data_8PFQ # _entry.id 8PFQ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.391 _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 8PFQ pdb_00008pfq 10.2210/pdb8pfq/pdb WWPDB D_1292131264 ? ? # 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 2024-01-31 2 'Structure model' 1 1 2024-04-24 3 'Structure model' 1 2 2024-05-01 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 3 'Structure model' citation 4 3 'Structure model' citation_author # 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_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation_author.name' 5 3 'Structure model' '_citation.page_first' 6 3 'Structure model' '_citation.page_last' 7 3 'Structure model' '_citation_author.identifier_ORCID' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8PFQ _pdbx_database_status.recvd_initial_deposition_date 2023-06-16 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_database_related.db_name PDB _pdbx_database_related.details '8PFK contains the same sequence in space group C2' _pdbx_database_related.db_id 8PFK _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email spingler@chem.uzh.ch _pdbx_contact_author.name_first Bernhard _pdbx_contact_author.name_last Spingler _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-3402-2016 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Spingler, B.' 1 0000-0003-3402-2016 'McAuley, K.' 2 0000-0002-9545-072X 'Nievergelt, P.' 3 0000-0001-9602-0417 'Thorn, A.' 4 0000-0003-4503-4258 # _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 DE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Chemmedchem _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1860-7187 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 19 _citation.language ? _citation.page_first e202300600 _citation.page_last e202300600 _citation.title 'RNA oligomers at atomic resolution containing 1-methylpseudouridine, an essential building block of mRNA vaccines.' _citation.year 2024 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/cmdc.202300600 _citation.pdbx_database_id_PubMed 38235959 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Nievergelt, P.' 1 0000-0001-9602-0417 primary 'Berliat, F.' 2 ? primary 'McAuley, K.E.' 3 0000-0002-9545-072X primary 'Dorgan, C.R.' 4 ? primary 'van Well, R.M.' 5 ? primary 'Thorn, A.' 6 0000-0003-4503-4258 primary 'Spingler, B.' 7 0000-0003-3402-2016 # 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 'Chains: A,B' 3865.387 2 ? ? ? ? 2 non-polymer syn 'MAGNESIUM ION' 24.305 3 ? ? ? ? 3 water nat water 18.015 167 ? ? ? ? # _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 'CGCGAA(B8H)UAGCG' _entity_poly.pdbx_seq_one_letter_code_can CGCGAAUUAGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 water 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 C n 1 4 G n 1 5 A n 1 6 A n 1 7 B8H n 1 8 U n 1 9 A n 1 10 G n 1 11 C n 1 12 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 12 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 B8H 'RNA linking' n ;[(2~{R},3~{S},4~{R},5~{S})-5-[1-methyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate ; ? 'C10 H15 N2 O9 P' 338.208 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 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 C 1 1 1 C C A . n A 1 2 G 2 2 2 G G A . n A 1 3 C 3 3 3 C C A . n A 1 4 G 4 4 4 G G A . n A 1 5 A 5 5 5 A A A . n A 1 6 A 6 6 6 A A A . n A 1 7 B8H 7 7 7 B8H B8H A . n A 1 8 U 8 8 8 U U A . n A 1 9 A 9 9 9 A A A . n A 1 10 G 10 10 10 G G A . n A 1 11 C 11 11 11 C C A . n A 1 12 G 12 12 12 G G A . n B 1 1 C 1 21 21 C C B . n B 1 2 G 2 22 22 G G B . n B 1 3 C 3 23 23 C C B . n B 1 4 G 4 24 24 G G B . n B 1 5 A 5 25 25 A A B . n B 1 6 A 6 26 26 A A B . n B 1 7 B8H 7 27 27 B8H B8H B . n B 1 8 U 8 28 28 U U B . n B 1 9 A 9 29 29 A A B . n B 1 10 G 10 30 30 G G B . n B 1 11 C 11 31 31 C C B . n B 1 12 G 12 32 32 G G B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG 1 101 313 MG MG A . D 2 MG 1 102 314 MG MG A . E 2 MG 1 101 312 MG MG B . F 3 HOH 1 201 75 HOH HOH A . F 3 HOH 2 202 149 HOH HOH A . F 3 HOH 3 203 120 HOH HOH A . F 3 HOH 4 204 61 HOH HOH A . F 3 HOH 5 205 124 HOH HOH A . F 3 HOH 6 206 111 HOH HOH A . F 3 HOH 7 207 1 HOH HOH A . F 3 HOH 8 208 68 HOH HOH A . F 3 HOH 9 209 74 HOH HOH A . F 3 HOH 10 210 91 HOH HOH A . F 3 HOH 11 211 7 HOH HOH A . F 3 HOH 12 212 5 HOH HOH A . F 3 HOH 13 213 162 HOH HOH A . F 3 HOH 14 214 13 HOH HOH A . F 3 HOH 15 215 102 HOH HOH A . F 3 HOH 16 216 112 HOH HOH A . F 3 HOH 17 217 69 HOH HOH A . F 3 HOH 18 218 19 HOH HOH A . F 3 HOH 19 219 31 HOH HOH A . F 3 HOH 20 220 87 HOH HOH A . F 3 HOH 21 221 45 HOH HOH A . F 3 HOH 22 222 115 HOH HOH A . F 3 HOH 23 223 41 HOH HOH A . F 3 HOH 24 224 26 HOH HOH A . F 3 HOH 25 225 67 HOH HOH A . F 3 HOH 26 226 30 HOH HOH A . F 3 HOH 27 227 85 HOH HOH A . F 3 HOH 28 228 99 HOH HOH A . F 3 HOH 29 229 9 HOH HOH A . F 3 HOH 30 230 159 HOH HOH A . F 3 HOH 31 231 55 HOH HOH A . F 3 HOH 32 232 32 HOH HOH A . F 3 HOH 33 233 56 HOH HOH A . F 3 HOH 34 234 80 HOH HOH A . F 3 HOH 35 235 66 HOH HOH A . F 3 HOH 36 236 96 HOH HOH A . F 3 HOH 37 237 163 HOH HOH A . F 3 HOH 38 238 129 HOH HOH A . F 3 HOH 39 239 38 HOH HOH A . F 3 HOH 40 240 3 HOH HOH A . F 3 HOH 41 241 77 HOH HOH A . F 3 HOH 42 242 43 HOH HOH A . F 3 HOH 43 243 106 HOH HOH A . F 3 HOH 44 244 171 HOH HOH A . F 3 HOH 45 245 119 HOH HOH A . F 3 HOH 46 246 54 HOH HOH A . F 3 HOH 47 247 29 HOH HOH A . F 3 HOH 48 248 50 HOH HOH A . F 3 HOH 49 249 110 HOH HOH A . F 3 HOH 50 250 147 HOH HOH A . F 3 HOH 51 251 71 HOH HOH A . F 3 HOH 52 252 88 HOH HOH A . F 3 HOH 53 253 27 HOH HOH A . F 3 HOH 54 254 10 HOH HOH A . F 3 HOH 55 255 173 HOH HOH A . F 3 HOH 56 256 94 HOH HOH A . F 3 HOH 57 257 48 HOH HOH A . F 3 HOH 58 258 101 HOH HOH A . F 3 HOH 59 259 118 HOH HOH A . F 3 HOH 60 260 11 HOH HOH A . F 3 HOH 61 261 47 HOH HOH A . F 3 HOH 62 262 130 HOH HOH A . F 3 HOH 63 263 141 HOH HOH A . F 3 HOH 64 264 73 HOH HOH A . F 3 HOH 65 265 95 HOH HOH A . F 3 HOH 66 266 121 HOH HOH A . F 3 HOH 67 267 126 HOH HOH A . F 3 HOH 68 268 133 HOH HOH A . F 3 HOH 69 269 64 HOH HOH A . F 3 HOH 70 270 92 HOH HOH A . F 3 HOH 71 271 35 HOH HOH A . F 3 HOH 72 272 8 HOH HOH A . F 3 HOH 73 273 154 HOH HOH A . F 3 HOH 74 274 12 HOH HOH A . F 3 HOH 75 275 168 HOH HOH A . F 3 HOH 76 276 156 HOH HOH A . F 3 HOH 77 277 143 HOH HOH A . F 3 HOH 78 278 37 HOH HOH A . F 3 HOH 79 279 142 HOH HOH A . F 3 HOH 80 280 98 HOH HOH A . F 3 HOH 81 281 100 HOH HOH A . F 3 HOH 82 282 103 HOH HOH A . F 3 HOH 83 283 146 HOH HOH A . F 3 HOH 84 284 164 HOH HOH A . G 3 HOH 1 201 105 HOH HOH B . G 3 HOH 2 202 158 HOH HOH B . G 3 HOH 3 203 161 HOH HOH B . G 3 HOH 4 204 51 HOH HOH B . G 3 HOH 5 205 152 HOH HOH B . G 3 HOH 6 206 108 HOH HOH B . G 3 HOH 7 207 113 HOH HOH B . G 3 HOH 8 208 83 HOH HOH B . G 3 HOH 9 209 137 HOH HOH B . G 3 HOH 10 210 70 HOH HOH B . G 3 HOH 11 211 46 HOH HOH B . G 3 HOH 12 212 59 HOH HOH B . G 3 HOH 13 213 117 HOH HOH B . G 3 HOH 14 214 52 HOH HOH B . G 3 HOH 15 215 25 HOH HOH B . G 3 HOH 16 216 170 HOH HOH B . G 3 HOH 17 217 62 HOH HOH B . G 3 HOH 18 218 86 HOH HOH B . G 3 HOH 19 219 53 HOH HOH B . G 3 HOH 20 220 15 HOH HOH B . G 3 HOH 21 221 36 HOH HOH B . G 3 HOH 22 222 2 HOH HOH B . G 3 HOH 23 223 93 HOH HOH B . G 3 HOH 24 224 34 HOH HOH B . G 3 HOH 25 225 49 HOH HOH B . G 3 HOH 26 226 65 HOH HOH B . G 3 HOH 27 227 136 HOH HOH B . G 3 HOH 28 228 22 HOH HOH B . G 3 HOH 29 229 18 HOH HOH B . G 3 HOH 30 230 58 HOH HOH B . G 3 HOH 31 231 79 HOH HOH B . G 3 HOH 32 232 24 HOH HOH B . G 3 HOH 33 233 127 HOH HOH B . G 3 HOH 34 234 107 HOH HOH B . G 3 HOH 35 235 17 HOH HOH B . G 3 HOH 36 236 57 HOH HOH B . G 3 HOH 37 237 16 HOH HOH B . G 3 HOH 38 238 138 HOH HOH B . G 3 HOH 39 239 172 HOH HOH B . G 3 HOH 40 240 39 HOH HOH B . G 3 HOH 41 241 28 HOH HOH B . G 3 HOH 42 242 20 HOH HOH B . G 3 HOH 43 243 6 HOH HOH B . G 3 HOH 44 244 40 HOH HOH B . G 3 HOH 45 245 167 HOH HOH B . G 3 HOH 46 246 63 HOH HOH B . G 3 HOH 47 247 14 HOH HOH B . G 3 HOH 48 248 89 HOH HOH B . G 3 HOH 49 249 97 HOH HOH B . G 3 HOH 50 250 131 HOH HOH B . G 3 HOH 51 251 42 HOH HOH B . G 3 HOH 52 252 21 HOH HOH B . G 3 HOH 53 253 76 HOH HOH B . G 3 HOH 54 254 139 HOH HOH B . G 3 HOH 55 255 160 HOH HOH B . G 3 HOH 56 256 109 HOH HOH B . G 3 HOH 57 257 78 HOH HOH B . G 3 HOH 58 258 23 HOH HOH B . G 3 HOH 59 259 157 HOH HOH B . G 3 HOH 60 260 33 HOH HOH B . G 3 HOH 61 261 125 HOH HOH B . G 3 HOH 62 262 151 HOH HOH B . G 3 HOH 63 263 60 HOH HOH B . G 3 HOH 64 264 122 HOH HOH B . G 3 HOH 65 265 116 HOH HOH B . G 3 HOH 66 266 4 HOH HOH B . G 3 HOH 67 267 44 HOH HOH B . G 3 HOH 68 268 134 HOH HOH B . G 3 HOH 69 269 132 HOH HOH B . G 3 HOH 70 270 82 HOH HOH B . G 3 HOH 71 271 174 HOH HOH B . G 3 HOH 72 272 114 HOH HOH B . G 3 HOH 73 273 153 HOH HOH B . G 3 HOH 74 274 72 HOH HOH B . G 3 HOH 75 275 169 HOH HOH B . G 3 HOH 76 276 84 HOH HOH B . G 3 HOH 77 277 150 HOH HOH B . G 3 HOH 78 278 155 HOH HOH B . G 3 HOH 79 279 128 HOH HOH B . G 3 HOH 80 280 90 HOH HOH B . G 3 HOH 81 281 123 HOH HOH B . G 3 HOH 82 282 104 HOH HOH B . G 3 HOH 83 283 81 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.20.1_4487 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? SHELXD ? ? ? . 4 # _cell.angle_alpha 62.590 _cell.angle_alpha_esd ? _cell.angle_beta 63.800 _cell.angle_beta_esd ? _cell.angle_gamma 88.700 _cell.angle_gamma_esd ? _cell.entry_id 8PFQ _cell.details ? _cell.formula_units_Z ? _cell.length_a 26.763 _cell.length_a_esd ? _cell.length_b 27.037 _cell.length_b_esd ? _cell.length_c 29.141 _cell.length_c_esd ? _cell.volume 16358.491 _cell.volume_esd ? _cell.Z_PDB 2 _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8PFQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' _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 8PFQ _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 2.12 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 41.87 _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.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_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 7.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '10 % v/v MPD, 40 mM sodium cacodylate, 12 mM spermine and 80 mM potassium chloride' _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 298 # _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.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 2M-F' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2022-02-09 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _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 1.000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'SLS BEAMLINE X06SA' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.000 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline X06SA _diffrn_source.pdbx_synchrotron_site SLS # _reflns.B_iso_Wilson_estimate 9.21 _reflns.entry_id 8PFQ _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.01 _reflns.d_resolution_low 23.38 _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 27271 _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 82.01 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.3 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 8.86 _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 0.05207 _reflns.pdbx_Rpim_I_all 0.02766 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.998 _reflns.pdbx_CC_star 1 _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.05207 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 1.01 _reflns_shell.d_res_low 1.046 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 0.61 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1270 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 1.095 _reflns_shell.pdbx_Rpim_I_all 0.7333 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.465 _reflns_shell.pdbx_CC_star 0.797 _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 25.97 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.8088 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _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 13.78 _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 8PFQ _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 1.01 _refine.ls_d_res_low 23.38 _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 27256 _refine.ls_number_reflns_R_free 1364 _refine.ls_number_reflns_R_work 25892 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 81.60 _refine.ls_percent_reflns_R_free 5.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1551 _refine.ls_R_factor_R_free 0.1753 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1540 _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.pdbx_R_complete ? _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 1.96 _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 'AB INITIO PHASING' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _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 1.1000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 22.5813 _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 0.1032 _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.details ? _refine_hist.d_res_high 1.01 _refine_hist.d_res_low 23.38 _refine_hist.number_atoms_solvent 167 _refine_hist.number_atoms_total 682 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 512 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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' ? 0.0042 ? 572 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.9530 ? 890 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0271 ? 116 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0101 ? 24 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 6.6451 ? 268 ? 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_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_R_complete _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 _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 1.01 1.04 . . 42 798 24.84 . . . . 0.3999 . . . . . . . . . . . 0.5002 'X-RAY DIFFRACTION' 1.04 1.09 . . 92 1733 55.47 . . . . 0.2794 . . . . . . . . . . . 0.2852 'X-RAY DIFFRACTION' 1.09 1.14 . . 139 2656 83.81 . . . . 0.2130 . . . . . . . . . . . 0.2457 'X-RAY DIFFRACTION' 1.14 1.20 . . 148 2807 89.06 . . . . 0.1791 . . . . . . . . . . . 0.1955 'X-RAY DIFFRACTION' 1.20 1.27 . . 155 2934 90.83 . . . . 0.1551 . . . . . . . . . . . 0.1850 'X-RAY DIFFRACTION' 1.27 1.37 . . 151 2886 91.84 . . . . 0.1589 . . . . . . . . . . . 0.1995 'X-RAY DIFFRACTION' 1.37 1.51 . . 157 2965 93.28 . . . . 0.1563 . . . . . . . . . . . 0.1716 'X-RAY DIFFRACTION' 1.51 1.72 . . 157 2988 94.42 . . . . 0.1376 . . . . . . . . . . . 0.1614 'X-RAY DIFFRACTION' 1.72 2.17 . . 160 3034 95.74 . . . . 0.1467 . . . . . . . . . . . 0.1673 'X-RAY DIFFRACTION' 2.17 23.38 . . 163 3091 97.13 . . . . 0.1433 . . . . . . . . . . . 0.1607 # _struct.entry_id 8PFQ _struct.title 'RNA structure with 1-methylpseudoridine, P1 space group' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8PFQ _struct_keywords.text 'SARS-CoV-2, COVID-19, Coronavirus, mRNA vaccine, RNA' _struct_keywords.pdbx_keywords RNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 3 ? G N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8PFQ _struct_ref.pdbx_db_accession 8PFQ _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 8PFQ A 1 ? 12 ? 8PFQ 1 ? 12 ? 1 12 2 1 8PFQ B 1 ? 12 ? 8PFQ 21 ? 32 ? 21 32 # _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 # 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)' 1390 ? 1 MORE -9 ? 1 'SSA (A^2)' 4570 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # _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 6 "O3'" ? ? ? 1_555 A B8H 7 P ? ? A A 6 A B8H 7 1_555 ? ? ? ? ? ? ? 1.615 ? ? covale2 covale one ? A B8H 7 "O3'" ? ? ? 1_555 A U 8 P ? ? A B8H 7 A U 8 1_555 ? ? ? ? ? ? ? 1.600 ? ? covale3 covale both ? B A 6 "O3'" ? ? ? 1_555 B B8H 7 P ? ? B A 26 B B8H 27 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale4 covale one ? B B8H 7 "O3'" ? ? ? 1_555 B U 8 P ? ? B B8H 27 B U 28 1_555 ? ? ? ? ? ? ? 1.606 ? ? metalc1 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 101 A HOH 247 1_555 ? ? ? ? ? ? ? 2.286 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 101 A HOH 260 1_555 ? ? ? ? ? ? ? 2.361 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 249 1_555 ? ? ? ? ? ? ? 2.085 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 G HOH . O ? ? A MG 101 B HOH 281 1_555 ? ? ? ? ? ? ? 2.165 ? ? metalc5 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 102 A HOH 230 1_555 ? ? ? ? ? ? ? 2.317 ? ? metalc6 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 102 A HOH 232 1_555 ? ? ? ? ? ? ? 2.089 ? ? metalc7 metalc ? ? D MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 102 A HOH 276 1_555 ? ? ? ? ? ? ? 2.151 ? ? metalc8 metalc ? ? F HOH . O ? ? ? 1_555 E MG . MG ? ? A HOH 281 B MG 101 1_555 ? ? ? ? ? ? ? 2.236 ? ? metalc9 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 101 B HOH 230 1_555 ? ? ? ? ? ? ? 2.059 ? ? metalc10 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 101 B HOH 235 1_555 ? ? ? ? ? ? ? 2.047 ? ? metalc11 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 101 B HOH 243 1_555 ? ? ? ? ? ? ? 2.010 ? ? metalc12 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 101 B HOH 282 1_555 ? ? ? ? ? ? ? 2.031 ? ? metalc13 metalc ? ? E MG . MG ? ? ? 1_555 G HOH . O ? ? B MG 101 B HOH 283 1_555 ? ? ? ? ? ? ? 2.027 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 12 N1 ? ? A C 1 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 12 O6 ? ? A C 1 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 12 N2 ? ? A C 1 B G 32 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A G 2 N1 ? ? ? 1_555 B C 11 N3 ? ? A G 2 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 2 N2 ? ? ? 1_555 B C 11 O2 ? ? A G 2 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 2 O6 ? ? ? 1_555 B C 11 N4 ? ? A G 2 B C 31 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 10 N1 ? ? A C 3 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 10 O6 ? ? A C 3 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 10 N2 ? ? A C 3 B G 30 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 4 N1 ? ? ? 1_555 B A 9 N1 ? ? A G 4 B A 29 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog11 hydrog ? ? A G 4 O6 ? ? ? 1_555 B A 9 N6 ? ? A G 4 B A 29 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog12 hydrog ? ? A A 5 N1 ? ? ? 1_555 B U 8 N3 ? ? A A 5 B U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A A 5 N6 ? ? ? 1_555 B U 8 O4 ? ? A A 5 B U 28 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A A 6 N1 ? ? ? 1_555 B B8H 7 N3 ? ? A A 6 B B8H 27 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog15 hydrog ? ? A A 6 N6 ? ? ? 1_555 B B8H 7 O2 ? ? A A 6 B B8H 27 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog16 hydrog ? ? A B8H 7 N3 ? ? ? 1_555 B A 6 N1 ? ? A B8H 7 B A 26 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog17 hydrog ? ? A B8H 7 O2 ? ? ? 1_555 B A 6 N6 ? ? A B8H 7 B A 26 1_555 ? ? ? ? ? ? 'REVERSED WATSON-CRICK' ? ? ? hydrog18 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 5 N1 ? ? A U 8 B A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 5 N6 ? ? A U 8 B A 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A A 9 N1 ? ? ? 1_555 B G 4 N1 ? ? A A 9 B G 24 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog21 hydrog ? ? A A 9 N6 ? ? ? 1_555 B G 4 O6 ? ? A A 9 B G 24 1_555 ? ? ? ? ? ? TYPE_8_PAIR ? ? ? hydrog22 hydrog ? ? A G 10 N1 ? ? ? 1_555 B C 3 N3 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A G 10 N2 ? ? ? 1_555 B C 3 O2 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A G 10 O6 ? ? ? 1_555 B C 3 N4 ? ? A G 10 B C 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A C 11 N3 ? ? ? 1_555 B G 2 N1 ? ? A C 11 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A C 11 N4 ? ? ? 1_555 B G 2 O6 ? ? A C 11 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A C 11 O2 ? ? ? 1_555 B G 2 N2 ? ? A C 11 B G 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 1 N3 ? ? A G 12 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 1 O2 ? ? A G 12 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 1 N4 ? ? A G 12 B C 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? F HOH . ? A HOH 247 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? F HOH . ? A HOH 260 ? 1_555 75.8 ? 2 O ? F HOH . ? A HOH 247 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 249 ? 1_555 79.0 ? 3 O ? F HOH . ? A HOH 260 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 249 ? 1_555 151.2 ? 4 O ? F HOH . ? A HOH 247 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 281 ? 1_555 172.0 ? 5 O ? F HOH . ? A HOH 260 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 281 ? 1_555 96.7 ? 6 O ? G HOH . ? B HOH 249 ? 1_555 MG ? C MG . ? A MG 101 ? 1_555 O ? G HOH . ? B HOH 281 ? 1_555 107.6 ? 7 O ? F HOH . ? A HOH 230 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? F HOH . ? A HOH 232 ? 1_555 86.2 ? 8 O ? F HOH . ? A HOH 230 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? F HOH . ? A HOH 276 ? 1_555 80.3 ? 9 O ? F HOH . ? A HOH 232 ? 1_555 MG ? D MG . ? A MG 102 ? 1_555 O ? F HOH . ? A HOH 276 ? 1_555 165.0 ? 10 O ? F HOH . ? A HOH 281 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 230 ? 1_555 172.6 ? 11 O ? F HOH . ? A HOH 281 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 235 ? 1_555 81.6 ? 12 O ? G HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 235 ? 1_555 91.2 ? 13 O ? F HOH . ? A HOH 281 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 243 ? 1_555 89.2 ? 14 O ? G HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 243 ? 1_555 92.4 ? 15 O ? G HOH . ? B HOH 235 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 243 ? 1_555 90.4 ? 16 O ? F HOH . ? A HOH 281 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 282 ? 1_555 82.3 ? 17 O ? G HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 282 ? 1_555 105.0 ? 18 O ? G HOH . ? B HOH 235 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 282 ? 1_555 162.9 ? 19 O ? G HOH . ? B HOH 243 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 282 ? 1_555 83.8 ? 20 O ? F HOH . ? A HOH 281 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 283 ? 1_555 87.5 ? 21 O ? G HOH . ? B HOH 230 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 283 ? 1_555 90.8 ? 22 O ? G HOH . ? B HOH 235 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 283 ? 1_555 88.9 ? 23 O ? G HOH . ? B HOH 243 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 283 ? 1_555 176.7 ? 24 O ? G HOH . ? B HOH 282 ? 1_555 MG ? E MG . ? B MG 101 ? 1_555 O ? G HOH . ? B HOH 283 ? 1_555 95.9 ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 213 ? ? O A HOH 266 ? ? 2.10 2 1 O A HOH 203 ? ? O A HOH 243 ? ? 2.17 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 B _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 223 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 227 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 1_565 _pdbx_validate_symm_contact.dist 2.08 # _space_group_symop.id 1 _space_group_symop.operation_xyz x,y,z # _pdbx_entry_details.entry_id 8PFQ _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # 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 B8H N1 N N N 38 B8H C2 C N N 39 B8H C4 C N N 40 B8H "C1'" C N S 41 B8H "C2'" C N R 42 B8H "C3'" C N S 43 B8H "C4'" C N R 44 B8H C5 C N N 45 B8H "C5'" C N N 46 B8H C6 C N N 47 B8H CN1 C N N 48 B8H N3 N N N 49 B8H O2 O N N 50 B8H "O2'" O N N 51 B8H "O3'" O N N 52 B8H O4 O N N 53 B8H "O4'" O N N 54 B8H "O5'" O N N 55 B8H OP1 O N N 56 B8H OP2 O N N 57 B8H P P N N 58 B8H O1 O N N 59 B8H H1 H N N 60 B8H H2 H N N 61 B8H H3 H N N 62 B8H H4 H N N 63 B8H H5 H N N 64 B8H H6 H N N 65 B8H H7 H N N 66 B8H H8 H N N 67 B8H H9 H N N 68 B8H H10 H N N 69 B8H H11 H N N 70 B8H H12 H N N 71 B8H H13 H N N 72 B8H H14 H N N 73 B8H H15 H N N 74 C OP3 O N N 75 C P P N N 76 C OP1 O N N 77 C OP2 O N N 78 C "O5'" O N N 79 C "C5'" C N N 80 C "C4'" C N R 81 C "O4'" O N N 82 C "C3'" C N S 83 C "O3'" O N N 84 C "C2'" C N R 85 C "O2'" O N N 86 C "C1'" C N R 87 C N1 N N N 88 C C2 C N N 89 C O2 O N N 90 C N3 N N N 91 C C4 C N N 92 C N4 N N N 93 C C5 C N N 94 C C6 C N N 95 C HOP3 H N N 96 C HOP2 H N N 97 C "H5'" H N N 98 C "H5''" H N N 99 C "H4'" H N N 100 C "H3'" H N N 101 C "HO3'" H N N 102 C "H2'" H N N 103 C "HO2'" H N N 104 C "H1'" H N N 105 C H41 H N N 106 C H42 H N N 107 C H5 H N N 108 C H6 H N N 109 G OP3 O N N 110 G P P N N 111 G OP1 O N N 112 G OP2 O N N 113 G "O5'" O N N 114 G "C5'" C N N 115 G "C4'" C N R 116 G "O4'" O N N 117 G "C3'" C N S 118 G "O3'" O N N 119 G "C2'" C N R 120 G "O2'" O N N 121 G "C1'" C N R 122 G N9 N Y N 123 G C8 C Y N 124 G N7 N Y N 125 G C5 C Y N 126 G C6 C N N 127 G O6 O N N 128 G N1 N N N 129 G C2 C N N 130 G N2 N N N 131 G N3 N N N 132 G C4 C Y N 133 G HOP3 H N N 134 G HOP2 H N N 135 G "H5'" H N N 136 G "H5''" H N N 137 G "H4'" H N N 138 G "H3'" H N N 139 G "HO3'" H N N 140 G "H2'" H N N 141 G "HO2'" H N N 142 G "H1'" H N N 143 G H8 H N N 144 G H1 H N N 145 G H21 H N N 146 G H22 H N N 147 HOH O O N N 148 HOH H1 H N N 149 HOH H2 H N N 150 MG MG MG N N 151 U OP3 O N N 152 U P P N N 153 U OP1 O N N 154 U OP2 O N N 155 U "O5'" O N N 156 U "C5'" C N N 157 U "C4'" C N R 158 U "O4'" O N N 159 U "C3'" C N S 160 U "O3'" O N N 161 U "C2'" C N R 162 U "O2'" O N N 163 U "C1'" C N R 164 U N1 N N N 165 U C2 C N N 166 U O2 O N N 167 U N3 N N N 168 U C4 C N N 169 U O4 O N N 170 U C5 C N N 171 U C6 C N N 172 U HOP3 H N N 173 U HOP2 H N N 174 U "H5'" H N N 175 U "H5''" H N N 176 U "H4'" H N N 177 U "H3'" H N N 178 U "HO3'" H N N 179 U "H2'" H N N 180 U "HO2'" H N N 181 U "H1'" H N N 182 U H3 H N N 183 U H5 H N N 184 U H6 H N N 185 # 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 B8H "C5'" "C4'" sing N N 40 B8H "C5'" "O5'" sing N N 41 B8H "C4'" "O4'" sing N N 42 B8H "C4'" "C3'" sing N N 43 B8H OP2 P doub N N 44 B8H "O2'" "C2'" sing N N 45 B8H "O4'" "C1'" sing N N 46 B8H "O3'" "C3'" sing N N 47 B8H P "O5'" sing N N 48 B8H P OP1 sing N N 49 B8H "C3'" "C2'" sing N N 50 B8H "C1'" "C2'" sing N N 51 B8H "C1'" C5 sing N N 52 B8H C5 C6 doub N N 53 B8H C5 C4 sing N N 54 B8H O4 C4 doub N N 55 B8H C6 N1 sing N N 56 B8H C4 N3 sing N N 57 B8H N1 CN1 sing N N 58 B8H N1 C2 sing N N 59 B8H N3 C2 sing N N 60 B8H C2 O2 doub N N 61 B8H P O1 sing N N 62 B8H "C1'" H1 sing N N 63 B8H "C2'" H2 sing N N 64 B8H "C3'" H3 sing N N 65 B8H "C4'" H4 sing N N 66 B8H "C5'" H5 sing N N 67 B8H "C5'" H6 sing N N 68 B8H C6 H7 sing N N 69 B8H CN1 H8 sing N N 70 B8H CN1 H9 sing N N 71 B8H CN1 H10 sing N N 72 B8H N3 H11 sing N N 73 B8H "O2'" H12 sing N N 74 B8H "O3'" H13 sing N N 75 B8H OP1 H14 sing N N 76 B8H O1 H15 sing N N 77 C OP3 P sing N N 78 C OP3 HOP3 sing N N 79 C P OP1 doub N N 80 C P OP2 sing N N 81 C P "O5'" sing N N 82 C OP2 HOP2 sing N N 83 C "O5'" "C5'" sing N N 84 C "C5'" "C4'" sing N N 85 C "C5'" "H5'" sing N N 86 C "C5'" "H5''" sing N N 87 C "C4'" "O4'" sing N N 88 C "C4'" "C3'" sing N N 89 C "C4'" "H4'" sing N N 90 C "O4'" "C1'" sing N N 91 C "C3'" "O3'" sing N N 92 C "C3'" "C2'" sing N N 93 C "C3'" "H3'" sing N N 94 C "O3'" "HO3'" sing N N 95 C "C2'" "O2'" sing N N 96 C "C2'" "C1'" sing N N 97 C "C2'" "H2'" sing N N 98 C "O2'" "HO2'" sing N N 99 C "C1'" N1 sing N N 100 C "C1'" "H1'" sing N N 101 C N1 C2 sing N N 102 C N1 C6 sing N N 103 C C2 O2 doub N N 104 C C2 N3 sing N N 105 C N3 C4 doub N N 106 C C4 N4 sing N N 107 C C4 C5 sing N N 108 C N4 H41 sing N N 109 C N4 H42 sing N N 110 C C5 C6 doub N N 111 C C5 H5 sing N N 112 C C6 H6 sing N N 113 G OP3 P sing N N 114 G OP3 HOP3 sing N N 115 G P OP1 doub N N 116 G P OP2 sing N N 117 G P "O5'" sing N N 118 G OP2 HOP2 sing N N 119 G "O5'" "C5'" sing N N 120 G "C5'" "C4'" sing N N 121 G "C5'" "H5'" sing N N 122 G "C5'" "H5''" sing N N 123 G "C4'" "O4'" sing N N 124 G "C4'" "C3'" sing N N 125 G "C4'" "H4'" sing N N 126 G "O4'" "C1'" sing N N 127 G "C3'" "O3'" sing N N 128 G "C3'" "C2'" sing N N 129 G "C3'" "H3'" sing N N 130 G "O3'" "HO3'" sing N N 131 G "C2'" "O2'" sing N N 132 G "C2'" "C1'" sing N N 133 G "C2'" "H2'" sing N N 134 G "O2'" "HO2'" sing N N 135 G "C1'" N9 sing N N 136 G "C1'" "H1'" sing N N 137 G N9 C8 sing Y N 138 G N9 C4 sing Y N 139 G C8 N7 doub Y N 140 G C8 H8 sing N N 141 G N7 C5 sing Y N 142 G C5 C6 sing N N 143 G C5 C4 doub Y N 144 G C6 O6 doub N N 145 G C6 N1 sing N N 146 G N1 C2 sing N N 147 G N1 H1 sing N N 148 G C2 N2 sing N N 149 G C2 N3 doub N N 150 G N2 H21 sing N N 151 G N2 H22 sing N N 152 G N3 C4 sing N N 153 HOH O H1 sing N N 154 HOH O H2 sing N N 155 U OP3 P sing N N 156 U OP3 HOP3 sing N N 157 U P OP1 doub N N 158 U P OP2 sing N N 159 U P "O5'" sing N N 160 U OP2 HOP2 sing N N 161 U "O5'" "C5'" sing N N 162 U "C5'" "C4'" sing N N 163 U "C5'" "H5'" sing N N 164 U "C5'" "H5''" sing N N 165 U "C4'" "O4'" sing N N 166 U "C4'" "C3'" sing N N 167 U "C4'" "H4'" sing N N 168 U "O4'" "C1'" sing N N 169 U "C3'" "O3'" sing N N 170 U "C3'" "C2'" sing N N 171 U "C3'" "H3'" sing N N 172 U "O3'" "HO3'" sing N N 173 U "C2'" "O2'" sing N N 174 U "C2'" "C1'" sing N N 175 U "C2'" "H2'" sing N N 176 U "O2'" "HO2'" sing N N 177 U "C1'" N1 sing N N 178 U "C1'" "H1'" sing N N 179 U N1 C2 sing N N 180 U N1 C6 sing N N 181 U C2 O2 doub N N 182 U C2 N3 sing N N 183 U N3 C4 sing N N 184 U N3 H3 sing N N 185 U C4 O4 doub N N 186 U C4 C5 sing N N 187 U C5 C6 doub N N 188 U C5 H5 sing N N 189 U C6 H6 sing N N 190 # _ndb_struct_conf_na.entry_id 8PFQ _ndb_struct_conf_na.feature '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 12 1_555 0.154 -0.128 0.038 5.902 -16.427 -0.339 1 A_C1:G32_B A 1 ? B 32 ? 19 1 1 A G 2 1_555 B C 11 1_555 -0.245 -0.167 -0.005 -5.568 -15.542 0.340 2 A_G2:C31_B A 2 ? B 31 ? 19 1 1 A C 3 1_555 B G 10 1_555 0.110 -0.091 0.259 -2.253 -8.299 -1.828 3 A_C3:G30_B A 3 ? B 30 ? 19 1 1 A G 4 1_555 B A 9 1_555 -0.022 1.464 -0.320 3.318 -7.355 -16.341 4 A_G4:A29_B A 4 ? B 29 ? 8 1 1 A A 5 1_555 B U 8 1_555 0.061 -0.071 0.156 5.600 -9.073 -3.799 5 A_A5:U28_B A 5 ? B 28 ? 20 1 1 A A 6 1_555 B B8H 7 1_555 0.134 1.155 -0.234 25.485 -2.019 173.556 6 A_A6:B8H27_B A 6 ? B 27 ? 21 1 1 A B8H 7 1_555 B A 6 1_555 -0.200 -1.176 0.134 -22.559 -1.188 -169.744 7 A_B8H7:A26_B A 7 ? B 26 ? 21 1 1 A U 8 1_555 B A 5 1_555 -0.057 -0.071 0.205 -1.783 -11.335 -2.519 8 A_U8:A25_B A 8 ? B 25 ? 20 1 1 A A 9 1_555 B G 4 1_555 -0.008 1.496 -0.397 1.830 -8.458 -18.303 9 A_A9:G24_B A 9 ? B 24 ? 8 1 1 A G 10 1_555 B C 3 1_555 -0.104 -0.130 0.345 5.084 -13.585 -2.356 10 A_G10:C23_B A 10 ? B 23 ? 19 1 1 A C 11 1_555 B G 2 1_555 0.213 -0.161 0.153 4.254 -17.701 0.324 11 A_C11:G22_B A 11 ? B 22 ? 19 1 1 A G 12 1_555 B C 1 1_555 -0.092 -0.137 0.021 -9.197 -15.040 -1.166 12 A_G12:C21_B A 12 ? B 21 ? 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 12 1_555 A G 2 1_555 B C 11 1_555 -0.210 -1.527 3.375 -1.142 13.332 33.688 -4.244 0.185 2.610 21.959 1.880 36.177 1 AA_C1G2:C31G32_BB A 1 ? B 32 ? A 2 ? B 31 ? 1 A G 2 1_555 B C 11 1_555 A C 3 1_555 B G 10 1_555 -0.157 -1.319 3.193 -1.579 7.035 34.008 -3.217 0.037 2.875 11.863 2.662 34.742 2 AA_G2C3:G30C31_BB A 2 ? B 31 ? A 3 ? B 30 ? 1 A C 3 1_555 B G 10 1_555 A G 4 1_555 B A 9 1_555 -0.842 -1.759 3.069 3.662 9.847 26.528 -5.437 2.404 2.158 20.468 -7.612 28.498 3 AA_C3G4:A29G30_BB A 3 ? B 30 ? A 4 ? B 29 ? 1 A G 4 1_555 B A 9 1_555 A A 5 1_555 B U 8 1_555 0.306 -1.685 3.154 -5.399 12.871 27.949 -5.218 -1.444 2.100 24.787 10.398 31.178 4 AA_G4A5:U28A29_BB A 4 ? B 29 ? A 5 ? B 28 ? 1 A A 5 1_555 B U 8 1_555 A A 6 1_555 B B8H 7 1_555 1.131 -0.923 3.522 -7.203 11.489 -50.891 0.192 0.744 3.752 -13.105 -8.216 -52.551 5 AA_A5A6:B8H27U28_BB A 5 ? B 28 ? A 6 ? B 27 ? 1 A A 6 1_555 B B8H 7 1_555 A B8H 7 1_555 B A 6 1_555 -3.394 0.969 1.054 -31.243 167.280 -152.103 -0.587 -1.716 0.644 -83.782 -15.648 -177.634 6 AA_A6B8H7:A26B8H27_BB A 6 ? B 27 ? A 7 ? B 26 ? 1 A B8H 7 1_555 B A 6 1_555 A U 8 1_555 B A 5 1_555 -2.701 2.407 0.056 -152.725 -75.237 -118.444 -1.240 -1.279 -0.646 37.921 -76.976 -175.016 7 AA_B8H7U8:A25A26_BB A 7 ? B 26 ? A 8 ? B 25 ? 1 A U 8 1_555 B A 5 1_555 A A 9 1_555 B G 4 1_555 -0.679 -1.541 3.129 4.556 12.886 28.475 -4.866 1.968 2.120 24.493 -8.659 31.525 8 AA_U8A9:G24A25_BB A 8 ? B 25 ? A 9 ? B 24 ? 1 A A 9 1_555 B G 4 1_555 A G 10 1_555 B C 3 1_555 0.950 -1.487 3.083 -5.164 11.116 29.449 -4.416 -2.524 2.198 20.770 9.649 31.846 9 AA_A9G10:C23G24_BB A 9 ? B 24 ? A 10 ? B 23 ? 1 A G 10 1_555 B C 3 1_555 A C 11 1_555 B G 2 1_555 0.323 -1.565 3.203 1.647 4.405 35.301 -3.169 -0.299 3.003 7.224 -2.702 35.603 10 AA_G10C11:G22C23_BB A 10 ? B 23 ? A 11 ? B 22 ? 1 A C 11 1_555 B G 2 1_555 A G 12 1_555 B C 1 1_555 0.033 -1.767 3.367 2.834 12.899 33.733 -4.550 0.321 2.539 21.245 -4.668 36.156 11 AA_C11G12:C21G22_BB A 11 ? B 22 ? A 12 ? B 21 ? # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'University of Zurich' Switzerland ? 1 'Swiss National Science Foundation' Switzerland 206021_164018 2 # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id B8H _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id B8H _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _space_group.name_H-M_alt 'P 1' _space_group.name_Hall 'P 1' _space_group.IT_number 1 _space_group.crystal_system triclinic _space_group.id 1 # _atom_sites.entry_id 8PFQ _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.037365 _atom_sites.fract_transf_matrix[1][2] -0.000848 _atom_sites.fract_transf_matrix[1][3] -0.020767 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.036996 _atom_sites.fract_transf_matrix[2][3] -0.021476 _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] 0.044222 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # 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_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _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. ; ? H ? ? 0.53795 0.34799 0.11320 ? 10.08003 29.74760 2.57510 ? 0.0 ;3-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? MG ? ? 6.67814 2.96430 2.32496 ? 4.14073 0.42890 71.01992 ? 0.0 ;3-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_