data_5AY3 # _entry.id 5AY3 # _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 5AY3 pdb_00005ay3 10.2210/pdb5ay3/pdb WWPDB D_1300000159 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2015-10-21 2 'Structure model' 1 1 2015-11-11 3 'Structure model' 1 2 2017-10-11 4 'Structure model' 1 3 2024-03-20 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Database references' # 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 3 'Structure model' citation 2 3 'Structure model' diffrn_source 3 3 'Structure model' pdbx_struct_oper_list 4 3 'Structure model' reflns_shell 5 4 'Structure model' chem_comp_atom 6 4 'Structure model' chem_comp_bond 7 4 'Structure model' database_2 # 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 3 'Structure model' '_citation.journal_id_CSD' 2 3 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 3 3 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' 4 3 'Structure model' '_reflns_shell.percent_possible_all' 5 4 'Structure model' '_database_2.pdbx_DOI' 6 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5AY3 _pdbx_database_status.recvd_initial_deposition_date 2015-08-06 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kondo, J.' 1 'Tada, Y.' 2 'Dairaku, T.' 3 'Saneyoshi, H.' 4 'Okamoto, I.' 5 'Tanaka, Y.' 6 'Ono, A.' 7 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country GE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Angew.Chem.Int.Ed.Engl. _citation.journal_id_ASTM ACIEAY _citation.journal_id_CSD 0179 _citation.journal_id_ISSN 1521-3773 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 54 _citation.language ? _citation.page_first 13323 _citation.page_last 13326 _citation.title 'High-Resolution Crystal Structure of a Silver(I)-RNA Hybrid Duplex Containing Watson-Crick-like CSilver(I)C Metallo-Base Pairs' _citation.year 2015 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/anie.201507894 _citation.pdbx_database_id_PubMed 26448329 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kondo, J.' 1 ? primary 'Tada, Y.' 2 ? primary 'Dairaku, T.' 3 ? primary 'Saneyoshi, H.' 4 ? primary 'Okamoto, I.' 5 ? primary 'Tanaka, Y.' 6 ? primary 'Ono, A.' 7 ? # 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 ;RNA (5'-R(*GP*GP*AP*CP*UP*(CBR)P*GP*A*CP*UP*CP*C)-3') ; 3850.208 2 ? ? ? ? 2 water nat water 18.015 171 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'GGACU(CBR)GACUCC' _entity_poly.pdbx_seq_one_letter_code_can GGACUCGACUCC _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 G n 1 2 G n 1 3 A n 1 4 C n 1 5 U n 1 6 CBR n 1 7 G n 1 8 A n 1 9 C n 1 10 U n 1 11 C n 1 12 C n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 12 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # 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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CBR 'DNA linking' n "5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 Br N3 O7 P' 386.093 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # 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 G 1 1 1 G G A . n A 1 2 G 2 2 2 G G A . n A 1 3 A 3 3 3 A A A . n A 1 4 C 4 4 4 C C A . n A 1 5 U 5 5 5 U U A . n A 1 6 CBR 6 6 6 CBR CBR A . n A 1 7 G 7 7 7 G G A . n A 1 8 A 8 8 8 A A A . n A 1 9 C 9 9 9 C C A . n A 1 10 U 10 10 10 U U A . n A 1 11 C 11 11 11 C C A . n A 1 12 C 12 12 12 C C A . n B 1 1 G 1 1 1 G G B . n B 1 2 G 2 2 2 G G B . n B 1 3 A 3 3 3 A A B . n B 1 4 C 4 4 4 C C B . n B 1 5 U 5 5 5 U U B . n B 1 6 CBR 6 6 6 CBR CBR B . n B 1 7 G 7 7 7 G G B . n B 1 8 A 8 8 8 A A B . n B 1 9 C 9 9 9 C C B . n B 1 10 U 10 10 10 U U B . n B 1 11 C 11 11 11 C C B . n B 1 12 C 12 12 12 C C 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 HOH 1 101 267 HOH HOH A . C 2 HOH 2 102 269 HOH HOH A . C 2 HOH 3 103 263 HOH HOH A . C 2 HOH 4 104 194 HOH HOH A . C 2 HOH 5 105 169 HOH HOH A . C 2 HOH 6 106 110 HOH HOH A . C 2 HOH 7 107 174 HOH HOH A . C 2 HOH 8 108 195 HOH HOH A . C 2 HOH 9 109 116 HOH HOH A . C 2 HOH 10 110 167 HOH HOH A . C 2 HOH 11 111 128 HOH HOH A . C 2 HOH 12 112 197 HOH HOH A . C 2 HOH 13 113 193 HOH HOH A . C 2 HOH 14 114 101 HOH HOH A . C 2 HOH 15 115 102 HOH HOH A . C 2 HOH 16 116 213 HOH HOH A . C 2 HOH 17 117 154 HOH HOH A . C 2 HOH 18 118 256 HOH HOH A . C 2 HOH 19 119 278 HOH HOH A . C 2 HOH 20 120 185 HOH HOH A . C 2 HOH 21 121 155 HOH HOH A . C 2 HOH 22 122 275 HOH HOH A . C 2 HOH 23 123 133 HOH HOH A . C 2 HOH 24 124 211 HOH HOH A . C 2 HOH 25 125 168 HOH HOH A . C 2 HOH 26 126 129 HOH HOH A . C 2 HOH 27 127 107 HOH HOH A . C 2 HOH 28 128 163 HOH HOH A . C 2 HOH 29 129 144 HOH HOH A . C 2 HOH 30 130 187 HOH HOH A . C 2 HOH 31 131 142 HOH HOH A . C 2 HOH 32 132 162 HOH HOH A . C 2 HOH 33 133 227 HOH HOH A . C 2 HOH 34 134 218 HOH HOH A . C 2 HOH 35 135 166 HOH HOH A . C 2 HOH 36 136 190 HOH HOH A . C 2 HOH 37 137 151 HOH HOH A . C 2 HOH 38 138 113 HOH HOH A . C 2 HOH 39 139 230 HOH HOH A . C 2 HOH 40 140 224 HOH HOH A . C 2 HOH 41 141 137 HOH HOH A . C 2 HOH 42 142 139 HOH HOH A . C 2 HOH 43 143 274 HOH HOH A . C 2 HOH 44 144 180 HOH HOH A . C 2 HOH 45 145 146 HOH HOH A . C 2 HOH 46 146 228 HOH HOH A . C 2 HOH 47 147 183 HOH HOH A . C 2 HOH 48 148 117 HOH HOH A . C 2 HOH 49 149 108 HOH HOH A . C 2 HOH 50 150 203 HOH HOH A . C 2 HOH 51 151 114 HOH HOH A . C 2 HOH 52 152 106 HOH HOH A . C 2 HOH 53 153 170 HOH HOH A . C 2 HOH 54 154 158 HOH HOH A . C 2 HOH 55 155 236 HOH HOH A . C 2 HOH 56 156 276 HOH HOH A . C 2 HOH 57 157 131 HOH HOH A . C 2 HOH 58 158 132 HOH HOH A . C 2 HOH 59 159 121 HOH HOH A . C 2 HOH 60 160 191 HOH HOH A . C 2 HOH 61 161 192 HOH HOH A . C 2 HOH 62 162 202 HOH HOH A . C 2 HOH 63 163 240 HOH HOH A . C 2 HOH 64 164 198 HOH HOH A . C 2 HOH 65 165 147 HOH HOH A . C 2 HOH 66 166 115 HOH HOH A . C 2 HOH 67 167 184 HOH HOH A . C 2 HOH 68 168 157 HOH HOH A . C 2 HOH 69 169 199 HOH HOH A . C 2 HOH 70 170 188 HOH HOH A . C 2 HOH 71 171 221 HOH HOH A . C 2 HOH 72 172 148 HOH HOH A . C 2 HOH 73 173 175 HOH HOH A . C 2 HOH 74 174 152 HOH HOH A . C 2 HOH 75 175 243 HOH HOH A . C 2 HOH 76 176 200 HOH HOH A . C 2 HOH 77 177 208 HOH HOH A . C 2 HOH 78 178 266 HOH HOH A . C 2 HOH 79 179 239 HOH HOH A . C 2 HOH 80 180 254 HOH HOH A . C 2 HOH 81 181 259 HOH HOH A . C 2 HOH 82 182 215 HOH HOH A . C 2 HOH 83 183 234 HOH HOH A . C 2 HOH 84 184 205 HOH HOH A . C 2 HOH 85 185 253 HOH HOH A . C 2 HOH 86 186 257 HOH HOH A . C 2 HOH 87 187 233 HOH HOH A . C 2 HOH 88 188 280 HOH HOH A . C 2 HOH 89 189 260 HOH HOH A . C 2 HOH 90 190 232 HOH HOH A . C 2 HOH 91 191 255 HOH HOH A . C 2 HOH 92 192 251 HOH HOH A . D 2 HOH 1 101 268 HOH HOH B . D 2 HOH 2 102 119 HOH HOH B . D 2 HOH 3 103 112 HOH HOH B . D 2 HOH 4 104 109 HOH HOH B . D 2 HOH 5 105 246 HOH HOH B . D 2 HOH 6 106 156 HOH HOH B . D 2 HOH 7 107 212 HOH HOH B . D 2 HOH 8 108 149 HOH HOH B . D 2 HOH 9 109 150 HOH HOH B . D 2 HOH 10 110 141 HOH HOH B . D 2 HOH 11 111 124 HOH HOH B . D 2 HOH 12 112 126 HOH HOH B . D 2 HOH 13 113 171 HOH HOH B . D 2 HOH 14 114 134 HOH HOH B . D 2 HOH 15 115 145 HOH HOH B . D 2 HOH 16 116 138 HOH HOH B . D 2 HOH 17 117 204 HOH HOH B . D 2 HOH 18 118 223 HOH HOH B . D 2 HOH 19 119 136 HOH HOH B . D 2 HOH 20 120 161 HOH HOH B . D 2 HOH 21 121 104 HOH HOH B . D 2 HOH 22 122 220 HOH HOH B . D 2 HOH 23 123 103 HOH HOH B . D 2 HOH 24 124 196 HOH HOH B . D 2 HOH 25 125 111 HOH HOH B . D 2 HOH 26 126 135 HOH HOH B . D 2 HOH 27 127 120 HOH HOH B . D 2 HOH 28 128 125 HOH HOH B . D 2 HOH 29 129 270 HOH HOH B . D 2 HOH 30 130 179 HOH HOH B . D 2 HOH 31 131 241 HOH HOH B . D 2 HOH 32 132 160 HOH HOH B . D 2 HOH 33 133 173 HOH HOH B . D 2 HOH 34 134 189 HOH HOH B . D 2 HOH 35 135 165 HOH HOH B . D 2 HOH 36 136 130 HOH HOH B . D 2 HOH 37 137 225 HOH HOH B . D 2 HOH 38 138 176 HOH HOH B . D 2 HOH 39 139 164 HOH HOH B . D 2 HOH 40 140 123 HOH HOH B . D 2 HOH 41 141 172 HOH HOH B . D 2 HOH 42 142 231 HOH HOH B . D 2 HOH 43 143 159 HOH HOH B . D 2 HOH 44 144 153 HOH HOH B . D 2 HOH 45 145 122 HOH HOH B . D 2 HOH 46 146 238 HOH HOH B . D 2 HOH 47 147 118 HOH HOH B . D 2 HOH 48 148 273 HOH HOH B . D 2 HOH 49 149 105 HOH HOH B . D 2 HOH 50 150 201 HOH HOH B . D 2 HOH 51 151 209 HOH HOH B . D 2 HOH 52 152 217 HOH HOH B . D 2 HOH 53 153 250 HOH HOH B . D 2 HOH 54 154 127 HOH HOH B . D 2 HOH 55 155 178 HOH HOH B . D 2 HOH 56 156 181 HOH HOH B . D 2 HOH 57 157 242 HOH HOH B . D 2 HOH 58 158 140 HOH HOH B . D 2 HOH 59 159 226 HOH HOH B . D 2 HOH 60 160 216 HOH HOH B . D 2 HOH 61 161 143 HOH HOH B . D 2 HOH 62 162 271 HOH HOH B . D 2 HOH 63 163 177 HOH HOH B . D 2 HOH 64 164 182 HOH HOH B . D 2 HOH 65 165 206 HOH HOH B . D 2 HOH 66 166 262 HOH HOH B . D 2 HOH 67 167 265 HOH HOH B . D 2 HOH 68 168 237 HOH HOH B . D 2 HOH 69 169 210 HOH HOH B . D 2 HOH 70 170 207 HOH HOH B . D 2 HOH 71 171 186 HOH HOH B . D 2 HOH 72 172 264 HOH HOH B . D 2 HOH 73 173 214 HOH HOH B . D 2 HOH 74 174 247 HOH HOH B . D 2 HOH 75 175 252 HOH HOH B . D 2 HOH 76 176 272 HOH HOH B . D 2 HOH 77 177 219 HOH HOH B . D 2 HOH 78 178 222 HOH HOH B . D 2 HOH 79 179 235 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? CNS ? ? ? 1.3 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XSCALE ? ? ? . 2 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? . 3 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.15 4 # _cell.entry_id 5AY3 _cell.length_a 27.160 _cell.length_b 44.460 _cell.length_c 27.370 _cell.angle_alpha 90.00 _cell.angle_beta 109.43 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5AY3 _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 5AY3 _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.07 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 40.47 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details 'MPD, Spermine, Lithium Nitrate, MOPS' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-11-25 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.98 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-17A' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.98 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL-17A _diffrn_source.pdbx_synchrotron_site 'Photon Factory' # _reflns.B_iso_Wilson_estimate 17.18 _reflns.entry_id 5AY3 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.200 _reflns.d_resolution_low 25.8 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 19127 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3.000 _reflns.percent_possible_obs 99.300 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.2 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 22.160 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.meanI_over_sigI_all _reflns_shell.meanI_over_sigI_obs _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.number_unique_obs _reflns_shell.percent_possible_all _reflns_shell.percent_possible_obs _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_gt _reflns_shell.meanI_over_uI_all _reflns_shell.meanI_over_uI_gt _reflns_shell.number_measured_gt _reflns_shell.number_unique_gt _reflns_shell.percent_possible_gt _reflns_shell.Rmerge_F_gt _reflns_shell.Rmerge_I_gt _reflns_shell.pdbx_redundancy _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_netI_over_sigmaI_all _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_rejects _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_R_split 1.200 1.230 ? 5.410 ? 4234 1427 ? 1405 98.500 ? ? 0.962 ? 0.188 ? ? ? ? ? ? ? ? 3.0 ? ? ? ? 0.227 ? 0 1 1 ? ? 1.230 1.270 ? 6.600 ? 4274 1362 ? 1355 99.500 ? ? 0.975 ? 0.161 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.194 ? 0 2 1 ? ? 1.270 1.300 ? 7.010 ? 4478 1384 ? 1374 99.300 ? ? 0.978 ? 0.152 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.182 ? 0 3 1 ? ? 1.300 1.340 ? 8.380 ? 4231 1286 ? 1285 99.900 ? ? 0.981 ? 0.129 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.154 ? 0 4 1 ? ? 1.340 1.390 ? 9.520 ? 3986 1256 ? 1248 99.400 ? ? 0.986 ? 0.110 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.133 ? 0 5 1 ? ? 1.390 1.440 ? 11.930 ? 4074 1255 ? 1247 99.400 ? ? 0.991 ? 0.087 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.104 ? 0 6 1 ? ? 1.440 1.490 ? 14.250 ? 3800 1172 ? 1165 99.400 ? ? 0.993 ? 0.072 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.086 ? 0 7 1 ? ? 1.490 1.550 ? 17.340 ? 3641 1104 ? 1099 99.500 ? ? 0.995 ? 0.057 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.068 ? 0 8 1 ? ? 1.550 1.620 ? 20.420 ? 3470 1088 ? 1090 100.000 ? ? 0.997 ? 0.048 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.057 ? 0 9 1 ? ? 1.620 1.700 ? 26.160 ? 3595 1074 ? 1062 98.900 ? ? 0.999 ? 0.035 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.041 ? 0 10 1 ? ? 1.700 1.790 ? 29.730 ? 3111 975 ? 973 99.800 ? ? 0.998 ? 0.032 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.039 ? 0 11 1 ? ? 1.790 1.900 ? 32.570 ? 3244 953 ? 949 99.600 ? ? 0.998 ? 0.031 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.037 ? 0 12 1 ? ? 1.900 2.030 ? 36.140 ? 2885 879 ? 875 99.500 ? ? 0.998 ? 0.027 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.033 ? 0 13 1 ? ? 2.030 2.190 ? 38.850 ? 2723 825 ? 818 99.200 ? ? 0.999 ? 0.027 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.032 ? 0 14 1 ? ? 2.190 2.400 ? 41.470 ? 2419 757 ? 748 98.800 ? ? 0.999 ? 0.025 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.030 ? 0 15 1 ? ? 2.400 2.690 ? 45.330 ? 2310 698 ? 685 98.100 ? ? 0.999 ? 0.023 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.027 ? 0 16 1 ? ? 2.690 3.100 ? 48.460 ? 1961 619 ? 611 98.700 ? ? 0.999 ? 0.020 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.025 ? 0 17 1 ? ? 3.100 3.800 ? 52.410 ? 1683 510 ? 504 98.800 ? ? 0.999 ? 0.018 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.022 ? 0 18 1 ? ? 3.800 5.370 ? 53.190 ? 1322 408 ? 404 99.000 ? ? 0.999 ? 0.019 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.022 ? 0 19 1 ? ? 5.370 25.80 ? 50.640 ? 718 235 ? 230 97.900 ? ? 0.998 ? 0.020 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.024 ? 0 20 1 ? ? # _refine.entry_id 5AY3 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_d_res_high 1.2000 _refine.ls_d_res_low 25.80 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.2000 _refine.ls_number_reflns_obs 19127 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.ls_matrix_type ? _refine.pdbx_R_Free_selection_details ? _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_R_work 0.1841 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.1985 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 9.8000 _refine.ls_number_reflns_R_free 1891 _refine.ls_number_reflns_R_work 17236 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 16.3542 _refine.solvent_model_param_bsol 43.3617 _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.4170 _refine.aniso_B[2][2] -1.4150 _refine.aniso_B[3][3] 1.8330 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -2.1480 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _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.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.solvent_model_details ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 60.770 _refine.B_iso_min 7.940 _refine.pdbx_overall_phase_error ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_R_factor_R_free_error_details ? # _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 500 _refine_hist.pdbx_number_atoms_ligand 40 _refine_hist.number_atoms_solvent 171 _refine_hist.number_atoms_total 711 _refine_hist.d_res_high 1.2000 _refine_hist.d_res_low 25.80 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' c_bond_d ? 0.004 ? ? ? 'X-RAY DIFFRACTION' c_angle_d ? 0.910 ? ? ? 'X-RAY DIFFRACTION' c_mcbond_it ? 0.000 1.500 ? ? 'X-RAY DIFFRACTION' c_scbond_it ? 1.119 2.000 ? ? 'X-RAY DIFFRACTION' c_mcangle_it ? 0.000 2.000 ? ? 'X-RAY DIFFRACTION' c_scangle_it ? 1.546 2.500 ? ? # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.R_factor_obs 1.2000 1.2400 10 96.3000 1682 . 0.2487 0.2729 . 190 . 1872 . 'X-RAY DIFFRACTION' . 1.2400 1.2900 10 99.6000 1717 . 0.2488 0.2742 . 175 . 1892 . 'X-RAY DIFFRACTION' . 1.2900 1.3500 10 99.7000 1733 . 0.2504 0.2779 . 179 . 1912 . 'X-RAY DIFFRACTION' . 1.3500 1.4200 10 99.6000 1686 . 0.2286 0.2565 . 211 . 1897 . 'X-RAY DIFFRACTION' . 1.4200 1.5100 10 99.5000 1714 . 0.2092 0.2168 . 213 . 1927 . 'X-RAY DIFFRACTION' . 1.5100 1.6300 10 99.8000 1738 . 0.1892 0.2074 . 184 . 1922 . 'X-RAY DIFFRACTION' . 1.6300 1.7900 10 99.7000 1749 . 0.1759 0.1991 . 156 . 1905 . 'X-RAY DIFFRACTION' . 1.7900 2.0500 10 99.7000 1747 . 0.1768 0.1995 . 166 . 1913 . 'X-RAY DIFFRACTION' . 2.0500 2.5900 10 99.0000 1703 . 0.1937 0.2061 . 225 . 1928 . 'X-RAY DIFFRACTION' . 2.5900 100.0000 10 99.1000 1767 . 0.1559 0.1606 . 192 . 1959 . 'X-RAY DIFFRACTION' . # loop_ _pdbx_xplor_file.pdbx_refine_id _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file 'X-RAY DIFFRACTION' 1 bru.param ? 'X-RAY DIFFRACTION' 2 dna-rna_free.param ? 'X-RAY DIFFRACTION' 3 CNS_TOPPAR:water_rep.param ? 'X-RAY DIFFRACTION' 4 CNS_TOPPAR:ion.param ? # _struct.entry_id 5AY3 _struct.title 'Crystal structure of RNA duplex containing C-C base pairs' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag ? # _struct_keywords.entry_id 5AY3 _struct_keywords.text 'RNA, X-Ray analysis, metallo base pair, Ag(I)' _struct_keywords.pdbx_keywords RNA # 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5AY3 _struct_ref.pdbx_db_accession 5AY3 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # 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 5AY3 A 1 ? 12 ? 5AY3 1 ? 12 ? 1 12 2 1 5AY3 B 1 ? 12 ? 5AY3 1 ? 12 ? 1 12 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2260 ? 1 MORE -0 ? 1 'SSA (A^2)' 4250 ? # _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 # _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 # 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 U 5 "O3'" ? ? ? 1_555 A CBR 6 P ? ? A U 5 A CBR 6 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale2 covale both ? A CBR 6 "O3'" ? ? ? 1_555 A G 7 P ? ? A CBR 6 A G 7 1_555 ? ? ? ? ? ? ? 1.604 ? ? covale3 covale both ? B U 5 "O3'" ? ? ? 1_555 B CBR 6 P ? ? B U 5 B CBR 6 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale4 covale both ? B CBR 6 "O3'" ? ? ? 1_555 B G 7 P ? ? B CBR 6 B G 7 1_555 ? ? ? ? ? ? ? 1.602 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 12 N3 ? ? A G 1 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 12 O2 ? ? A G 1 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 12 N4 ? ? A G 1 B C 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 2 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 2 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 2 B C 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 10 N3 ? ? A A 3 B U 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 10 O4 ? ? A A 3 B U 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 N3 ? ? ? 1_555 B C 9 N4 ? ? A C 4 B C 9 1_555 ? ? ? ? ? ? 'C-C MISPAIR' ? ? ? hydrog10 hydrog ? ? A U 5 N3 ? ? ? 1_555 B A 8 N1 ? ? A U 5 B A 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 5 O4 ? ? ? 1_555 B A 8 N6 ? ? A U 5 B A 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A CBR 6 N3 ? ? ? 1_555 B G 7 N1 ? ? A CBR 6 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A CBR 6 N4 ? ? ? 1_555 B G 7 O6 ? ? A CBR 6 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A CBR 6 O2 ? ? ? 1_555 B G 7 N2 ? ? A CBR 6 B G 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 7 N1 ? ? ? 1_555 B CBR 6 N3 ? ? A G 7 B CBR 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N2 ? ? ? 1_555 B CBR 6 O2 ? ? A G 7 B CBR 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 O6 ? ? ? 1_555 B CBR 6 N4 ? ? A G 7 B CBR 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A A 8 N1 ? ? ? 1_555 B U 5 N3 ? ? A A 8 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A A 8 N6 ? ? ? 1_555 B U 5 O4 ? ? A A 8 B U 5 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A C 9 N3 B ? ? 1_555 B C 4 N4 B ? A C 9 B C 4 1_555 ? ? ? ? ? ? TYPE_14_PAIR ? ? ? hydrog21 hydrog ? ? A C 9 N4 A ? ? 1_555 B C 4 N3 A ? A C 9 B C 4 1_555 ? ? ? ? ? ? TYPE_14_PAIR ? ? ? hydrog22 hydrog ? ? A U 10 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 10 B A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A U 10 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 10 B A 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 11 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 11 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 11 B G 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 12 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 12 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A C 12 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 12 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 12 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 12 B G 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O B HOH 129 ? ? O B HOH 156 ? ? 1.62 2 1 O B HOH 157 ? ? O B HOH 172 ? ? 1.64 3 1 O B HOH 113 ? ? O B HOH 144 ? ? 2.16 # loop_ _pdbx_diffrn_reflns_shell.diffrn_id _pdbx_diffrn_reflns_shell.d_res_high _pdbx_diffrn_reflns_shell.d_res_low _pdbx_diffrn_reflns_shell.number_obs _pdbx_diffrn_reflns_shell.rejects _pdbx_diffrn_reflns_shell.Rmerge_I_obs _pdbx_diffrn_reflns_shell.Rsym_value _pdbx_diffrn_reflns_shell.chi_squared _pdbx_diffrn_reflns_shell.redundancy _pdbx_diffrn_reflns_shell.percent_possible_obs 1 1.40 1.44 1794 ? 0.243 ? ? ? ? 1 1.44 1.48 1655 ? 0.192 ? ? ? ? 1 1.48 1.52 1694 ? 0.151 ? ? ? ? 1 1.52 1.57 1594 ? 0.120 ? ? ? ? 1 1.57 1.62 1573 ? 0.093 ? ? ? ? 1 1.62 1.67 1544 ? 0.063 ? ? ? ? 1 1.67 1.74 1430 ? 0.053 ? ? ? ? 1 1.74 1.81 1457 ? 0.052 ? ? ? ? 1 1.81 1.89 1300 ? 0.044 ? ? ? ? 1 1.89 1.98 1322 ? 0.040 ? ? ? ? 1 1.98 2.09 1264 ? 0.036 ? ? ? ? 1 2.09 2.22 1117 ? 0.034 ? ? ? ? 1 2.22 2.37 1092 ? 0.032 ? ? ? ? 1 2.37 2.56 993 ? 0.030 ? ? ? ? 1 2.56 2.80 927 ? 0.028 ? ? ? ? 1 2.80 3.13 846 ? 0.022 ? ? ? ? 1 3.13 3.62 723 ? 0.022 ? ? ? ? 1 3.62 4.43 632 ? 0.020 ? ? ? ? 1 4.43 6.27 501 ? 0.023 ? ? ? ? 1 6.27 25.8 254 ? 0.021 ? ? ? ? # _phasing.method SAD # 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 A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 CBR BR BR N N 73 CBR P P N N 74 CBR OP1 O N N 75 CBR OP2 O N N 76 CBR "O5'" O N N 77 CBR N1 N N N 78 CBR C6 C N N 79 CBR C2 C N N 80 CBR O2 O N N 81 CBR N3 N N N 82 CBR C4 C N N 83 CBR N4 N N N 84 CBR C5 C N N 85 CBR "C2'" C N N 86 CBR "C5'" C N N 87 CBR "C4'" C N R 88 CBR "O4'" O N N 89 CBR "C1'" C N R 90 CBR "C3'" C N S 91 CBR "O3'" O N N 92 CBR OP3 O N N 93 CBR HOP2 H N N 94 CBR H6 H N N 95 CBR H41 H N N 96 CBR H42 H N N 97 CBR "H2'" H N N 98 CBR "H2''" H N N 99 CBR "H5'" H N N 100 CBR "H5''" H N N 101 CBR "H4'" H N N 102 CBR "H1'" H N N 103 CBR "H3'" H N N 104 CBR "HO3'" H N N 105 CBR HOP3 H N N 106 G OP3 O N N 107 G P P N N 108 G OP1 O N N 109 G OP2 O N N 110 G "O5'" O N N 111 G "C5'" C N N 112 G "C4'" C N R 113 G "O4'" O N N 114 G "C3'" C N S 115 G "O3'" O N N 116 G "C2'" C N R 117 G "O2'" O N N 118 G "C1'" C N R 119 G N9 N Y N 120 G C8 C Y N 121 G N7 N Y N 122 G C5 C Y N 123 G C6 C N N 124 G O6 O N N 125 G N1 N N N 126 G C2 C N N 127 G N2 N N N 128 G N3 N N N 129 G C4 C Y N 130 G HOP3 H N N 131 G HOP2 H N N 132 G "H5'" H N N 133 G "H5''" H N N 134 G "H4'" H N N 135 G "H3'" H N N 136 G "HO3'" H N N 137 G "H2'" H N N 138 G "HO2'" H N N 139 G "H1'" H N N 140 G H8 H N N 141 G H1 H N N 142 G H21 H N N 143 G H22 H N N 144 HOH O O N N 145 HOH H1 H N N 146 HOH H2 H N N 147 U OP3 O N N 148 U P P N N 149 U OP1 O N N 150 U OP2 O N N 151 U "O5'" O N N 152 U "C5'" C N N 153 U "C4'" C N R 154 U "O4'" O N N 155 U "C3'" C N S 156 U "O3'" O N N 157 U "C2'" C N R 158 U "O2'" O N N 159 U "C1'" C N R 160 U N1 N N N 161 U C2 C N N 162 U O2 O N N 163 U N3 N N N 164 U C4 C N N 165 U O4 O N N 166 U C5 C N N 167 U C6 C N N 168 U HOP3 H N N 169 U HOP2 H N N 170 U "H5'" H N N 171 U "H5''" H N N 172 U "H4'" H N N 173 U "H3'" H N N 174 U "HO3'" H N N 175 U "H2'" H N N 176 U "HO2'" H N N 177 U "H1'" H N N 178 U H3 H N N 179 U H5 H N N 180 U H6 H N N 181 # 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 A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 CBR BR C5 sing N N 76 CBR P OP1 doub N N 77 CBR P OP2 sing N N 78 CBR P "O5'" sing N N 79 CBR P OP3 sing N N 80 CBR OP2 HOP2 sing N N 81 CBR "O5'" "C5'" sing N N 82 CBR N1 C6 sing N N 83 CBR N1 C2 sing N N 84 CBR N1 "C1'" sing N N 85 CBR C6 C5 doub N N 86 CBR C6 H6 sing N N 87 CBR C2 O2 doub N N 88 CBR C2 N3 sing N N 89 CBR N3 C4 doub N N 90 CBR C4 N4 sing N N 91 CBR C4 C5 sing N N 92 CBR N4 H41 sing N N 93 CBR N4 H42 sing N N 94 CBR "C2'" "C1'" sing N N 95 CBR "C2'" "C3'" sing N N 96 CBR "C2'" "H2'" sing N N 97 CBR "C2'" "H2''" sing N N 98 CBR "C5'" "C4'" sing N N 99 CBR "C5'" "H5'" sing N N 100 CBR "C5'" "H5''" sing N N 101 CBR "C4'" "O4'" sing N N 102 CBR "C4'" "C3'" sing N N 103 CBR "C4'" "H4'" sing N N 104 CBR "O4'" "C1'" sing N N 105 CBR "C1'" "H1'" sing N N 106 CBR "C3'" "O3'" sing N N 107 CBR "C3'" "H3'" sing N N 108 CBR "O3'" "HO3'" sing N N 109 CBR OP3 HOP3 sing N N 110 G OP3 P sing N N 111 G OP3 HOP3 sing N N 112 G P OP1 doub N N 113 G P OP2 sing N N 114 G P "O5'" sing N N 115 G OP2 HOP2 sing N N 116 G "O5'" "C5'" sing N N 117 G "C5'" "C4'" sing N N 118 G "C5'" "H5'" sing N N 119 G "C5'" "H5''" sing N N 120 G "C4'" "O4'" sing N N 121 G "C4'" "C3'" sing N N 122 G "C4'" "H4'" sing N N 123 G "O4'" "C1'" sing N N 124 G "C3'" "O3'" sing N N 125 G "C3'" "C2'" sing N N 126 G "C3'" "H3'" sing N N 127 G "O3'" "HO3'" sing N N 128 G "C2'" "O2'" sing N N 129 G "C2'" "C1'" sing N N 130 G "C2'" "H2'" sing N N 131 G "O2'" "HO2'" sing N N 132 G "C1'" N9 sing N N 133 G "C1'" "H1'" sing N N 134 G N9 C8 sing Y N 135 G N9 C4 sing Y N 136 G C8 N7 doub Y N 137 G C8 H8 sing N N 138 G N7 C5 sing Y N 139 G C5 C6 sing N N 140 G C5 C4 doub Y N 141 G C6 O6 doub N N 142 G C6 N1 sing N N 143 G N1 C2 sing N N 144 G N1 H1 sing N N 145 G C2 N2 sing N N 146 G C2 N3 doub N N 147 G N2 H21 sing N N 148 G N2 H22 sing N N 149 G N3 C4 sing N N 150 HOH O H1 sing N N 151 HOH O H2 sing N N 152 U OP3 P sing N N 153 U OP3 HOP3 sing N N 154 U P OP1 doub N N 155 U P OP2 sing N N 156 U P "O5'" sing N N 157 U OP2 HOP2 sing N N 158 U "O5'" "C5'" sing N N 159 U "C5'" "C4'" sing N N 160 U "C5'" "H5'" sing N N 161 U "C5'" "H5''" sing N N 162 U "C4'" "O4'" sing N N 163 U "C4'" "C3'" sing N N 164 U "C4'" "H4'" sing N N 165 U "O4'" "C1'" sing N N 166 U "C3'" "O3'" sing N N 167 U "C3'" "C2'" sing N N 168 U "C3'" "H3'" sing N N 169 U "O3'" "HO3'" sing N N 170 U "C2'" "O2'" sing N N 171 U "C2'" "C1'" sing N N 172 U "C2'" "H2'" sing N N 173 U "O2'" "HO2'" sing N N 174 U "C1'" N1 sing N N 175 U "C1'" "H1'" sing N N 176 U N1 C2 sing N N 177 U N1 C6 sing N N 178 U C2 O2 doub N N 179 U C2 N3 sing N N 180 U N3 C4 sing N N 181 U N3 H3 sing N N 182 U C4 O4 doub N N 183 U C4 C5 sing N N 184 U C5 C6 doub N N 185 U C5 H5 sing N N 186 U C6 H6 sing N N 187 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 5AY3 'double helix' 5AY3 'a-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 G 1 1_555 B C 12 1_555 -0.201 -0.105 0.001 -5.242 -5.227 -2.045 1 A_G1:C12_B A 1 ? B 12 ? 19 1 1 A G 2 1_555 B C 11 1_555 -0.205 -0.061 0.039 -5.371 -16.576 4.838 2 A_G2:C11_B A 2 ? B 11 ? 19 1 1 A A 3 1_555 B U 10 1_555 0.013 -0.053 -0.067 -2.827 -10.405 -3.767 3 A_A3:U10_B A 3 ? B 10 ? 20 1 1 A C 4 1_555 B C 9 1_555 2.592 -0.936 -0.407 -2.627 -12.069 -15.693 4 A_C4:C9_B A 4 ? B 9 ? ? ? 1 A U 5 1_555 B A 8 1_555 -0.032 -0.062 0.035 9.472 -3.003 0.633 5 A_U5:A8_B A 5 ? B 8 ? 20 1 1 A CBR 6 1_555 B G 7 1_555 0.114 -0.127 -0.151 11.985 -16.081 -0.428 6 A_CBR6:G7_B A 6 ? B 7 ? 19 1 1 A G 7 1_555 B CBR 6 1_555 -0.215 -0.147 -0.079 -5.414 -12.894 -0.695 7 A_G7:CBR6_B A 7 ? B 6 ? 19 1 1 A A 8 1_555 B U 5 1_555 0.007 -0.097 0.240 3.435 -12.442 4.075 8 A_A8:U5_B A 8 ? B 5 ? 20 1 1 A C 9 1_555 B C 4 1_555 -2.377 -0.791 -0.400 -4.950 -15.836 -14.055 9 A_C9:C4_B A 9 ? B 4 ? 14 1 1 A U 10 1_555 B A 3 1_555 -0.057 -0.054 -0.071 -0.148 -7.807 -3.852 10 A_U10:A3_B A 10 ? B 3 ? 20 1 1 A C 11 1_555 B G 2 1_555 0.497 -0.145 -0.048 4.880 -12.959 3.195 11 A_C11:G2_B A 11 ? B 2 ? 19 1 1 A C 12 1_555 B G 1 1_555 0.196 -0.117 0.100 1.716 -8.235 -0.958 12 A_C12:G1_B A 12 ? B 1 ? 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 G 1 1_555 B C 12 1_555 A G 2 1_555 B C 11 1_555 0.900 -1.990 3.201 1.526 8.872 31.445 -4.927 -1.361 2.598 15.965 -2.746 32.677 1 AA_G1G2:C11C12_BB A 1 ? B 12 ? A 2 ? B 11 ? 1 A G 2 1_555 B C 11 1_555 A A 3 1_555 B U 10 1_555 -1.152 -1.465 3.136 -1.125 7.018 34.405 -3.396 1.754 2.827 11.709 1.878 35.110 2 AA_G2A3:U10C11_BB A 2 ? B 11 ? A 3 ? B 10 ? 1 A A 3 1_555 B U 10 1_555 A C 4 1_555 B C 9 1_555 -0.461 -1.341 3.400 3.826 7.493 41.769 -2.604 1.021 3.074 10.383 -5.302 42.571 3 AA_A3C4:C9U10_BB A 3 ? B 10 ? A 4 ? B 9 ? 1 A C 4 1_555 B C 9 1_555 A U 5 1_555 B A 8 1_555 0.036 -2.465 2.945 -5.291 10.750 12.825 -12.235 -2.158 0.642 38.775 19.086 17.534 4 AA_C4U5:A8C9_BB A 4 ? B 9 ? A 5 ? B 8 ? 1 A U 5 1_555 B A 8 1_555 A CBR 6 1_555 B G 7 1_555 -0.392 -2.063 3.141 -1.072 8.624 31.829 -4.930 0.530 2.523 15.370 1.911 32.964 5 AA_U5CBR6:G7A8_BB A 5 ? B 8 ? A 6 ? B 7 ? 1 A CBR 6 1_555 B G 7 1_555 A G 7 1_555 B CBR 6 1_555 -0.627 -1.691 3.495 -2.296 14.051 31.846 -4.910 0.708 2.581 24.155 3.947 34.808 6 AA_CBR6G7:CBR6G7_BB A 6 ? B 7 ? A 7 ? B 6 ? 1 A G 7 1_555 B CBR 6 1_555 A A 8 1_555 B U 5 1_555 0.464 -1.222 2.980 -1.240 2.650 33.688 -2.483 -0.978 2.860 4.561 2.134 33.811 7 AA_G7A8:U5CBR6_BB A 7 ? B 6 ? A 8 ? B 5 ? 1 A A 8 1_555 B U 5 1_555 A C 9 1_555 B C 4 1_555 -0.938 -2.325 3.347 0.360 14.641 24.039 -7.645 2.003 1.666 31.668 -0.779 28.093 8 AA_A8C9:C4U5_BB A 8 ? B 5 ? A 9 ? B 4 ? 1 A C 9 1_555 B C 4 1_555 A U 10 1_555 B A 3 1_555 0.521 -1.324 3.206 -2.326 3.251 40.708 -2.237 -0.991 3.063 4.659 3.333 40.896 9 AA_C9U10:A3C4_BB A 9 ? B 4 ? A 10 ? B 3 ? 1 A U 10 1_555 B A 3 1_555 A C 11 1_555 B G 2 1_555 0.702 -1.454 3.156 0.421 4.488 33.428 -3.190 -1.146 2.950 7.759 -0.727 33.722 10 AA_U10C11:G2A3_BB A 10 ? B 3 ? A 11 ? B 2 ? 1 A C 11 1_555 B G 2 1_555 A C 12 1_555 B G 1 1_555 -0.048 -1.994 3.238 0.427 8.086 32.980 -4.610 0.146 2.687 13.983 -0.739 33.932 11 AA_C11C12:G1G2_BB A 11 ? B 2 ? A 12 ? B 1 ? # _atom_sites.entry_id 5AY3 _atom_sites.fract_transf_matrix[1][1] 0.036819 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.012988 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.022492 _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] 0.038743 _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 BR C N O P # loop_