data_5DER # _entry.id 5DER # _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 5DER pdb_00005der 10.2210/pdb5der/pdb WWPDB D_1000213098 ? ? # 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 2016-06-29 2 'Structure model' 1 1 2024-03-06 # _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' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 2 'Structure model' citation 4 2 'Structure model' database_2 5 2 'Structure model' diffrn_radiation_wavelength 6 2 'Structure model' pdbx_struct_oper_list # 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 2 'Structure model' '_citation.journal_id_CSD' 2 2 'Structure model' '_database_2.pdbx_DOI' 3 2 'Structure model' '_database_2.pdbx_database_accession' 4 2 'Structure model' '_pdbx_struct_oper_list.symmetry_operation' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5DER _pdbx_database_status.recvd_initial_deposition_date 2015-08-25 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.details . _pdbx_database_related.db_id 5DEK _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Harp, J.M.' 1 'Egli, M.' 2 # _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 US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev J.Org.Chem. _citation.journal_id_ASTM JOCEAH _citation.journal_id_CSD 0035 _citation.journal_id_ISSN 0022-3263 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 81 _citation.language ? _citation.page_first 2261 _citation.page_last 2279 _citation.title ;Structural Basis of Duplex Thermodynamic Stability and Enhanced Nuclease Resistance of 5'-C-Methyl Pyrimidine-Modified Oligonucleotides. ; _citation.year 2016 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acs.joc.5b02375 _citation.pdbx_database_id_PubMed 26940174 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kel In, A.V.' 1 ? primary 'Zlatev, I.' 2 ? primary 'Harp, J.' 3 ? primary 'Jayaraman, M.' 4 ? primary 'Bisbe, A.' 5 ? primary 'O Shea, J.' 6 ? primary 'Taneja, N.' 7 ? primary 'Manoharan, R.M.' 8 ? primary 'Khan, S.' 9 ? primary 'Charisse, K.' 10 ? primary 'Maier, M.A.' 11 ? primary 'Egli, M.' 12 ? primary 'Rajeev, K.G.' 13 ? primary 'Manoharan, M.' 14 ? # 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 oligonucleotide containing (R)-C5'-Me-2'-FU ; 2542.579 4 ? ? ? ? 2 water nat water 18.015 194 ? ? ? ? # _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 'CGAA(U5R)UCG' _entity_poly.pdbx_seq_one_letter_code_can CGAAXUCG _entity_poly.pdbx_strand_id A,B,C,D _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 C n 1 2 G n 1 3 A n 1 4 A n 1 5 U5R n 1 6 U n 1 7 C n 1 8 G 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 8 _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 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 U5R non-polymer . '1-(2,6-dideoxy-2-fluoro-5-O-phosphono-beta-D-allofuranosyl)pyrimidine-2,4(1H,3H)-dione' ? 'C10 H14 F N2 O8 P' 340.199 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 C 1 101 101 C C A . n A 1 2 G 2 102 102 G G A . n A 1 3 A 3 103 103 A A A . n A 1 4 A 4 104 104 A A A . n A 1 5 U5R 5 105 105 U5R U5R A . n A 1 6 U 6 106 106 U U A . n A 1 7 C 7 107 107 C C A . n A 1 8 G 8 108 108 G G A . n B 1 1 C 1 209 209 C C B . n B 1 2 G 2 210 210 G G B . n B 1 3 A 3 211 211 A A B . n B 1 4 A 4 212 212 A A B . n B 1 5 U5R 5 213 213 U5R U5R B . n B 1 6 U 6 214 214 U U B . n B 1 7 C 7 215 215 C C B . n B 1 8 G 8 216 216 G G B . n C 1 1 C 1 101 101 C C C . n C 1 2 G 2 102 102 G G C . n C 1 3 A 3 103 103 A A C . n C 1 4 A 4 104 104 A A C . n C 1 5 U5R 5 105 105 U5R U5R C . n C 1 6 U 6 106 106 U U C . n C 1 7 C 7 107 107 C C C . n C 1 8 G 8 108 108 G G C . n D 1 1 C 1 209 209 C C D . n D 1 2 G 2 210 210 G G D . n D 1 3 A 3 211 211 A A D . n D 1 4 A 4 212 212 A A D . n D 1 5 U5R 5 213 213 U5R U5R D . n D 1 6 U 6 214 214 U U D . n D 1 7 C 7 215 215 C C D . n D 1 8 G 8 216 216 G G D . 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 E 2 HOH 1 201 191 HOH HOH A . E 2 HOH 2 202 73 HOH HOH A . E 2 HOH 3 203 17 HOH HOH A . E 2 HOH 4 204 42 HOH HOH A . E 2 HOH 5 205 146 HOH HOH A . E 2 HOH 6 206 8 HOH HOH A . E 2 HOH 7 207 39 HOH HOH A . E 2 HOH 8 208 18 HOH HOH A . E 2 HOH 9 209 114 HOH HOH A . E 2 HOH 10 210 185 HOH HOH A . E 2 HOH 11 211 118 HOH HOH A . E 2 HOH 12 212 48 HOH HOH A . E 2 HOH 13 213 181 HOH HOH A . E 2 HOH 14 214 24 HOH HOH A . E 2 HOH 15 215 159 HOH HOH A . E 2 HOH 16 216 177 HOH HOH A . E 2 HOH 17 217 98 HOH HOH A . E 2 HOH 18 218 116 HOH HOH A . E 2 HOH 19 219 83 HOH HOH A . E 2 HOH 20 220 49 HOH HOH A . E 2 HOH 21 221 91 HOH HOH A . E 2 HOH 22 222 178 HOH HOH A . E 2 HOH 23 223 33 HOH HOH A . E 2 HOH 24 224 112 HOH HOH A . E 2 HOH 25 225 25 HOH HOH A . E 2 HOH 26 226 78 HOH HOH A . E 2 HOH 27 227 103 HOH HOH A . E 2 HOH 28 228 122 HOH HOH A . E 2 HOH 29 229 120 HOH HOH A . E 2 HOH 30 230 143 HOH HOH A . E 2 HOH 31 231 30 HOH HOH A . E 2 HOH 32 232 144 HOH HOH A . E 2 HOH 33 233 128 HOH HOH A . E 2 HOH 34 234 65 HOH HOH A . E 2 HOH 35 235 135 HOH HOH A . E 2 HOH 36 236 155 HOH HOH A . E 2 HOH 37 237 117 HOH HOH A . E 2 HOH 38 238 21 HOH HOH A . E 2 HOH 39 239 189 HOH HOH A . E 2 HOH 40 240 9 HOH HOH A . E 2 HOH 41 241 182 HOH HOH A . E 2 HOH 42 242 186 HOH HOH A . E 2 HOH 43 243 51 HOH HOH A . E 2 HOH 44 244 84 HOH HOH A . E 2 HOH 45 245 152 HOH HOH A . F 2 HOH 1 301 2 HOH HOH B . F 2 HOH 2 302 96 HOH HOH B . F 2 HOH 3 303 45 HOH HOH B . F 2 HOH 4 304 85 HOH HOH B . F 2 HOH 5 305 35 HOH HOH B . F 2 HOH 6 306 5 HOH HOH B . F 2 HOH 7 307 29 HOH HOH B . F 2 HOH 8 308 63 HOH HOH B . F 2 HOH 9 309 32 HOH HOH B . F 2 HOH 10 310 105 HOH HOH B . F 2 HOH 11 311 70 HOH HOH B . F 2 HOH 12 312 1 HOH HOH B . F 2 HOH 13 313 28 HOH HOH B . F 2 HOH 14 314 193 HOH HOH B . F 2 HOH 15 315 102 HOH HOH B . F 2 HOH 16 316 66 HOH HOH B . F 2 HOH 17 317 54 HOH HOH B . F 2 HOH 18 318 62 HOH HOH B . F 2 HOH 19 319 15 HOH HOH B . F 2 HOH 20 320 60 HOH HOH B . F 2 HOH 21 321 137 HOH HOH B . F 2 HOH 22 322 34 HOH HOH B . F 2 HOH 23 323 14 HOH HOH B . F 2 HOH 24 324 127 HOH HOH B . F 2 HOH 25 325 115 HOH HOH B . F 2 HOH 26 326 108 HOH HOH B . F 2 HOH 27 327 93 HOH HOH B . F 2 HOH 28 328 59 HOH HOH B . F 2 HOH 29 329 184 HOH HOH B . F 2 HOH 30 330 169 HOH HOH B . F 2 HOH 31 331 82 HOH HOH B . F 2 HOH 32 332 162 HOH HOH B . F 2 HOH 33 333 123 HOH HOH B . F 2 HOH 34 334 64 HOH HOH B . F 2 HOH 35 335 133 HOH HOH B . F 2 HOH 36 336 124 HOH HOH B . F 2 HOH 37 337 140 HOH HOH B . F 2 HOH 38 338 95 HOH HOH B . F 2 HOH 39 339 71 HOH HOH B . F 2 HOH 40 340 104 HOH HOH B . F 2 HOH 41 341 179 HOH HOH B . F 2 HOH 42 342 61 HOH HOH B . F 2 HOH 43 343 148 HOH HOH B . F 2 HOH 44 344 55 HOH HOH B . F 2 HOH 45 345 110 HOH HOH B . F 2 HOH 46 346 183 HOH HOH B . F 2 HOH 47 347 187 HOH HOH B . F 2 HOH 48 348 142 HOH HOH B . F 2 HOH 49 349 163 HOH HOH B . F 2 HOH 50 350 176 HOH HOH B . F 2 HOH 51 351 145 HOH HOH B . G 2 HOH 1 201 99 HOH HOH C . G 2 HOH 2 202 74 HOH HOH C . G 2 HOH 3 203 126 HOH HOH C . G 2 HOH 4 204 90 HOH HOH C . G 2 HOH 5 205 111 HOH HOH C . G 2 HOH 6 206 173 HOH HOH C . G 2 HOH 7 207 69 HOH HOH C . G 2 HOH 8 208 16 HOH HOH C . G 2 HOH 9 209 58 HOH HOH C . G 2 HOH 10 210 20 HOH HOH C . G 2 HOH 11 211 125 HOH HOH C . G 2 HOH 12 212 131 HOH HOH C . G 2 HOH 13 213 106 HOH HOH C . G 2 HOH 14 214 138 HOH HOH C . G 2 HOH 15 215 81 HOH HOH C . G 2 HOH 16 216 147 HOH HOH C . G 2 HOH 17 217 136 HOH HOH C . G 2 HOH 18 218 168 HOH HOH C . G 2 HOH 19 219 6 HOH HOH C . G 2 HOH 20 220 22 HOH HOH C . G 2 HOH 21 221 23 HOH HOH C . G 2 HOH 22 222 171 HOH HOH C . G 2 HOH 23 223 26 HOH HOH C . G 2 HOH 24 224 88 HOH HOH C . G 2 HOH 25 225 94 HOH HOH C . G 2 HOH 26 226 180 HOH HOH C . G 2 HOH 27 227 175 HOH HOH C . G 2 HOH 28 228 12 HOH HOH C . G 2 HOH 29 229 188 HOH HOH C . G 2 HOH 30 230 154 HOH HOH C . G 2 HOH 31 231 56 HOH HOH C . G 2 HOH 32 232 172 HOH HOH C . G 2 HOH 33 233 158 HOH HOH C . G 2 HOH 34 234 100 HOH HOH C . G 2 HOH 35 235 52 HOH HOH C . G 2 HOH 36 236 11 HOH HOH C . G 2 HOH 37 237 119 HOH HOH C . G 2 HOH 38 238 156 HOH HOH C . G 2 HOH 39 239 157 HOH HOH C . G 2 HOH 40 240 76 HOH HOH C . G 2 HOH 41 241 174 HOH HOH C . G 2 HOH 42 242 86 HOH HOH C . G 2 HOH 43 243 109 HOH HOH C . G 2 HOH 44 244 194 HOH HOH C . G 2 HOH 45 245 89 HOH HOH C . G 2 HOH 46 246 165 HOH HOH C . G 2 HOH 47 247 79 HOH HOH C . H 2 HOH 1 301 50 HOH HOH D . H 2 HOH 2 302 47 HOH HOH D . H 2 HOH 3 303 107 HOH HOH D . H 2 HOH 4 304 130 HOH HOH D . H 2 HOH 5 305 113 HOH HOH D . H 2 HOH 6 306 68 HOH HOH D . H 2 HOH 7 307 151 HOH HOH D . H 2 HOH 8 308 31 HOH HOH D . H 2 HOH 9 309 101 HOH HOH D . H 2 HOH 10 310 4 HOH HOH D . H 2 HOH 11 311 129 HOH HOH D . H 2 HOH 12 312 164 HOH HOH D . H 2 HOH 13 313 40 HOH HOH D . H 2 HOH 14 314 36 HOH HOH D . H 2 HOH 15 315 161 HOH HOH D . H 2 HOH 16 316 166 HOH HOH D . H 2 HOH 17 317 44 HOH HOH D . H 2 HOH 18 318 53 HOH HOH D . H 2 HOH 19 319 3 HOH HOH D . H 2 HOH 20 320 92 HOH HOH D . H 2 HOH 21 321 19 HOH HOH D . H 2 HOH 22 322 7 HOH HOH D . H 2 HOH 23 323 141 HOH HOH D . H 2 HOH 24 324 43 HOH HOH D . H 2 HOH 25 325 192 HOH HOH D . H 2 HOH 26 326 139 HOH HOH D . H 2 HOH 27 327 80 HOH HOH D . H 2 HOH 28 328 121 HOH HOH D . H 2 HOH 29 329 57 HOH HOH D . H 2 HOH 30 330 170 HOH HOH D . H 2 HOH 31 331 38 HOH HOH D . H 2 HOH 32 332 150 HOH HOH D . H 2 HOH 33 333 46 HOH HOH D . H 2 HOH 34 334 37 HOH HOH D . H 2 HOH 35 335 167 HOH HOH D . H 2 HOH 36 336 149 HOH HOH D . H 2 HOH 37 337 13 HOH HOH D . H 2 HOH 38 338 27 HOH HOH D . H 2 HOH 39 339 153 HOH HOH D . H 2 HOH 40 340 97 HOH HOH D . H 2 HOH 41 341 134 HOH HOH D . H 2 HOH 42 342 132 HOH HOH D . H 2 HOH 43 343 190 HOH HOH D . H 2 HOH 44 344 72 HOH HOH D . H 2 HOH 45 345 87 HOH HOH D . H 2 HOH 46 346 75 HOH HOH D . H 2 HOH 47 347 67 HOH HOH D . H 2 HOH 48 348 77 HOH HOH D . H 2 HOH 49 349 10 HOH HOH D . H 2 HOH 50 350 41 HOH HOH D . H 2 HOH 51 351 160 HOH HOH D . # 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 ? 'data collection' ? ? ? ? ? ? ? ? ? ? ? 'PROTEUM PLUS' ? ? ? . 1 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.9_1692 2 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.15 3 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? 'PROTEUM PLUS' ? ? ? . 4 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? 'PROTEUM PLUS' ? ? ? . 5 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.9_1692 6 # _cell.angle_alpha 90.0 _cell.angle_alpha_esd ? _cell.angle_beta 90.0 _cell.angle_beta_esd ? _cell.angle_gamma 90.0 _cell.angle_gamma_esd ? _cell.entry_id 5DER _cell.details ? _cell.formula_units_Z ? _cell.length_a 44.116 _cell.length_a_esd ? _cell.length_b 44.116 _cell.length_b_esd ? _cell.length_c 86.927 _cell.length_c_esd ? _cell.volume 169179.192506 _cell.volume_esd ? _cell.Z_PDB 32 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DER _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall 'P 4nw 2abw' _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? # _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 5DER _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 2.08 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 40.85 _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, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 5.5 _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 '40 mM sodium cacodylate, 20 mM hexamine Co(III) chloride, 12 mM NaCl, 80 mM KCl, reservoir 40% MPD' _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 'Montel multilayer, confocal mirrors' _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'Bruker Platinum 135' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-09-30 # _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 1.54178 _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 'ROTATING ANODE' _diffrn_source.target ? _diffrn_source.type 'BRUKER AXS MICROSTAR' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.54178 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 5DER _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.80 _reflns.d_resolution_low 25.34 _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 15381 _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 ? _reflns.percent_possible_obs 99.6 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.90 _reflns.pdbx_Rmerge_I_obs 0.099 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.57 _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 ? # _reflns_shell.d_res_high 1.80 _reflns_shell.d_res_low 1.89 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.77 _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 97.7 _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 0.406 _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 2.73 _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 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 22.4012714523 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 5DER _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.80 _refine.ls_d_res_low 25.34 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 15118 _refine.ls_number_reflns_R_free 454 _refine.ls_number_reflns_R_work 14302 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.6375140051 _refine.ls_percent_reflns_R_free 5.39753935706 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.248 _refine.ls_R_factor_R_free 0.274 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.257 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.143 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 31.818088423 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _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 672 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 194 _refine_hist.number_atoms_total 866 _refine_hist.d_res_high 1.80 _refine_hist.d_res_low 25.34 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.00419357466461 ? 748 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.85631665895 ? 1160 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0335223668827 ? 160 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.00184552964032 ? 32 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 15.1239428142 ? 444 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 1.8041 1.917 . . 159 2369 93.341213554 . . . 0.352851748246 . 0.326623780261 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.917 2.0648 . . 144 2363 94.2560829677 . . . 0.286911294445 . 0.290012585757 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.0648 2.2722 . . 131 2379 94.7054140127 . . . 0.304369052554 . 0.269808116172 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.2722 2.6001 . . 115 2404 95.4346963081 . . . 0.268401587435 . 0.277854173422 . . . . . . . . . . 'X-RAY DIFFRACTION' 2.6001 3.2724 . . 144 2359 94.1716566866 . . . 0.218149653346 . 0.238468855163 . . . . . . . . . . 'X-RAY DIFFRACTION' 3.2724 17.5519 . . 123 2376 94.5859872611 . . . 0.247375572312 . 0.199287578527 . . . . . . . . . . # _struct.entry_id 5DER _struct.title ;RNA oligonucleotide containing (R)-C5'-ME-2'F U ; _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 5DER _struct_keywords.text 'RNA, oligonucleotide' _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 1 ? D N N 1 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5DER _struct_ref.pdbx_db_accession 5DER _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 5DER A 1 ? 8 ? 5DER 101 ? 108 ? 101 108 2 1 5DER B 1 ? 8 ? 5DER 209 ? 216 ? 209 216 3 1 5DER C 1 ? 8 ? 5DER 101 ? 108 ? 101 108 4 1 5DER D 1 ? 8 ? 5DER 209 ? 216 ? 209 216 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_and_software_defined_assembly PISA dimeric 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)' 810 ? 1 MORE 1 ? 1 'SSA (A^2)' 3110 ? 2 'ABSA (A^2)' 810 ? 2 MORE 1 ? 2 'SSA (A^2)' 3110 ? # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,E,F 2 1 C,D,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 # 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 A 4 "O3'" ? ? ? 1_555 A U5R 5 P ? ? A A 104 A U5R 105 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale2 covale one ? A U5R 5 "O3'" ? ? ? 1_555 A U 6 P ? ? A U5R 105 A U 106 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale3 covale both ? B A 4 "O3'" ? ? ? 1_555 B U5R 5 P ? ? B A 212 B U5R 213 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale4 covale one ? B U5R 5 "O3'" ? ? ? 1_555 B U 6 P ? ? B U5R 213 B U 214 1_555 ? ? ? ? ? ? ? 1.607 ? ? covale5 covale both ? C A 4 "O3'" ? ? ? 1_555 C U5R 5 P ? ? C A 104 C U5R 105 1_555 ? ? ? ? ? ? ? 1.609 ? ? covale6 covale one ? C U5R 5 "O3'" ? ? ? 1_555 C U 6 P ? ? C U5R 105 C U 106 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale7 covale both ? D A 4 "O3'" ? ? ? 1_555 D U5R 5 P ? ? D A 212 D U5R 213 1_555 ? ? ? ? ? ? ? 1.608 ? ? covale8 covale one ? D U5R 5 "O3'" ? ? ? 1_555 D U 6 P ? ? D U5R 213 D U 214 1_555 ? ? ? ? ? ? ? 1.607 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 8 N1 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 8 O6 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 8 N2 ? ? A C 101 B G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 102 B C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A A 3 N1 ? ? ? 1_555 B U 6 N3 ? ? A A 103 B U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A A 3 N6 ? ? ? 1_555 B U 6 O4 ? ? A A 103 B U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A U 6 N3 ? ? ? 1_555 B A 3 N1 ? ? A U 106 B A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A U 6 O4 ? ? ? 1_555 B A 3 N6 ? ? A U 106 B A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 107 B G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 8 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 8 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 8 O6 ? ? ? 1_555 B C 1 N4 ? ? A G 108 B C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? C C 1 N3 ? ? ? 1_555 D G 8 N1 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? C C 1 N4 ? ? ? 1_555 D G 8 O6 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? C C 1 O2 ? ? ? 1_555 D G 8 N2 ? ? C C 101 D G 216 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? C G 2 N1 ? ? ? 1_555 D C 7 N3 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? C G 2 N2 ? ? ? 1_555 D C 7 O2 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? C G 2 O6 ? ? ? 1_555 D C 7 N4 ? ? C G 102 D C 215 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? C A 3 N1 ? ? ? 1_555 D U 6 N3 ? ? C A 103 D U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? C A 3 N6 ? ? ? 1_555 D U 6 O4 ? ? C A 103 D U 214 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? C U 6 N3 ? ? ? 1_555 D A 3 N1 ? ? C U 106 D A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? C U 6 O4 ? ? ? 1_555 D A 3 N6 ? ? C U 106 D A 211 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? C C 7 N3 ? ? ? 1_555 D G 2 N1 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? C C 7 N4 ? ? ? 1_555 D G 2 O6 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? C C 7 O2 ? ? ? 1_555 D G 2 N2 ? ? C C 107 D G 210 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? C G 8 N1 ? ? ? 1_555 D C 1 N3 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? C G 8 N2 ? ? ? 1_555 D C 1 O2 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? C G 8 O6 ? ? ? 1_555 D C 1 N4 ? ? C G 108 D C 209 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 C HOH 228 ? G HOH . 2 1 D HOH 317 ? H HOH . 3 1 D HOH 351 ? H HOH . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y+1/2,x+1/2,z+3/4 3 y+1/2,-x+1/2,z+1/4 4 x+1/2,-y+1/2,-z+1/4 5 -x+1/2,y+1/2,-z+3/4 6 -x,-y,z+1/2 7 y,x,-z 8 -y,-x,-z+1/2 # 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 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 HOH O O N N 111 HOH H1 H N N 112 HOH H2 H N N 113 U OP3 O N N 114 U P P N N 115 U OP1 O N N 116 U OP2 O N N 117 U "O5'" O N N 118 U "C5'" C N N 119 U "C4'" C N R 120 U "O4'" O N N 121 U "C3'" C N S 122 U "O3'" O N N 123 U "C2'" C N R 124 U "O2'" O N N 125 U "C1'" C N R 126 U N1 N N N 127 U C2 C N N 128 U O2 O N N 129 U N3 N N N 130 U C4 C N N 131 U O4 O N N 132 U C5 C N N 133 U C6 C N N 134 U HOP3 H N N 135 U HOP2 H N N 136 U "H5'" H N N 137 U "H5''" H N N 138 U "H4'" H N N 139 U "H3'" H N N 140 U "HO3'" H N N 141 U "H2'" H N N 142 U "HO2'" H N N 143 U "H1'" H N N 144 U H3 H N N 145 U H5 H N N 146 U H6 H N N 147 U5R O2 O N N 148 U5R C2 C N N 149 U5R N3 N N N 150 U5R C4 C N N 151 U5R O4 O N N 152 U5R C5 C N N 153 U5R C6 C N N 154 U5R N1 N N N 155 U5R "C1'" C N R 156 U5R "O4'" O N N 157 U5R "C2'" C N R 158 U5R "F2'" F N N 159 U5R "C3'" C N R 160 U5R "O3'" O N N 161 U5R "C4'" C N S 162 U5R "C5'" C N R 163 U5R C5M C N N 164 U5R "O5'" O N N 165 U5R P P N N 166 U5R OP1 O N N 167 U5R OP2 O N N 168 U5R OP3 O N N 169 U5R H1 H N N 170 U5R H2 H N N 171 U5R H3 H N N 172 U5R H4 H N N 173 U5R H5 H N N 174 U5R H6 H N N 175 U5R H7 H N N 176 U5R H8 H N N 177 U5R H9 H N N 178 U5R H10 H N N 179 U5R H11 H N N 180 U5R H12 H N N 181 U5R H13 H N N 182 U5R H14 H N N 183 # 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 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 HOH O H1 sing N N 116 HOH O H2 sing N N 117 U OP3 P sing N N 118 U OP3 HOP3 sing N N 119 U P OP1 doub N N 120 U P OP2 sing N N 121 U P "O5'" sing N N 122 U OP2 HOP2 sing N N 123 U "O5'" "C5'" sing N N 124 U "C5'" "C4'" sing N N 125 U "C5'" "H5'" sing N N 126 U "C5'" "H5''" sing N N 127 U "C4'" "O4'" sing N N 128 U "C4'" "C3'" sing N N 129 U "C4'" "H4'" sing N N 130 U "O4'" "C1'" sing N N 131 U "C3'" "O3'" sing N N 132 U "C3'" "C2'" sing N N 133 U "C3'" "H3'" sing N N 134 U "O3'" "HO3'" sing N N 135 U "C2'" "O2'" sing N N 136 U "C2'" "C1'" sing N N 137 U "C2'" "H2'" sing N N 138 U "O2'" "HO2'" sing N N 139 U "C1'" N1 sing N N 140 U "C1'" "H1'" sing N N 141 U N1 C2 sing N N 142 U N1 C6 sing N N 143 U C2 O2 doub N N 144 U C2 N3 sing N N 145 U N3 C4 sing N N 146 U N3 H3 sing N N 147 U C4 O4 doub N N 148 U C4 C5 sing N N 149 U C5 C6 doub N N 150 U C5 H5 sing N N 151 U C6 H6 sing N N 152 U5R "O3'" "C3'" sing N N 153 U5R C5M "C5'" sing N N 154 U5R OP1 P doub N N 155 U5R "C3'" "C2'" sing N N 156 U5R "C3'" "C4'" sing N N 157 U5R "O5'" P sing N N 158 U5R "O5'" "C5'" sing N N 159 U5R P OP2 sing N N 160 U5R "C5'" "C4'" sing N N 161 U5R "C2'" "F2'" sing N N 162 U5R "C2'" "C1'" sing N N 163 U5R "C4'" "O4'" sing N N 164 U5R C6 C5 doub N N 165 U5R C6 N1 sing N N 166 U5R "O4'" "C1'" sing N N 167 U5R C5 C4 sing N N 168 U5R "C1'" N1 sing N N 169 U5R N1 C2 sing N N 170 U5R C4 O4 doub N N 171 U5R C4 N3 sing N N 172 U5R C2 N3 sing N N 173 U5R C2 O2 doub N N 174 U5R P OP3 sing N N 175 U5R N3 H1 sing N N 176 U5R C5 H2 sing N N 177 U5R C6 H3 sing N N 178 U5R "C1'" H4 sing N N 179 U5R "C2'" H5 sing N N 180 U5R "C3'" H6 sing N N 181 U5R "O3'" H7 sing N N 182 U5R "C4'" H8 sing N N 183 U5R "C5'" H9 sing N N 184 U5R C5M H10 sing N N 185 U5R C5M H11 sing N N 186 U5R C5M H12 sing N N 187 U5R OP2 H13 sing N N 188 U5R OP3 H14 sing N N 189 # _ndb_struct_conf_na.entry_id 5DER _ndb_struct_conf_na.feature '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 C 1 1_555 B G 8 1_555 0.043 -0.152 -0.106 9.323 -15.171 3.087 1 A_C101:G216_B A 101 ? B 216 ? 19 1 1 A G 2 1_555 B C 7 1_555 -0.300 -0.140 0.008 -2.690 -14.063 1.234 2 A_G102:C215_B A 102 ? B 215 ? 19 1 1 A A 3 1_555 B U 6 1_555 0.321 -0.202 -0.103 -2.356 -13.967 0.033 3 A_A103:U214_B A 103 ? B 214 ? 20 1 1 A U 6 1_555 B A 3 1_555 -0.143 -0.105 -0.014 4.956 -14.917 1.622 4 A_U106:A211_B A 106 ? B 211 ? 20 1 1 A C 7 1_555 B G 2 1_555 0.222 -0.233 -0.113 3.123 -15.731 -0.056 5 A_C107:G210_B A 107 ? B 210 ? 19 1 1 A G 8 1_555 B C 1 1_555 0.008 -0.099 -0.038 -9.709 -14.829 -1.295 6 A_G108:C209_B A 108 ? B 209 ? 19 1 1 C C 1 1_555 D G 8 1_555 -0.076 -0.088 -0.205 12.207 -11.621 -4.035 7 C_C101:G216_D C 101 ? D 216 ? 19 1 1 C G 2 1_555 D C 7 1_555 -0.411 -0.258 -0.229 -4.473 -13.741 -0.918 8 C_G102:C215_D C 102 ? D 215 ? 19 1 1 C A 3 1_555 D U 6 1_555 0.229 -0.118 -0.190 -6.836 -10.475 1.241 9 C_A103:U214_D C 103 ? D 214 ? 20 1 1 C U 6 1_555 D A 3 1_555 -0.214 -0.189 -0.078 2.002 -16.210 2.838 10 C_U106:A211_D C 106 ? D 211 ? 20 1 1 C C 7 1_555 D G 2 1_555 0.354 -0.280 0.025 3.519 -16.392 0.339 11 C_C107:G210_D C 107 ? D 210 ? 19 1 1 C G 8 1_555 D C 1 1_555 -0.253 -0.234 -0.014 -8.886 -17.241 3.761 12 C_G108:C209_D C 108 ? D 209 ? 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 C 1 1_555 B G 8 1_555 A G 2 1_555 B C 7 1_555 -0.625 -1.731 3.390 -3.523 14.261 33.162 -4.684 0.538 2.511 23.599 5.830 36.186 1 AA_C101G102:C215G216_BB A 101 ? B 216 ? A 102 ? B 215 ? 1 A G 2 1_555 B C 7 1_555 A A 3 1_555 B U 6 1_555 -0.116 -1.368 3.217 0.344 8.482 33.936 -3.475 0.242 2.803 14.257 -0.579 34.952 2 AA_G102A103:U214C215_BB A 102 ? B 215 ? A 103 ? B 214 ? 1 A U 6 1_555 B A 3 1_555 A C 7 1_555 B G 2 1_555 0.020 -1.560 3.213 1.257 8.188 34.499 -3.678 0.139 2.781 13.565 -2.083 35.451 3 AA_U106C107:G210A211_BB A 106 ? B 211 ? A 107 ? B 210 ? 1 A C 7 1_555 B G 2 1_555 A G 8 1_555 B C 1 1_555 0.310 -1.725 3.430 2.292 13.238 34.355 -4.459 -0.191 2.625 21.425 -3.710 36.815 4 AA_C107G108:C209G210_BB A 107 ? B 210 ? A 108 ? B 209 ? 1 C C 1 1_555 D G 8 1_555 C G 2 1_555 D C 7 1_555 -0.435 -1.909 3.557 -2.943 15.012 33.215 -5.079 0.297 2.519 24.697 4.843 36.478 5 CC_C101G102:C215G216_DD C 101 ? D 216 ? C 102 ? D 215 ? 1 C G 2 1_555 D C 7 1_555 C A 3 1_555 D U 6 1_555 -0.149 -1.657 3.273 -1.649 10.480 36.118 -3.846 0.030 2.708 16.470 2.591 37.594 6 CC_G102A103:U214C215_DD C 102 ? D 215 ? C 103 ? D 214 ? 1 C U 6 1_555 D A 3 1_555 C C 7 1_555 D G 2 1_555 -0.153 -1.375 3.228 -0.321 5.824 33.472 -3.242 0.213 2.955 10.017 0.553 33.962 7 CC_U106C107:G210A211_DD C 106 ? D 211 ? C 107 ? D 210 ? 1 C C 7 1_555 D G 2 1_555 C G 8 1_555 D C 1 1_555 0.689 -1.612 3.324 3.382 15.051 33.966 -4.388 -0.661 2.471 24.272 -5.454 37.211 8 CC_C107G108:C209G210_DD C 107 ? D 210 ? C 108 ? D 209 ? # _space_group.name_H-M_alt 'P 43 21 2' _space_group.name_Hall 'P 4nw 2abw' _space_group.IT_number 96 _space_group.crystal_system tetragonal _space_group.id 1 # _atom_sites.entry_id 5DER _atom_sites.fract_transf_matrix[1][1] 0.022668 _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] 0.022668 _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] 0.011504 _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 _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 25.62398 1.50364 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? F ? ? 4.90428 4.07044 12.99538 1.63651 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 19.97189 1.75589 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 15.80542 1.70748 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 1.42069 35.72801 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_