data_2OE5 # _entry.id 2OE5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 2OE5 pdb_00002oe5 10.2210/pdb2oe5/pdb NDB DR0035 ? ? RCSB RCSB041021 ? ? WWPDB D_1000041021 ? ? # 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 2007-02-13 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-12-27 5 'Structure model' 1 4 2024-04-03 # _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' Advisory 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Structure summary' 8 5 'Structure model' 'Refinement description' # 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 2 4 'Structure model' chem_comp_atom 3 4 'Structure model' chem_comp_bond 4 4 'Structure model' database_2 5 4 'Structure model' pdbx_struct_conn_angle 6 4 'Structure model' struct_conn 7 4 'Structure model' struct_site 8 5 'Structure model' pdbx_initial_refinement_model # 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' '_chem_comp.pdbx_synonyms' 2 4 'Structure model' '_database_2.pdbx_DOI' 3 4 'Structure model' '_database_2.pdbx_database_accession' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_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.ptnr2_auth_asym_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.value' 14 4 'Structure model' '_struct_conn.pdbx_dist_value' 15 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id' 16 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 17 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 18 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 19 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 20 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 21 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 22 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 23 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 24 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 25 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 26 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 27 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 28 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 29 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2OE5 _pdbx_database_status.recvd_initial_deposition_date 2006-12-28 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2OE6 ;2.4 A X-ray crystal structure of unliganded RNA fragment GGGCGUCGCUAGUACC/CGGUACUAAAAGUCGCC containing the human ribosomal decoding A site: RNA construct with 5'-overhang ; unspecified PDB 2OE8 ;1.8 A X-ray crystal structure of Apramycin complex with RNA fragment GGGCGUCGCUAGUACC/CGGUACUAAAAGUCGCC containing the human ribosomal decoding A site: RNA construct with 5'-overhang ; unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Hermann, T.' 1 'Tereshko, V.' 2 'Skripkin, E.' 3 'Patel, D.J.' 4 # _citation.id primary _citation.title 'Apramycin recognition by the human ribosomal decoding site.' _citation.journal_abbrev 'Blood Cells Mol.Dis.' _citation.journal_volume 38 _citation.page_first 193 _citation.page_last 198 _citation.year 2007 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1079-9796 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 17258916 _citation.pdbx_database_id_DOI 10.1016/j.bcmd.2006.11.006 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hermann, T.' 1 ? primary 'Tereshko, V.' 2 ? primary 'Skripkin, E.' 3 ? primary 'Patel, D.J.' 4 ? # 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*CP*GP*UP*CP*GP*CP*UP*AP*GP*UP*AP*CP*CP*G)-3') ; 5129.095 1 ? ? ? ? 2 polymer syn ;RNA (5'-R(*GP*GP*UP*AP*CP*UP*AP*AP*AP*AP*GP*UP*CP*GP*CP*CP*C)-3') ; 5426.300 1 ? ? ? ? 3 non-polymer syn 'SULFATE ION' 96.063 1 ? ? ? ? 4 non-polymer syn 'MAGNESIUM ION' 24.305 2 ? ? ? ? 5 non-polymer syn APRAMYCIN 539.577 1 ? ? ? ? 6 water nat water 18.015 164 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no GGCGUCGCUAGUACCG GGCGUCGCUAGUACCG A ? 2 polyribonucleotide no no GGUACUAAAAGUCGCCC GGUACUAAAAGUCGCCC B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'SULFATE ION' SO4 4 'MAGNESIUM ION' MG 5 APRAMYCIN AM2 6 water 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 C n 1 4 G n 1 5 U n 1 6 C n 1 7 G n 1 8 C n 1 9 U n 1 10 A n 1 11 G n 1 12 U n 1 13 A n 1 14 C n 1 15 C n 1 16 G n 2 1 G n 2 2 G n 2 3 U n 2 4 A n 2 5 C n 2 6 U n 2 7 A n 2 8 A n 2 9 A n 2 10 A n 2 11 G n 2 12 U n 2 13 C n 2 14 G n 2 15 C n 2 16 C n 2 17 C n # loop_ _pdbx_entity_src_syn.entity_id _pdbx_entity_src_syn.pdbx_src_id _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_entity_src_syn.pdbx_beg_seq_num _pdbx_entity_src_syn.pdbx_end_seq_num _pdbx_entity_src_syn.organism_scientific _pdbx_entity_src_syn.organism_common_name _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.details 1 1 sample ? ? ? ? ? 'Chemically synthesized' 2 1 sample ? ? ? ? ? 'Chemically synthesized' # 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 AM2 non-polymer . APRAMYCIN ;NEBRAMYCIN II; 4-O-(3ALPHA-AMINO-6ALPHA-((4-AMINO-4-DEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY)-2,3,4,5ABETA,6,7,8,8AALPHA-OCTAHYDRO-8BETA-HYDROXY-7BETA-(METHYLAMINO)PYRANO(3,2-B)PYRAN-2ALPHA-YL)-2-DEOXY-D-STREPTAMINE ; 'C21 H41 N5 O11' 539.577 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 2 2 G G A . n A 1 2 G 2 3 3 G G A . n A 1 3 C 3 1404 1404 C C A . n A 1 4 G 4 1405 1405 G G A . n A 1 5 U 5 1406 1406 U U A . n A 1 6 C 6 1407 1407 C C A . n A 1 7 G 7 1408 1408 G G A . n A 1 8 C 8 1409 1409 C C A . n A 1 9 U 9 1410 1410 U U A . n A 1 10 A 10 1411 1411 A A A . n A 1 11 G 11 1412 1412 G G A . n A 1 12 U 12 1413 1413 U U A . n A 1 13 A 13 14 14 A A A . n A 1 14 C 14 15 15 C C A . n A 1 15 C 15 16 16 C C A . n A 1 16 G 16 17 17 G G A . n B 2 1 G 1 84 84 G G B . n B 2 2 G 2 85 85 G G B . n B 2 3 U 3 86 86 U U B . n B 2 4 A 4 1487 1487 A A B . n B 2 5 C 5 1488 1488 C C B . n B 2 6 U 6 1489 1489 U U B . n B 2 7 A 7 1490 1490 A A B . n B 2 8 A 8 1491 1491 A A B . n B 2 9 A 9 1492 1492 A A B . n B 2 10 A 10 1493 1493 A A B . n B 2 11 G 11 1494 1494 G G B . n B 2 12 U 12 1495 1495 U U B . n B 2 13 C 13 1496 1496 C C B . n B 2 14 G 14 1497 1497 G G B . n B 2 15 C 15 98 98 C C B . n B 2 16 C 16 99 99 C C B . n B 2 17 C 17 100 100 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 3 SO4 1 102 102 SO4 SO4 A . D 4 MG 1 104 104 MG MG A . E 5 AM2 1 101 101 AM2 AM2 B . F 4 MG 1 103 103 MG MG B . G 6 HOH 1 109 109 HOH HOH A . G 6 HOH 2 111 111 HOH HOH A . G 6 HOH 3 112 112 HOH HOH A . G 6 HOH 4 113 113 HOH HOH A . G 6 HOH 5 114 114 HOH HOH A . G 6 HOH 6 115 115 HOH HOH A . G 6 HOH 7 116 116 HOH HOH A . G 6 HOH 8 121 121 HOH HOH A . G 6 HOH 9 122 122 HOH HOH A . G 6 HOH 10 126 126 HOH HOH A . G 6 HOH 11 127 127 HOH HOH A . G 6 HOH 12 129 129 HOH HOH A . G 6 HOH 13 130 130 HOH HOH A . G 6 HOH 14 140 140 HOH HOH A . G 6 HOH 15 142 142 HOH HOH A . G 6 HOH 16 143 143 HOH HOH A . G 6 HOH 17 144 144 HOH HOH A . G 6 HOH 18 146 146 HOH HOH A . G 6 HOH 19 149 149 HOH HOH A . G 6 HOH 20 154 154 HOH HOH A . G 6 HOH 21 155 155 HOH HOH A . G 6 HOH 22 156 156 HOH HOH A . G 6 HOH 23 159 159 HOH HOH A . G 6 HOH 24 164 164 HOH HOH A . G 6 HOH 25 166 166 HOH HOH A . G 6 HOH 26 167 167 HOH HOH A . G 6 HOH 27 168 168 HOH HOH A . G 6 HOH 28 172 172 HOH HOH A . G 6 HOH 29 176 176 HOH HOH A . G 6 HOH 30 177 177 HOH HOH A . G 6 HOH 31 178 178 HOH HOH A . G 6 HOH 32 179 179 HOH HOH A . G 6 HOH 33 180 180 HOH HOH A . G 6 HOH 34 181 181 HOH HOH A . G 6 HOH 35 185 185 HOH HOH A . G 6 HOH 36 186 186 HOH HOH A . G 6 HOH 37 187 187 HOH HOH A . G 6 HOH 38 190 190 HOH HOH A . G 6 HOH 39 192 192 HOH HOH A . G 6 HOH 40 195 195 HOH HOH A . G 6 HOH 41 196 196 HOH HOH A . G 6 HOH 42 199 199 HOH HOH A . G 6 HOH 43 200 200 HOH HOH A . G 6 HOH 44 203 203 HOH HOH A . G 6 HOH 45 205 205 HOH HOH A . G 6 HOH 46 206 206 HOH HOH A . G 6 HOH 47 207 207 HOH HOH A . G 6 HOH 48 209 209 HOH HOH A . G 6 HOH 49 210 210 HOH HOH A . G 6 HOH 50 212 212 HOH HOH A . G 6 HOH 51 213 213 HOH HOH A . G 6 HOH 52 214 214 HOH HOH A . G 6 HOH 53 215 215 HOH HOH A . G 6 HOH 54 216 216 HOH HOH A . G 6 HOH 55 217 217 HOH HOH A . G 6 HOH 56 222 222 HOH HOH A . G 6 HOH 57 224 224 HOH HOH A . G 6 HOH 58 225 225 HOH HOH A . G 6 HOH 59 226 226 HOH HOH A . G 6 HOH 60 229 229 HOH HOH A . G 6 HOH 61 230 230 HOH HOH A . G 6 HOH 62 231 231 HOH HOH A . G 6 HOH 63 233 233 HOH HOH A . G 6 HOH 64 237 237 HOH HOH A . G 6 HOH 65 241 241 HOH HOH A . G 6 HOH 66 243 243 HOH HOH A . G 6 HOH 67 244 244 HOH HOH A . G 6 HOH 68 246 246 HOH HOH A . G 6 HOH 69 249 249 HOH HOH A . G 6 HOH 70 250 250 HOH HOH A . G 6 HOH 71 254 254 HOH HOH A . G 6 HOH 72 256 256 HOH HOH A . G 6 HOH 73 258 258 HOH HOH A . G 6 HOH 74 260 260 HOH HOH A . G 6 HOH 75 261 261 HOH HOH A . G 6 HOH 76 264 264 HOH HOH A . G 6 HOH 77 267 267 HOH HOH A . H 6 HOH 1 105 105 HOH HOH B . H 6 HOH 2 106 106 HOH HOH B . H 6 HOH 3 107 107 HOH HOH B . H 6 HOH 4 108 108 HOH HOH B . H 6 HOH 5 110 110 HOH HOH B . H 6 HOH 6 117 117 HOH HOH B . H 6 HOH 7 118 118 HOH HOH B . H 6 HOH 8 119 119 HOH HOH B . H 6 HOH 9 120 120 HOH HOH B . H 6 HOH 10 123 123 HOH HOH B . H 6 HOH 11 124 124 HOH HOH B . H 6 HOH 12 125 125 HOH HOH B . H 6 HOH 13 128 128 HOH HOH B . H 6 HOH 14 131 131 HOH HOH B . H 6 HOH 15 132 132 HOH HOH B . H 6 HOH 16 133 133 HOH HOH B . H 6 HOH 17 134 134 HOH HOH B . H 6 HOH 18 135 135 HOH HOH B . H 6 HOH 19 136 136 HOH HOH B . H 6 HOH 20 137 137 HOH HOH B . H 6 HOH 21 138 138 HOH HOH B . H 6 HOH 22 139 139 HOH HOH B . H 6 HOH 23 141 141 HOH HOH B . H 6 HOH 24 145 145 HOH HOH B . H 6 HOH 25 147 147 HOH HOH B . H 6 HOH 26 148 148 HOH HOH B . H 6 HOH 27 150 150 HOH HOH B . H 6 HOH 28 151 151 HOH HOH B . H 6 HOH 29 152 152 HOH HOH B . H 6 HOH 30 153 153 HOH HOH B . H 6 HOH 31 157 157 HOH HOH B . H 6 HOH 32 158 158 HOH HOH B . H 6 HOH 33 160 160 HOH HOH B . H 6 HOH 34 161 161 HOH HOH B . H 6 HOH 35 162 162 HOH HOH B . H 6 HOH 36 163 163 HOH HOH B . H 6 HOH 37 165 165 HOH HOH B . H 6 HOH 38 169 169 HOH HOH B . H 6 HOH 39 170 170 HOH HOH B . H 6 HOH 40 171 171 HOH HOH B . H 6 HOH 41 173 173 HOH HOH B . H 6 HOH 42 174 174 HOH HOH B . H 6 HOH 43 175 175 HOH HOH B . H 6 HOH 44 182 182 HOH HOH B . H 6 HOH 45 183 183 HOH HOH B . H 6 HOH 46 184 184 HOH HOH B . H 6 HOH 47 188 188 HOH HOH B . H 6 HOH 48 189 189 HOH HOH B . H 6 HOH 49 191 191 HOH HOH B . H 6 HOH 50 193 193 HOH HOH B . H 6 HOH 51 194 194 HOH HOH B . H 6 HOH 52 197 197 HOH HOH B . H 6 HOH 53 198 198 HOH HOH B . H 6 HOH 54 201 201 HOH HOH B . H 6 HOH 55 202 202 HOH HOH B . H 6 HOH 56 204 204 HOH HOH B . H 6 HOH 57 208 208 HOH HOH B . H 6 HOH 58 211 211 HOH HOH B . H 6 HOH 59 218 218 HOH HOH B . H 6 HOH 60 219 219 HOH HOH B . H 6 HOH 61 220 220 HOH HOH B . H 6 HOH 62 221 221 HOH HOH B . H 6 HOH 63 223 223 HOH HOH B . H 6 HOH 64 227 227 HOH HOH B . H 6 HOH 65 228 228 HOH HOH B . H 6 HOH 66 232 232 HOH HOH B . H 6 HOH 67 234 234 HOH HOH B . H 6 HOH 68 235 235 HOH HOH B . H 6 HOH 69 236 236 HOH HOH B . H 6 HOH 70 238 238 HOH HOH B . H 6 HOH 71 239 239 HOH HOH B . H 6 HOH 72 240 240 HOH HOH B . H 6 HOH 73 242 242 HOH HOH B . H 6 HOH 74 245 245 HOH HOH B . H 6 HOH 75 247 247 HOH HOH B . H 6 HOH 76 248 248 HOH HOH B . H 6 HOH 77 251 251 HOH HOH B . H 6 HOH 78 252 252 HOH HOH B . H 6 HOH 79 253 253 HOH HOH B . H 6 HOH 80 255 255 HOH HOH B . H 6 HOH 81 257 257 HOH HOH B . H 6 HOH 82 259 259 HOH HOH B . H 6 HOH 83 262 262 HOH HOH B . H 6 HOH 84 263 263 HOH HOH B . H 6 HOH 85 265 265 HOH HOH B . H 6 HOH 86 266 266 HOH HOH B . H 6 HOH 87 268 268 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.0 ? 1 HKL-2000 'data collection' . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 AMoRE phasing . ? 5 # _cell.entry_id 2OE5 _cell.length_a 28.310 _cell.length_b 36.693 _cell.length_c 86.679 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 2OE5 _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? # _exptl.entry_id 2OE5 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.13 _exptl_crystal.density_percent_sol 42.32 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.pdbx_details '0.05M MES BUFFER, 15-20% MPD, 0.02-0.04M MAGNESIUM ACETATE, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K' _exptl_crystal_grow.pdbx_pH_range . # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 'MES BUFFER' ? ? ? 1 2 1 MPD ? ? ? 1 3 1 'MAGNESIUM ACETATE' ? ? ? 1 4 2 MPD ? ? ? 1 5 2 'MAGNESIUM ACETATE' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 4' _diffrn_detector.pdbx_collection_date 2000-04-01 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'NSLS BEAMLINE X9A' _diffrn_source.pdbx_synchrotron_site NSLS _diffrn_source.pdbx_synchrotron_beamline X9A _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0000 # _reflns.entry_id 2OE5 _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.d_resolution_high 1.5 _reflns.d_resolution_low 20 _reflns.number_all 13865 _reflns.number_obs 13865 _reflns.percent_possible_obs 92.73 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _refine.entry_id 2OE5 _refine.ls_number_reflns_obs 13173 _refine.ls_number_reflns_all 13173 _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 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 19.92 _refine.ls_d_res_high 1.51 _refine.ls_percent_reflns_obs 92.73 _refine.ls_R_factor_obs 0.20006 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.19876 _refine.ls_R_factor_R_free 0.2268 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 692 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.973 _refine.correlation_coeff_Fo_to_Fc_free 0.965 _refine.B_iso_mean 20.524 _refine.aniso_B[1][1] 0.02 _refine.aniso_B[2][2] -0.06 _refine.aniso_B[3][3] 0.04 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'THE SO4 ION IS PARTIALLY DISORDERED AND IT WAS REFINED WITH OCCUPANCY 0.5' _refine.pdbx_starting_model 'STANDARD RNA-MODEL BUILT IN TURBO-FRODO' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.097 _refine.pdbx_overall_ESU_R_Free 0.094 _refine.overall_SU_ML 0.072 _refine.overall_SU_B 2.029 _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_phase_error ? _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 698 _refine_hist.pdbx_number_atoms_ligand 44 _refine_hist.number_atoms_solvent 164 _refine_hist.number_atoms_total 906 _refine_hist.d_res_high 1.51 _refine_hist.d_res_low 19.92 # 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 r_bond_refined_d 0.014 0.021 ? 827 'X-RAY DIFFRACTION' ? r_bond_other_d 0.000 0.020 ? 297 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.793 3.000 ? 1283 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.746 3.000 ? 779 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.871 0.200 ? 149 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.011 0.020 ? 344 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.000 0.020 ? 1 'X-RAY DIFFRACTION' ? r_nbd_refined 0.124 0.300 ? 80 'X-RAY DIFFRACTION' ? r_nbd_other 0.206 0.300 ? 391 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.216 0.500 ? 110 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other 0.050 0.500 ? 3 'X-RAY DIFFRACTION' ? r_metal_ion_refined 0.065 0.500 ? 2 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.112 0.300 ? 8 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.203 0.300 ? 15 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.247 0.500 ? 16 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 1.873 3.000 ? 827 'X-RAY DIFFRACTION' ? r_scangle_it 2.535 4.500 ? 1283 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.51 _refine_ls_shell.d_res_low 1.544 _refine_ls_shell.number_reflns_R_work 888 _refine_ls_shell.R_factor_R_work 0.354 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.35 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 59 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 2OE5 _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 2OE5 _struct.title ;1.5 A X-ray crystal structure of Apramycin complex with RNA fragment GGCGUCGCUAGUACCG/GGUACUAAAAGUCGCCC containing the human ribosomal decoding A site: RNA construct with 3'-overhang ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2OE5 _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'Aminoglycoside antibiotics, Apramycin, Ribosomal decoding site, A site, Homo sapiens, RNA duplex, 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 2 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 4 ? G N N 6 ? H N N 6 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 2OE5 2OE5 ? ? ? 2 2 PDB 2OE5 2OE5 ? ? ? # 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 2OE5 A 1 ? 16 ? 2OE5 2 ? 17 ? 2 17 2 2 2OE5 B 1 ? 17 ? 2OE5 84 ? 100 ? 84 100 # _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,H # _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 _struct_biol.details ;THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 2 RNA CHAINS. ; _struct_biol.pdbx_parent_biol_id ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 111 1_555 ? ? ? ? ? ? ? 2.156 ? ? metalc2 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 112 1_555 ? ? ? ? ? ? ? 2.214 ? ? metalc3 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 113 1_555 ? ? ? ? ? ? ? 1.922 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 114 1_555 ? ? ? ? ? ? ? 2.179 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 115 1_555 ? ? ? ? ? ? ? 2.159 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 104 A HOH 116 1_555 ? ? ? ? ? ? ? 1.927 ? ? metalc7 metalc ? ? G HOH . O ? ? ? 1_555 F MG . MG ? ? A HOH 109 B MG 103 1_555 ? ? ? ? ? ? ? 2.001 ? ? metalc8 metalc ? ? F MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 103 B HOH 105 1_555 ? ? ? ? ? ? ? 2.245 ? ? metalc9 metalc ? ? F MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 103 B HOH 106 1_555 ? ? ? ? ? ? ? 2.015 ? ? metalc10 metalc ? ? F MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 103 B HOH 107 1_555 ? ? ? ? ? ? ? 2.116 ? ? metalc11 metalc ? ? F MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 103 B HOH 108 1_555 ? ? ? ? ? ? ? 2.004 ? ? metalc12 metalc ? ? F MG . MG ? ? ? 1_555 H HOH . O ? ? B MG 103 B HOH 110 1_555 ? ? ? ? ? ? ? 2.169 ? ? hydrog1 hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 16 N3 ? ? A G 2 B C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 16 O2 ? ? A G 2 B C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 16 N4 ? ? A G 2 B C 99 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 15 N3 ? ? A G 3 B C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 15 O2 ? ? A G 3 B C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 15 N4 ? ? A G 3 B C 98 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 14 N1 ? ? A C 1404 B G 1497 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 14 O6 ? ? A C 1404 B G 1497 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 14 N2 ? ? A C 1404 B G 1497 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 B C 13 N3 ? ? A G 1405 B C 1496 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 4 N2 ? ? ? 1_555 B C 13 O2 ? ? A G 1405 B C 1496 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 4 O6 ? ? ? 1_555 B C 13 N4 ? ? A G 1405 B C 1496 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A U 5 N3 ? ? ? 1_555 B U 12 O2 ? ? A U 1406 B U 1495 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog14 hydrog ? ? A U 5 O4 ? ? ? 1_555 B U 12 N3 ? ? A U 1406 B U 1495 1_555 ? ? ? ? ? ? TYPE_16_PAIR ? ? ? hydrog15 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 11 N1 ? ? A C 1407 B G 1494 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 11 O6 ? ? A C 1407 B G 1494 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 11 N2 ? ? A C 1407 B G 1494 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 N2 ? ? ? 1_555 B A 10 N7 ? ? A G 1408 B A 1493 1_555 ? ? ? ? ? ? 'G-A MISPAIR' ? ? ? hydrog19 hydrog ? ? A C 8 N4 ? ? ? 1_555 B A 9 N3 ? ? A C 1409 B A 1492 1_555 ? ? ? ? ? ? 'C-A MISPAIR' ? ? ? hydrog20 hydrog ? ? A U 9 N3 ? ? ? 1_555 B A 7 N1 ? ? A U 1410 B A 1490 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A U 9 O4 ? ? ? 1_555 B A 7 N6 ? ? A U 1410 B A 1490 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A A 10 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 1411 B U 1489 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A A 10 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 1411 B U 1489 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 11 N1 ? ? ? 1_555 B C 5 N3 ? ? A G 1412 B C 1488 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A G 11 N2 ? ? ? 1_555 B C 5 O2 ? ? A G 1412 B C 1488 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A G 11 O6 ? ? ? 1_555 B C 5 N4 ? ? A G 1412 B C 1488 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A U 12 N3 ? ? ? 1_555 B A 4 N1 ? ? A U 1413 B A 1487 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A U 12 O4 ? ? ? 1_555 B A 4 N6 ? ? A U 1413 B A 1487 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A A 13 N1 ? ? ? 1_555 B U 3 N3 ? ? A A 14 B U 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A A 13 N6 ? ? ? 1_555 B U 3 O4 ? ? A A 14 B U 86 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 14 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 15 B G 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A C 14 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 15 B G 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog33 hydrog ? ? A C 14 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 15 B G 85 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A C 15 N3 ? ? ? 1_555 B G 1 N1 ? ? A C 16 B G 84 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A C 15 N4 ? ? ? 1_555 B G 1 O6 ? ? A C 16 B G 84 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 15 O2 ? ? ? 1_555 B G 1 N2 ? ? A C 16 B G 84 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? G HOH . ? A HOH 111 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 112 ? 1_555 93.2 ? 2 O ? G HOH . ? A HOH 111 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 113 ? 1_555 83.1 ? 3 O ? G HOH . ? A HOH 112 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 113 ? 1_555 89.7 ? 4 O ? G HOH . ? A HOH 111 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 114 ? 1_555 172.4 ? 5 O ? G HOH . ? A HOH 112 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 114 ? 1_555 94.5 ? 6 O ? G HOH . ? A HOH 113 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 114 ? 1_555 96.9 ? 7 O ? G HOH . ? A HOH 111 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 85.9 ? 8 O ? G HOH . ? A HOH 112 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 173.5 ? 9 O ? G HOH . ? A HOH 113 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 83.8 ? 10 O ? G HOH . ? A HOH 114 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 115 ? 1_555 86.5 ? 11 O ? G HOH . ? A HOH 111 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 116 ? 1_555 82.2 ? 12 O ? G HOH . ? A HOH 112 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 116 ? 1_555 92.4 ? 13 O ? G HOH . ? A HOH 113 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 116 ? 1_555 165.2 ? 14 O ? G HOH . ? A HOH 114 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 116 ? 1_555 97.6 ? 15 O ? G HOH . ? A HOH 115 ? 1_555 MG ? D MG . ? A MG 104 ? 1_555 O ? G HOH . ? A HOH 116 ? 1_555 93.9 ? 16 O ? G HOH . ? A HOH 109 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 105 ? 1_555 176.7 ? 17 O ? G HOH . ? A HOH 109 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 106 ? 1_555 93.3 ? 18 O ? H HOH . ? B HOH 105 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 106 ? 1_555 89.6 ? 19 O ? G HOH . ? A HOH 109 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 107 ? 1_555 91.2 ? 20 O ? H HOH . ? B HOH 105 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 107 ? 1_555 85.7 ? 21 O ? H HOH . ? B HOH 106 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 107 ? 1_555 171.4 ? 22 O ? G HOH . ? A HOH 109 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 108 ? 1_555 89.3 ? 23 O ? H HOH . ? B HOH 105 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 108 ? 1_555 89.2 ? 24 O ? H HOH . ? B HOH 106 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 108 ? 1_555 90.1 ? 25 O ? H HOH . ? B HOH 107 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 108 ? 1_555 82.6 ? 26 O ? G HOH . ? A HOH 109 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 110 ? 1_555 87.5 ? 27 O ? H HOH . ? B HOH 105 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 110 ? 1_555 94.0 ? 28 O ? H HOH . ? B HOH 106 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 110 ? 1_555 89.5 ? 29 O ? H HOH . ? B HOH 107 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 110 ? 1_555 98.0 ? 30 O ? H HOH . ? B HOH 108 ? 1_555 MG ? F MG . ? B MG 103 ? 1_555 O ? H HOH . ? B HOH 110 ? 1_555 176.8 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software B AM2 101 ? 24 'BINDING SITE FOR RESIDUE AM2 B 101' AC2 Software A SO4 102 ? 8 'BINDING SITE FOR RESIDUE SO4 A 102' AC3 Software B MG 103 ? 6 'BINDING SITE FOR RESIDUE MG B 103' AC4 Software A MG 104 ? 6 'BINDING SITE FOR RESIDUE MG A 104' 1 ? ? ? ? ? ? ? # 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 24 SO4 C . ? SO4 A 102 . ? 1_555 ? 2 AC1 24 HOH G . ? HOH A 130 . ? 1_555 ? 3 AC1 24 HOH G . ? HOH A 143 . ? 1_555 ? 4 AC1 24 HOH G . ? HOH A 200 . ? 1_555 ? 5 AC1 24 G A 7 ? G A 1408 . ? 1_555 ? 6 AC1 24 C A 8 ? C A 1409 . ? 1_555 ? 7 AC1 24 U A 9 ? U A 1410 . ? 1_555 ? 8 AC1 24 A A 10 ? A A 1411 . ? 1_555 ? 9 AC1 24 G A 11 ? G A 1412 . ? 1_555 ? 10 AC1 24 U A 12 ? U A 1413 . ? 1_555 ? 11 AC1 24 G B 1 ? G B 84 . ? 1_555 ? 12 AC1 24 G B 2 ? G B 85 . ? 1_555 ? 13 AC1 24 U B 3 ? U B 86 . ? 1_555 ? 14 AC1 24 C B 17 ? C B 100 . ? 2_655 ? 15 AC1 24 HOH H . ? HOH B 118 . ? 1_555 ? 16 AC1 24 HOH H . ? HOH B 119 . ? 1_555 ? 17 AC1 24 HOH H . ? HOH B 131 . ? 1_555 ? 18 AC1 24 HOH H . ? HOH B 134 . ? 1_555 ? 19 AC1 24 HOH H . ? HOH B 157 . ? 1_555 ? 20 AC1 24 HOH H . ? HOH B 170 . ? 1_555 ? 21 AC1 24 HOH H . ? HOH B 194 . ? 1_555 ? 22 AC1 24 A B 4 ? A B 1487 . ? 1_555 ? 23 AC1 24 C B 5 ? C B 1488 . ? 1_555 ? 24 AC1 24 U B 6 ? U B 1489 . ? 1_555 ? 25 AC2 8 C A 15 ? C A 16 . ? 1_555 ? 26 AC2 8 G A 16 ? G A 17 . ? 1_555 ? 27 AC2 8 HOH G . ? HOH A 111 . ? 2_655 ? 28 AC2 8 HOH G . ? HOH A 149 . ? 1_555 ? 29 AC2 8 G B 1 ? G B 84 . ? 1_555 ? 30 AC2 8 C B 16 ? C B 99 . ? 2_655 ? 31 AC2 8 C B 17 ? C B 100 . ? 2_655 ? 32 AC2 8 AM2 E . ? AM2 B 101 . ? 1_555 ? 33 AC3 6 HOH G . ? HOH A 109 . ? 1_555 ? 34 AC3 6 HOH H . ? HOH B 105 . ? 1_555 ? 35 AC3 6 HOH H . ? HOH B 106 . ? 1_555 ? 36 AC3 6 HOH H . ? HOH B 107 . ? 1_555 ? 37 AC3 6 HOH H . ? HOH B 108 . ? 1_555 ? 38 AC3 6 HOH H . ? HOH B 110 . ? 1_555 ? 39 AC4 6 HOH G . ? HOH A 111 . ? 1_555 ? 40 AC4 6 HOH G . ? HOH A 112 . ? 1_555 ? 41 AC4 6 HOH G . ? HOH A 113 . ? 1_555 ? 42 AC4 6 HOH G . ? HOH A 114 . ? 1_555 ? 43 AC4 6 HOH G . ? HOH A 115 . ? 1_555 ? 44 AC4 6 HOH G . ? HOH A 116 . ? 1_555 ? # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A C 1404 ? ? "C3'" A C 1404 ? ? 1.502 1.427 0.075 0.012 N 2 1 "O5'" B G 1494 ? ? "C5'" B G 1494 ? ? 1.358 1.420 -0.062 0.009 N # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 "C3'" _pdbx_validate_rmsd_angle.auth_asym_id_1 B _pdbx_validate_rmsd_angle.auth_comp_id_1 A _pdbx_validate_rmsd_angle.auth_seq_id_1 1491 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 "C2'" _pdbx_validate_rmsd_angle.auth_asym_id_2 B _pdbx_validate_rmsd_angle.auth_comp_id_2 A _pdbx_validate_rmsd_angle.auth_seq_id_2 1491 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 "C1'" _pdbx_validate_rmsd_angle.auth_asym_id_3 B _pdbx_validate_rmsd_angle.auth_comp_id_3 A _pdbx_validate_rmsd_angle.auth_seq_id_3 1491 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 96.86 _pdbx_validate_rmsd_angle.angle_target_value 101.30 _pdbx_validate_rmsd_angle.angle_deviation -4.44 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.70 _pdbx_validate_rmsd_angle.linker_flag N # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'major groove binder' # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 18.6988 _pdbx_refine_tls.origin_y -2.0052 _pdbx_refine_tls.origin_z 43.4683 _pdbx_refine_tls.T[1][1] 0.0382 _pdbx_refine_tls.T[2][2] 0.0006 _pdbx_refine_tls.T[3][3] 0.0845 _pdbx_refine_tls.T[1][2] 0.0021 _pdbx_refine_tls.T[1][3] 0.0108 _pdbx_refine_tls.T[2][3] 0.0066 _pdbx_refine_tls.L[1][1] 1.4523 _pdbx_refine_tls.L[2][2] 0.4043 _pdbx_refine_tls.L[3][3] 1.3930 _pdbx_refine_tls.L[1][2] 0.2472 _pdbx_refine_tls.L[1][3] -0.4984 _pdbx_refine_tls.L[2][3] -0.4794 _pdbx_refine_tls.S[1][1] 0.1280 _pdbx_refine_tls.S[1][2] 0.0550 _pdbx_refine_tls.S[1][3] 0.1337 _pdbx_refine_tls.S[2][1] 0.0573 _pdbx_refine_tls.S[2][2] -0.0340 _pdbx_refine_tls.S[2][3] -0.0347 _pdbx_refine_tls.S[3][1] -0.1493 _pdbx_refine_tls.S[3][2] -0.0226 _pdbx_refine_tls.S[3][3] -0.0939 _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' # loop_ _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 A 2 A 1 A 3 A 2 ? 'X-RAY DIFFRACTION' ? 2 1 A 1404 A 3 A 1413 A 12 ? 'X-RAY DIFFRACTION' ? 3 1 A 14 A 13 A 17 A 16 ? 'X-RAY DIFFRACTION' ? 4 1 B 84 B 1 B 86 B 3 ? 'X-RAY DIFFRACTION' ? 5 1 B 1487 B 4 B 1497 B 14 ? 'X-RAY DIFFRACTION' ? 6 1 B 98 B 15 B 100 B 17 ? 'X-RAY DIFFRACTION' ? 7 1 B 101 C ? B 268 H ? ? 'X-RAY DIFFRACTION' ? # _pdbx_database_remark.id 999 _pdbx_database_remark.text ;SEQUENCE THE RESIDUES THAT ARE NATURALLY OCCURING IN THE HUMAN RIBOSOMAL DECODING A SITE ARE NUMBERED 1404-1413 (CHAIN A) AND 1487-1497 (CHAIN B). THIS NUMBERING IS ADAPTED FROM THE BACTERIAL ESCHERICHIA COLI SEQUENCE. IN BOTH STRANDS TERMINAL RESIDUES ARE DISTINCT FROM HUMAN AND WERE INCORPORATED FOR CRYSTALLIZATION PURPOSES. THE INCORPORATED RESIDUES ARE NUMBERED 2-3, 14-17 (CHAIN A) AND 84-86,98-100 (CHAIN B). ; # 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 AM2 CA1 C N S 38 AM2 CA2 C N R 39 AM2 CA3 C N N 40 AM2 CA4 C N S 41 AM2 CA5 C N R 42 AM2 CA6 C N R 43 AM2 CA7 C N S 44 AM2 CA8 C N R 45 AM2 CA9 C N N 46 AM2 OA4 O N N 47 AM2 OA5 O N N 48 AM2 NA2 N N N 49 AM2 NA7 N N N 50 AM2 OA6 O N N 51 AM2 OA8 O N N 52 AM2 OA1 O N N 53 AM2 CB1 C N R 54 AM2 CB2 C N R 55 AM2 CB3 C N S 56 AM2 CB4 C N S 57 AM2 CB5 C N S 58 AM2 CB6 C N N 59 AM2 OB1 O N N 60 AM2 NB4 N N N 61 AM2 OB2 O N N 62 AM2 OB3 O N N 63 AM2 OB6 O N N 64 AM2 CC1 C N R 65 AM2 CC2 C N R 66 AM2 CC3 C N S 67 AM2 CC4 C N R 68 AM2 CC5 C N N 69 AM2 CC6 C N S 70 AM2 NC4 N N N 71 AM2 NC6 N N N 72 AM2 OC2 O N N 73 AM2 OC3 O N N 74 AM2 HA1 H N N 75 AM2 HA2 H N N 76 AM2 HA31 H N N 77 AM2 HA32 H N N 78 AM2 HA4 H N N 79 AM2 HA5 H N N 80 AM2 HA6 H N N 81 AM2 HA7 H N N 82 AM2 HA8 H N N 83 AM2 HA91 H N N 84 AM2 HA92 H N N 85 AM2 HA93 H N N 86 AM2 HA21 H N N 87 AM2 HA22 H N N 88 AM2 H2 H N N 89 AM2 H1 H N N 90 AM2 HB1 H N N 91 AM2 HB2 H N N 92 AM2 HB3 H N N 93 AM2 HB4 H N N 94 AM2 HB5 H N N 95 AM2 HB61 H N N 96 AM2 HB62 H N N 97 AM2 HB41 H N N 98 AM2 HB42 H N N 99 AM2 H5 H N N 100 AM2 H6 H N N 101 AM2 HB6 H N N 102 AM2 HC1 H N N 103 AM2 HC2 H N N 104 AM2 HC3 H N N 105 AM2 HC4 H N N 106 AM2 HC51 H N N 107 AM2 HC52 H N N 108 AM2 HC6 H N N 109 AM2 HC41 H N N 110 AM2 HC42 H N N 111 AM2 HC61 H N N 112 AM2 HC62 H N N 113 AM2 H3 H N N 114 AM2 H4 H N N 115 C OP3 O N N 116 C P P N N 117 C OP1 O N N 118 C OP2 O N N 119 C "O5'" O N N 120 C "C5'" C N N 121 C "C4'" C N R 122 C "O4'" O N N 123 C "C3'" C N S 124 C "O3'" O N N 125 C "C2'" C N R 126 C "O2'" O N N 127 C "C1'" C N R 128 C N1 N N N 129 C C2 C N N 130 C O2 O N N 131 C N3 N N N 132 C C4 C N N 133 C N4 N N N 134 C C5 C N N 135 C C6 C N N 136 C HOP3 H N N 137 C HOP2 H N N 138 C "H5'" H N N 139 C "H5''" H N N 140 C "H4'" H N N 141 C "H3'" H N N 142 C "HO3'" H N N 143 C "H2'" H N N 144 C "HO2'" H N N 145 C "H1'" H N N 146 C H41 H N N 147 C H42 H N N 148 C H5 H N N 149 C H6 H N N 150 G OP3 O N N 151 G P P N N 152 G OP1 O N N 153 G OP2 O N N 154 G "O5'" O N N 155 G "C5'" C N N 156 G "C4'" C N R 157 G "O4'" O N N 158 G "C3'" C N S 159 G "O3'" O N N 160 G "C2'" C N R 161 G "O2'" O N N 162 G "C1'" C N R 163 G N9 N Y N 164 G C8 C Y N 165 G N7 N Y N 166 G C5 C Y N 167 G C6 C N N 168 G O6 O N N 169 G N1 N N N 170 G C2 C N N 171 G N2 N N N 172 G N3 N N N 173 G C4 C Y N 174 G HOP3 H N N 175 G HOP2 H N N 176 G "H5'" H N N 177 G "H5''" H N N 178 G "H4'" H N N 179 G "H3'" H N N 180 G "HO3'" H N N 181 G "H2'" H N N 182 G "HO2'" H N N 183 G "H1'" H N N 184 G H8 H N N 185 G H1 H N N 186 G H21 H N N 187 G H22 H N N 188 HOH O O N N 189 HOH H1 H N N 190 HOH H2 H N N 191 MG MG MG N N 192 SO4 S S N N 193 SO4 O1 O N N 194 SO4 O2 O N N 195 SO4 O3 O N N 196 SO4 O4 O N N 197 U OP3 O N N 198 U P P N N 199 U OP1 O N N 200 U OP2 O N N 201 U "O5'" O N N 202 U "C5'" C N N 203 U "C4'" C N R 204 U "O4'" O N N 205 U "C3'" C N S 206 U "O3'" O N N 207 U "C2'" C N R 208 U "O2'" O N N 209 U "C1'" C N R 210 U N1 N N N 211 U C2 C N N 212 U O2 O N N 213 U N3 N N N 214 U C4 C N N 215 U O4 O N N 216 U C5 C N N 217 U C6 C N N 218 U HOP3 H N N 219 U HOP2 H N N 220 U "H5'" H N N 221 U "H5''" H N N 222 U "H4'" H N N 223 U "H3'" H N N 224 U "HO3'" H N N 225 U "H2'" H N N 226 U "HO2'" H N N 227 U "H1'" H N N 228 U H3 H N N 229 U H5 H N N 230 U H6 H N N 231 # 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 AM2 CA1 CA2 sing N N 40 AM2 CA1 OA4 sing N N 41 AM2 CA1 OA1 sing N N 42 AM2 CA1 HA1 sing N N 43 AM2 CA2 CA3 sing N N 44 AM2 CA2 NA2 sing N N 45 AM2 CA2 HA2 sing N N 46 AM2 CA3 CA4 sing N N 47 AM2 CA3 HA31 sing N N 48 AM2 CA3 HA32 sing N N 49 AM2 CA4 CA5 sing N N 50 AM2 CA4 OA5 sing N N 51 AM2 CA4 HA4 sing N N 52 AM2 CA5 CA6 sing N N 53 AM2 CA5 OA4 sing N N 54 AM2 CA5 HA5 sing N N 55 AM2 CA6 CA7 sing N N 56 AM2 CA6 OA6 sing N N 57 AM2 CA6 HA6 sing N N 58 AM2 CA7 CA8 sing N N 59 AM2 CA7 NA7 sing N N 60 AM2 CA7 HA7 sing N N 61 AM2 CA8 OA5 sing N N 62 AM2 CA8 OA8 sing N N 63 AM2 CA8 HA8 sing N N 64 AM2 CA9 NA7 sing N N 65 AM2 CA9 HA91 sing N N 66 AM2 CA9 HA92 sing N N 67 AM2 CA9 HA93 sing N N 68 AM2 NA2 HA21 sing N N 69 AM2 NA2 HA22 sing N N 70 AM2 NA7 H2 sing N N 71 AM2 OA6 H1 sing N N 72 AM2 OA8 CB1 sing N N 73 AM2 OA1 CC1 sing N N 74 AM2 CB1 CB2 sing N N 75 AM2 CB1 OB1 sing N N 76 AM2 CB1 HB1 sing N N 77 AM2 CB2 CB3 sing N N 78 AM2 CB2 OB2 sing N N 79 AM2 CB2 HB2 sing N N 80 AM2 CB3 CB4 sing N N 81 AM2 CB3 OB3 sing N N 82 AM2 CB3 HB3 sing N N 83 AM2 CB4 CB5 sing N N 84 AM2 CB4 NB4 sing N N 85 AM2 CB4 HB4 sing N N 86 AM2 CB5 CB6 sing N N 87 AM2 CB5 OB1 sing N N 88 AM2 CB5 HB5 sing N N 89 AM2 CB6 OB6 sing N N 90 AM2 CB6 HB61 sing N N 91 AM2 CB6 HB62 sing N N 92 AM2 NB4 HB41 sing N N 93 AM2 NB4 HB42 sing N N 94 AM2 OB2 H5 sing N N 95 AM2 OB3 H6 sing N N 96 AM2 OB6 HB6 sing N N 97 AM2 CC1 CC2 sing N N 98 AM2 CC1 CC6 sing N N 99 AM2 CC1 HC1 sing N N 100 AM2 CC2 CC3 sing N N 101 AM2 CC2 OC2 sing N N 102 AM2 CC2 HC2 sing N N 103 AM2 CC3 CC4 sing N N 104 AM2 CC3 OC3 sing N N 105 AM2 CC3 HC3 sing N N 106 AM2 CC4 CC5 sing N N 107 AM2 CC4 NC4 sing N N 108 AM2 CC4 HC4 sing N N 109 AM2 CC5 CC6 sing N N 110 AM2 CC5 HC51 sing N N 111 AM2 CC5 HC52 sing N N 112 AM2 CC6 NC6 sing N N 113 AM2 CC6 HC6 sing N N 114 AM2 NC4 HC41 sing N N 115 AM2 NC4 HC42 sing N N 116 AM2 NC6 HC61 sing N N 117 AM2 NC6 HC62 sing N N 118 AM2 OC2 H3 sing N N 119 AM2 OC3 H4 sing N N 120 C OP3 P sing N N 121 C OP3 HOP3 sing N N 122 C P OP1 doub N N 123 C P OP2 sing N N 124 C P "O5'" sing N N 125 C OP2 HOP2 sing N N 126 C "O5'" "C5'" sing N N 127 C "C5'" "C4'" sing N N 128 C "C5'" "H5'" sing N N 129 C "C5'" "H5''" sing N N 130 C "C4'" "O4'" sing N N 131 C "C4'" "C3'" sing N N 132 C "C4'" "H4'" sing N N 133 C "O4'" "C1'" sing N N 134 C "C3'" "O3'" sing N N 135 C "C3'" "C2'" sing N N 136 C "C3'" "H3'" sing N N 137 C "O3'" "HO3'" sing N N 138 C "C2'" "O2'" sing N N 139 C "C2'" "C1'" sing N N 140 C "C2'" "H2'" sing N N 141 C "O2'" "HO2'" sing N N 142 C "C1'" N1 sing N N 143 C "C1'" "H1'" sing N N 144 C N1 C2 sing N N 145 C N1 C6 sing N N 146 C C2 O2 doub N N 147 C C2 N3 sing N N 148 C N3 C4 doub N N 149 C C4 N4 sing N N 150 C C4 C5 sing N N 151 C N4 H41 sing N N 152 C N4 H42 sing N N 153 C C5 C6 doub N N 154 C C5 H5 sing N N 155 C C6 H6 sing N N 156 G OP3 P sing N N 157 G OP3 HOP3 sing N N 158 G P OP1 doub N N 159 G P OP2 sing N N 160 G P "O5'" sing N N 161 G OP2 HOP2 sing N N 162 G "O5'" "C5'" sing N N 163 G "C5'" "C4'" sing N N 164 G "C5'" "H5'" sing N N 165 G "C5'" "H5''" sing N N 166 G "C4'" "O4'" sing N N 167 G "C4'" "C3'" sing N N 168 G "C4'" "H4'" sing N N 169 G "O4'" "C1'" sing N N 170 G "C3'" "O3'" sing N N 171 G "C3'" "C2'" sing N N 172 G "C3'" "H3'" sing N N 173 G "O3'" "HO3'" sing N N 174 G "C2'" "O2'" sing N N 175 G "C2'" "C1'" sing N N 176 G "C2'" "H2'" sing N N 177 G "O2'" "HO2'" sing N N 178 G "C1'" N9 sing N N 179 G "C1'" "H1'" sing N N 180 G N9 C8 sing Y N 181 G N9 C4 sing Y N 182 G C8 N7 doub Y N 183 G C8 H8 sing N N 184 G N7 C5 sing Y N 185 G C5 C6 sing N N 186 G C5 C4 doub Y N 187 G C6 O6 doub N N 188 G C6 N1 sing N N 189 G N1 C2 sing N N 190 G N1 H1 sing N N 191 G C2 N2 sing N N 192 G C2 N3 doub N N 193 G N2 H21 sing N N 194 G N2 H22 sing N N 195 G N3 C4 sing N N 196 HOH O H1 sing N N 197 HOH O H2 sing N N 198 SO4 S O1 doub N N 199 SO4 S O2 doub N N 200 SO4 S O3 sing N N 201 SO4 S O4 sing N N 202 U OP3 P sing N N 203 U OP3 HOP3 sing N N 204 U P OP1 doub N N 205 U P OP2 sing N N 206 U P "O5'" sing N N 207 U OP2 HOP2 sing N N 208 U "O5'" "C5'" sing N N 209 U "C5'" "C4'" sing N N 210 U "C5'" "H5'" sing N N 211 U "C5'" "H5''" sing N N 212 U "C4'" "O4'" sing N N 213 U "C4'" "C3'" sing N N 214 U "C4'" "H4'" sing N N 215 U "O4'" "C1'" sing N N 216 U "C3'" "O3'" sing N N 217 U "C3'" "C2'" sing N N 218 U "C3'" "H3'" sing N N 219 U "O3'" "HO3'" sing N N 220 U "C2'" "O2'" sing N N 221 U "C2'" "C1'" sing N N 222 U "C2'" "H2'" sing N N 223 U "O2'" "HO2'" sing N N 224 U "C1'" N1 sing N N 225 U "C1'" "H1'" sing N N 226 U N1 C2 sing N N 227 U N1 C6 sing N N 228 U C2 O2 doub N N 229 U C2 N3 sing N N 230 U N3 C4 sing N N 231 U N3 H3 sing N N 232 U C4 O4 doub N N 233 U C4 C5 sing N N 234 U C5 C6 doub N N 235 U C5 H5 sing N N 236 U C6 H6 sing N N 237 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2OE5 'double helix' 2OE5 'a-form double helix' 2OE5 'bulge loop' 2OE5 'mismatched base pair' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A G 1 1_555 B C 16 1_555 -0.284 -0.244 -0.109 -2.668 -11.965 2.521 1 A_G2:C99_B A 2 ? B 99 ? 19 1 1 A G 2 1_555 B C 15 1_555 -0.129 -0.111 -0.118 -9.013 -10.005 0.356 2 A_G3:C98_B A 3 ? B 98 ? 19 1 1 A C 3 1_555 B G 14 1_555 0.453 -0.199 -0.005 -2.915 -8.114 -4.012 3 A_C1404:G1497_B A 1404 ? B 1497 ? 19 1 1 A G 4 1_555 B C 13 1_555 -0.192 -0.166 0.103 -0.989 -8.800 0.302 4 A_G1405:C1496_B A 1405 ? B 1496 ? 19 1 1 A U 5 1_555 B U 12 1_555 -2.423 -1.672 0.106 2.362 -16.070 5.470 5 A_U1406:U1495_B A 1406 ? B 1495 ? 16 1 1 A C 6 1_555 B G 11 1_555 0.186 -0.176 -0.122 7.055 -14.090 0.478 6 A_C1407:G1494_B A 1407 ? B 1494 ? 19 1 1 A G 7 1_555 B A 10 1_555 7.658 -4.797 -0.052 -15.592 -28.868 -53.998 7 A_G1408:A1493_B A 1408 ? B 1493 ? ? ? 1 A C 8 1_555 B A 9 1_555 -5.543 -1.113 0.629 14.447 -15.629 65.668 8 A_C1409:A1492_B A 1409 ? B 1492 ? ? 5 1 A U 9 1_555 B A 7 1_555 0.001 -0.072 0.164 -2.489 -14.734 -3.091 9 A_U1410:A1490_B A 1410 ? B 1490 ? 20 1 1 A A 10 1_555 B U 6 1_555 -0.027 -0.175 0.291 2.291 -15.468 2.886 10 A_A1411:U1489_B A 1411 ? B 1489 ? 20 1 1 A G 11 1_555 B C 5 1_555 -0.134 -0.200 0.024 -2.862 -19.227 -2.696 11 A_G1412:C1488_B A 1412 ? B 1488 ? 19 1 1 A U 12 1_555 B A 4 1_555 0.150 -0.075 0.058 2.148 -15.374 6.868 12 A_U1413:A1487_B A 1413 ? B 1487 ? 20 1 1 A A 13 1_555 B U 3 1_555 -0.075 -0.201 0.232 1.374 -14.820 6.997 13 A_A14:U86_B A 14 ? B 86 ? 20 1 1 A C 14 1_555 B G 2 1_555 0.170 -0.262 0.060 5.760 -16.382 -2.155 14 A_C15:G85_B A 15 ? B 85 ? 19 1 1 A C 15 1_555 B G 1 1_555 0.127 -0.171 0.112 -0.284 -9.645 -1.992 15 A_C16:G84_B A 16 ? B 84 ? 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 16 1_555 A G 2 1_555 B C 15 1_555 -0.190 -1.444 3.408 -1.310 7.475 31.401 -3.916 0.111 2.999 13.565 2.378 32.283 1 AA_G2G3:C98C99_BB A 2 ? B 99 ? A 3 ? B 98 ? 1 A G 2 1_555 B C 15 1_555 A C 3 1_555 B G 14 1_555 -0.352 -1.449 3.137 0.129 6.003 32.079 -3.538 0.648 2.825 10.746 -0.231 32.622 2 AA_G3C1404:G1497C98_BB A 3 ? B 98 ? A 1404 ? B 1497 ? 1 A C 3 1_555 B G 14 1_555 A G 4 1_555 B C 13 1_555 0.229 -1.499 3.133 -2.170 11.303 27.095 -5.059 -0.856 2.310 22.861 4.389 29.396 3 AA_C1404G1405:C1496G1497_BB A 1404 ? B 1497 ? A 1405 ? B 1496 ? 1 A G 4 1_555 B C 13 1_555 A U 5 1_555 B U 12 1_555 0.413 -1.869 3.008 -3.102 10.097 21.522 -7.086 -1.788 1.875 25.178 7.736 23.947 4 AA_G1405U1406:U1495C1496_BB A 1405 ? B 1496 ? A 1406 ? B 1495 ? 1 A U 5 1_555 B U 12 1_555 A C 6 1_555 B G 11 1_555 -0.068 -1.183 3.198 0.165 3.592 47.094 -1.759 0.098 3.105 4.487 -0.206 47.223 5 AA_U1406C1407:G1494U1495_BB A 1406 ? B 1495 ? A 1407 ? B 1494 ? 1 A C 6 1_555 B G 11 1_555 A G 7 1_555 B A 10 1_555 -4.322 -2.072 4.234 -0.566 19.356 64.039 -2.827 3.908 3.584 17.830 0.521 66.604 6 AA_C1407G1408:A1493G1494_BB A 1407 ? B 1494 ? A 1408 ? B 1493 ? 1 A C 8 1_555 B A 9 1_555 A U 9 1_555 B A 7 1_555 -0.493 0.683 3.623 -0.407 4.816 77.304 0.393 0.381 3.656 3.852 0.326 77.432 7 AA_C1409U1410:A1490A1492_BB A 1409 ? B 1492 ? A 1410 ? B 1490 ? 1 A U 9 1_555 B A 7 1_555 A A 10 1_555 B U 6 1_555 0.115 -1.269 3.016 -1.862 10.833 32.051 -3.686 -0.457 2.459 18.937 3.254 33.837 8 AA_U1410A1411:U1489A1490_BB A 1410 ? B 1490 ? A 1411 ? B 1489 ? 1 A A 10 1_555 B U 6 1_555 A G 11 1_555 B C 5 1_555 -0.640 -1.185 3.357 0.412 10.791 32.955 -3.604 1.137 2.832 18.416 -0.702 34.633 9 AA_A1411G1412:C1488U1489_BB A 1411 ? B 1489 ? A 1412 ? B 1488 ? 1 A G 11 1_555 B C 5 1_555 A U 12 1_555 B A 4 1_555 0.763 -0.958 3.101 0.588 11.801 30.615 -3.527 -1.261 2.579 21.376 -1.065 32.765 10 AA_G1412U1413:A1487C1488_BB A 1412 ? B 1488 ? A 1413 ? B 1487 ? 1 A U 12 1_555 B A 4 1_555 A A 13 1_555 B U 3 1_555 0.480 -1.349 2.980 -1.109 16.529 33.283 -3.937 -0.877 2.086 26.887 1.804 37.073 11 AA_U1413A14:U86A1487_BB A 1413 ? B 1487 ? A 14 ? B 86 ? 1 A A 13 1_555 B U 3 1_555 A C 14 1_555 B G 2 1_555 -0.918 -1.284 3.127 -0.393 3.339 32.519 -2.824 1.567 2.995 5.942 0.700 32.688 12 AA_A14C15:G85U86_BB A 14 ? B 86 ? A 15 ? B 85 ? 1 A C 14 1_555 B G 2 1_555 A C 15 1_555 B G 1 1_555 0.253 -1.825 3.453 -0.160 3.398 32.929 -3.792 -0.472 3.253 5.975 0.281 33.099 13 AA_C15C16:G84G85_BB A 15 ? B 85 ? A 16 ? B 84 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'STANDARD RNA-MODEL BUILT IN TURBO-FRODO' # _atom_sites.entry_id 2OE5 _atom_sites.fract_transf_matrix[1][1] 0.035323 _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] 0.027253 _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] 0.011537 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C MG N O P S # loop_