOH 29 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 30 ? 1_555 88.9 ? 32 O ? F HOH . ? A HOH 26 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 31 ? 1_555 87.8 ? 33 O ? F HOH . ? A HOH 28 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 31 ? 1_555 95.3 ? 34 O ? G HOH . ? B HOH 27 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 31 ? 1_555 87.3 ? 35 O ? G HOH . ? B HOH 29 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 31 ? 1_555 89.1 ? 36 O ? G HOH . ? B HOH 30 ? 1_555 MG ? D MG . ? A MG 25 ? 1_555 O ? G HOH . ? B HOH 31 ? 1_555 175.9 ? 37 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? F HOH . ? A HOH 36 ? 2_554 80.3 ? 38 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? F HOH . ? A HOH 2001 ? 2_554 5.6 ? 39 O ? F HOH . ? A HOH 36 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? F HOH . ? A HOH 2001 ? 2_554 77.2 ? 40 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 90.2 ? 41 O ? F HOH . ? A HOH 36 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 85.8 ? 42 O ? F HOH . ? A HOH 2001 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 94.6 ? 43 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 33 ? 3_645 114.9 ? 44 O ? F HOH . ? A HOH 36 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 33 ? 3_645 156.4 ? 45 O ? F HOH . ? A HOH 2001 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 33 ? 3_645 116.2 ? 46 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 33 ? 3_645 111.0 ? 47 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 34 ? 1_555 100.8 ? 48 O ? F HOH . ? A HOH 36 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 34 ? 1_555 85.3 ? 49 O ? F HOH . ? A HOH 2001 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 34 ? 1_555 95.8 ? 50 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 34 ? 1_555 164.4 ? 51 O ? G HOH . ? B HOH 33 ? 3_645 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 34 ? 1_555 74.4 ? 52 O ? F HOH . ? A HOH 35 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 166.4 ? 53 O ? F HOH . ? A HOH 36 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 86.5 ? 54 O ? F HOH . ? A HOH 2001 ? 2_554 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 161.7 ? 55 OP1 ? B TAF 7 ? B TAF 19 ? 3_645 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 92.3 ? 56 O ? G HOH . ? B HOH 33 ? 3_645 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 76.6 ? 57 O ? G HOH . ? B HOH 34 ? 1_555 MG ? E MG . ? B MG 32 ? 1_555 O ? G HOH . ? B HOH 37 ? 1_555 74.4 ? # 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 RB 110 ? 6 'BINDING SITE FOR RESIDUE RB A 110' AC2 Software A MG 25 ? 6 'BINDING SITE FOR RESIDUE MG A 25' AC3 Software B MG 32 ? 7 'BINDING SITE FOR RESIDUE MG B 32' # 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 TAF A 7 ? TAF A 7 . ? 1_555 ? 2 AC1 6 DT A 8 ? DT A 8 . ? 1_555 ? 3 AC1 6 HOH F . ? HOH A 131 . ? 1_555 ? 4 AC1 6 TAF B 7 ? TAF B 19 . ? 1_555 ? 5 AC1 6 DT B 8 ? DT B 20 . ? 1_555 ? 6 AC1 6 HOH G . ? HOH B 145 . ? 1_555 ? 7 AC2 6 HOH F . ? HOH A 26 . ? 1_555 ? 8 AC2 6 HOH F . ? HOH A 28 . ? 1_555 ? 9 AC2 6 HOH G . ? HOH B 27 . ? 1_555 ? 10 AC2 6 HOH G . ? HOH B 29 . ? 1_555 ? 11 AC2 6 HOH G . ? HOH B 30 . ? 1_555 ? 12 AC2 6 HOH G . ? HOH B 31 . ? 1_555 ? 13 AC3 7 HOH F . ? HOH A 35 . ? 2_554 ? 14 AC3 7 HOH F . ? HOH A 36 . ? 2_554 ? 15 AC3 7 HOH F . ? HOH A 2001 . ? 2_554 ? 16 AC3 7 TAF B 7 ? TAF B 19 . ? 3_645 ? 17 AC3 7 HOH G . ? HOH B 33 . ? 3_645 ? 18 AC3 7 HOH G . ? HOH B 34 . ? 1_555 ? 19 AC3 7 HOH G . ? HOH B 37 . ? 1_555 ? # 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 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 102.05 108.00 -5.95 0.70 N 2 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 96.85 102.40 -5.55 0.80 N 3 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 103.26 108.00 -4.74 0.70 N # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A TAF 7 A TAF 7 ? DT ? 2 B TAF 7 B TAF 19 ? DT ? # _pdbx_unobs_or_zero_occ_residues.id 1 _pdbx_unobs_or_zero_occ_residues.PDB_model_num 1 _pdbx_unobs_or_zero_occ_residues.polymer_flag N _pdbx_unobs_or_zero_occ_residues.occupancy_flag 0 _pdbx_unobs_or_zero_occ_residues.auth_asym_id A _pdbx_unobs_or_zero_occ_residues.auth_comp_id HOH _pdbx_unobs_or_zero_occ_residues.auth_seq_id 265 _pdbx_unobs_or_zero_occ_residues.PDB_ins_code ? _pdbx_unobs_or_zero_occ_residues.label_asym_id F _pdbx_unobs_or_zero_occ_residues.label_comp_id HOH _pdbx_unobs_or_zero_occ_residues.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 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 RB RB RB N N 148 TAF P P N N 149 TAF OP1 O N N 150 TAF OP2 O N N 151 TAF OP3 O N N 152 TAF "O5'" O N N 153 TAF N1 N N N 154 TAF C6 C N N 155 TAF C2 C N N 156 TAF O2 O N N 157 TAF N3 N N N 158 TAF C4 C N N 159 TAF O4 O N N 160 TAF C5 C N N 161 TAF C5M C N N 162 TAF "F2'" F N N 163 TAF "C2'" C N S 164 TAF "C5'" C N N 165 TAF "C4'" C N R 166 TAF "O4'" O N N 167 TAF "C1'" C N R 168 TAF "C3'" C N R 169 TAF "O3'" O N N 170 TAF HOP1 H N N 171 TAF HOP2 H N N 172 TAF H6 H N N 173 TAF H3 H N N 174 TAF H71 H N N 175 TAF H72 H N N 176 TAF H73 H N N 177 TAF "H2'" H N N 178 TAF "H5'" H N N 179 TAF "H5''" H N N 180 TAF "H4'" H N N 181 TAF "H1'" H N N 182 TAF "H3'" H N N 183 TAF "HO'3" H N N 184 # 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 TAF P OP1 sing N N 152 TAF P OP2 sing N N 153 TAF P OP3 doub N N 154 TAF P "O5'" sing N N 155 TAF OP1 HOP1 sing N N 156 TAF OP2 HOP2 sing N N 157 TAF "O5'" "C5'" sing N N 158 TAF N1 C6 sing N N 159 TAF N1 C2 sing N N 160 TAF N1 "C1'" sing N N 161 TAF C6 C5 doub N N 162 TAF C6 H6 sing N N 163 TAF C2 O2 doub N N 164 TAF C2 N3 sing N N 165 TAF N3 C4 sing N N 166 TAF N3 H3 sing N N 167 TAF C4 O4 doub N N 168 TAF C4 C5 sing N N 169 TAF C5 C5M sing N N 170 TAF C5M H71 sing N N 171 TAF C5M H72 sing N N 172 TAF C5M H73 sing N N 173 TAF "F2'" "C2'" sing N N 174 TAF "C2'" "C1'" sing N N 175 TAF "C2'" "C3'" sing N N 176 TAF "C2'" "H2'" sing N N 177 TAF "C5'" "C4'" sing N N 178 TAF "C5'" "H5'" sing N N 179 TAF "C5'" "H5''" sing N N 180 TAF "C4'" "O4'" sing N N 181 TAF "C4'" "C3'" sing N N 182 TAF "C4'" "H4'" sing N N 183 TAF "O4'" "C1'" sing N N 184 TAF "C1'" "H1'" sing N N 185 TAF "C3'" "O3'" sing N N 186 TAF "C3'" "H3'" sing N N 187 TAF "O3'" "HO'3" sing N N 188 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 461D 'double helix' 461D '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 1 1_555 B DG 12 1_555 0.191 -0.137 0.173 5.133 -16.487 0.118 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.195 -0.184 0.236 4.065 -6.871 -4.189 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.078 -0.110 0.226 -1.581 -7.067 -0.912 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.254 -0.176 0.060 13.640 -10.181 -0.308 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 -0.015 -0.139 -0.098 5.387 -15.203 1.096 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B TAF 7 1_555 0.115 -0.066 0.114 3.594 -20.355 4.874 6 A_DA6:TAF19_B A 6 ? B 19 ? 20 1 1 A TAF 7 1_555 B DA 6 1_555 0.013 -0.098 0.208 -2.429 -18.020 4.569 7 A_TAF7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 -0.065 -0.127 -0.124 -1.806 -16.228 3.208 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.291 -0.053 0.097 -15.114 -6.820 -0.179 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.053 -0.130 0.392 5.035 -7.764 3.167 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.028 -0.188 0.349 5.465 -19.037 -1.446 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 -0.977 -0.127 -0.366 11.443 26.756 -1.033 12 A_DG12:DC13_B A 12 ? B 13 ? 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 12 1_555 A DG 2 1_555 B DC 11 1_555 -0.259 0.019 3.326 -0.871 4.080 34.678 -0.597 0.297 3.312 6.815 1.454 34.920 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.691 0.472 3.464 1.231 -4.830 41.016 1.216 -0.840 3.408 -6.863 -1.749 41.305 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.369 0.639 3.070 2.425 11.044 26.528 -1.123 1.271 3.043 22.794 -5.006 28.798 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 0.032 -0.185 3.420 0.364 2.329 39.522 -0.557 -0.002 3.404 3.441 -0.537 39.590 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B TAF 7 1_555 0.172 -0.458 3.243 -1.068 0.226 35.758 -0.777 -0.432 3.234 0.368 1.738 35.774 5 AA_DA5DA6:TAF19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B TAF 7 1_555 A TAF 7 1_555 B DA 6 1_555 -0.029 -0.767 3.293 -1.242 -0.873 30.066 -1.297 -0.200 3.312 -1.681 2.393 30.104 6 AA_DA6TAF7:DA18TAF19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A TAF 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.085 -0.362 3.153 3.966 -1.941 35.173 -0.320 0.702 3.140 -3.196 -6.531 35.440 7 AA_TAF7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 -0.143 -0.251 3.529 -1.341 -1.647 42.599 -0.166 0.051 3.539 -2.265 1.845 42.649 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 0.581 0.653 2.973 -3.640 3.481 26.705 0.593 -2.070 2.929 7.452 7.792 27.168 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.254 0.529 3.411 -3.479 -12.530 42.941 1.880 1.317 3.230 -16.665 4.628 44.777 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 1.279 0.371 3.620 3.524 -13.448 31.470 2.966 -1.555 3.313 -23.417 -6.135 34.333 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # _atom_sites.entry_id 461D _atom_sites.fract_transf_matrix[1][1] 0.039888 _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] 0.025176 _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] 0.015205 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C F MG N O P RB # loop_