data_5VIR # _model_server_result.job_id pSBGdraOuGnLvoJnwZaVpQ _model_server_result.datetime_utc '2024-12-28 01:25:00' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5vir # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":300}' # _entry.id 5VIR # _exptl.entry_id 5VIR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 184.191 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1H,3H-naphtho[1,8-cd]pyran-1-one _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5VIR _cell.length_a 63.38 _cell.length_b 116.11 _cell.length_c 55.52 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VIR _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C12 H8 O2' _chem_comp.formula_weight 184.191 _chem_comp.id 9CG _chem_comp.mon_nstd_flag . _chem_comp.name 1H,3H-naphtho[1,8-cd]pyran-1-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C04 O03 9CG sing 1 n n C04 C05 9CG sing 2 n n C06 C05 9CG doub 3 n y C06 C07 9CG sing 4 n y O03 C02 9CG sing 5 n n C05 C14 9CG sing 6 n y C07 C08 9CG doub 7 n y C02 O01 9CG doub 8 n n C02 C13 9CG sing 9 n n C14 C13 9CG doub 10 n y C14 C09 9CG sing 11 n y C08 C09 9CG sing 12 n y C13 C12 9CG sing 13 n y C09 C10 9CG doub 14 n y C12 C11 9CG doub 15 n y C10 C11 9CG sing 16 n y C10 H1 9CG sing 17 n n C11 H2 9CG sing 18 n n C04 H3 9CG sing 19 n n C04 H4 9CG sing 20 n n C06 H5 9CG sing 21 n n C07 H6 9CG sing 22 n n C08 H7 9CG sing 23 n n C12 H8 9CG sing 24 n n # _atom_sites.entry_id 5VIR _atom_sites.fract_transf_matrix[1][1] 0.015778 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008613 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.018012 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code C 2 9CG A 1 300 300 9CG 091 . D 3 NAP A 1 301 301 NAP NAP . E 2 9CG B 1 300 300 9CG 091 . F 3 NAP B 1 301 301 NAP NAP . G 4 HOH A 1 401 267 HOH HOH . G 4 HOH A 2 402 283 HOH HOH . G 4 HOH A 3 403 250 HOH HOH . G 4 HOH A 4 404 239 HOH HOH . G 4 HOH A 5 405 279 HOH HOH . G 4 HOH A 6 406 90 HOH HOH . G 4 HOH A 7 407 311 HOH HOH . G 4 HOH A 8 408 19 HOH HOH . G 4 HOH A 9 409 285 HOH HOH . G 4 HOH A 10 410 235 HOH HOH . G 4 HOH A 11 411 151 HOH HOH . G 4 HOH A 12 412 316 HOH HOH . G 4 HOH A 13 413 230 HOH HOH . G 4 HOH A 14 414 117 HOH HOH . G 4 HOH A 15 415 27 HOH HOH . G 4 HOH A 16 416 48 HOH HOH . G 4 HOH A 17 417 168 HOH HOH . G 4 HOH A 18 418 245 HOH HOH . G 4 HOH A 19 419 238 HOH HOH . G 4 HOH A 20 420 205 HOH HOH . G 4 HOH A 21 421 55 HOH HOH . G 4 HOH A 22 422 97 HOH HOH . G 4 HOH A 23 423 242 HOH HOH . G 4 HOH A 24 424 206 HOH HOH . G 4 HOH A 25 425 7 HOH HOH . G 4 HOH A 26 426 278 HOH HOH . G 4 HOH A 27 427 202 HOH HOH . G 4 HOH A 28 428 142 HOH HOH . G 4 HOH A 29 429 24 HOH HOH . G 4 HOH A 30 430 91 HOH HOH . G 4 HOH A 31 431 28 HOH HOH . G 4 HOH A 32 432 98 HOH HOH . G 4 HOH A 33 433 152 HOH HOH . G 4 HOH A 34 434 314 HOH HOH . G 4 HOH A 35 435 64 HOH HOH . G 4 HOH A 36 436 5 HOH HOH . G 4 HOH A 37 437 203 HOH HOH . G 4 HOH A 38 438 199 HOH HOH . G 4 HOH A 39 439 175 HOH HOH . G 4 HOH A 40 440 222 HOH HOH . G 4 HOH A 41 441 118 HOH HOH . G 4 HOH A 42 442 125 HOH HOH . G 4 HOH A 43 443 33 HOH HOH . G 4 HOH A 44 444 110 HOH HOH . G 4 HOH A 45 445 76 HOH HOH . G 4 HOH A 46 446 143 HOH HOH . G 4 HOH A 47 447 236 HOH HOH . G 4 HOH A 48 448 114 HOH HOH . G 4 HOH A 49 449 105 HOH HOH . G 4 HOH A 50 450 73 HOH HOH . G 4 HOH A 51 451 86 HOH HOH . G 4 HOH A 52 452 184 HOH HOH . G 4 HOH A 53 453 315 HOH HOH . G 4 HOH A 54 454 21 HOH HOH . G 4 HOH A 55 455 43 HOH HOH . G 4 HOH A 56 456 45 HOH HOH . G 4 HOH A 57 457 274 HOH HOH . G 4 HOH A 58 458 217 HOH HOH . G 4 HOH A 59 459 171 HOH HOH . G 4 HOH A 60 460 30 HOH HOH . G 4 HOH A 61 461 39 HOH HOH . G 4 HOH A 62 462 63 HOH HOH . G 4 HOH A 63 463 52 HOH HOH . G 4 HOH A 64 464 166 HOH HOH . G 4 HOH A 65 465 191 HOH HOH . G 4 HOH A 66 466 141 HOH HOH . G 4 HOH A 67 467 25 HOH HOH . G 4 HOH A 68 468 14 HOH HOH . G 4 HOH A 69 469 68 HOH HOH . G 4 HOH A 70 470 18 HOH HOH . G 4 HOH A 71 471 147 HOH HOH . G 4 HOH A 72 472 12 HOH HOH . G 4 HOH A 73 473 22 HOH HOH . G 4 HOH A 74 474 113 HOH HOH . G 4 HOH A 75 475 128 HOH HOH . G 4 HOH A 76 476 180 HOH HOH . G 4 HOH A 77 477 46 HOH HOH . G 4 HOH A 78 478 80 HOH HOH . G 4 HOH A 79 479 101 HOH HOH . G 4 HOH A 80 480 275 HOH HOH . G 4 HOH A 81 481 106 HOH HOH . G 4 HOH A 82 482 70 HOH HOH . G 4 HOH A 83 483 165 HOH HOH . G 4 HOH A 84 484 187 HOH HOH . G 4 HOH A 85 485 111 HOH HOH . G 4 HOH A 86 486 119 HOH HOH . G 4 HOH A 87 487 104 HOH HOH . G 4 HOH A 88 488 107 HOH HOH . G 4 HOH A 89 489 297 HOH HOH . G 4 HOH A 90 490 44 HOH HOH . G 4 HOH A 91 491 83 HOH HOH . G 4 HOH A 92 492 121 HOH HOH . G 4 HOH A 93 493 50 HOH HOH . G 4 HOH A 94 494 149 HOH HOH . G 4 HOH A 95 495 305 HOH HOH . G 4 HOH A 96 496 93 HOH HOH . G 4 HOH A 97 497 218 HOH HOH . G 4 HOH A 98 498 140 HOH HOH . G 4 HOH A 99 499 186 HOH HOH . G 4 HOH A 100 500 96 HOH HOH . G 4 HOH A 101 501 26 HOH HOH . G 4 HOH A 102 502 169 HOH HOH . G 4 HOH A 103 503 192 HOH HOH . G 4 HOH A 104 504 231 HOH HOH . G 4 HOH A 105 505 1 HOH HOH . G 4 HOH A 106 506 240 HOH HOH . G 4 HOH A 107 507 241 HOH HOH . G 4 HOH A 108 508 170 HOH HOH . G 4 HOH A 109 509 287 HOH HOH . G 4 HOH A 110 510 56 HOH HOH . G 4 HOH A 111 511 280 HOH HOH . G 4 HOH A 112 512 273 HOH HOH . G 4 HOH A 113 513 164 HOH HOH . G 4 HOH A 114 514 34 HOH HOH . G 4 HOH A 115 515 233 HOH HOH . G 4 HOH A 116 516 246 HOH HOH . G 4 HOH A 117 517 209 HOH HOH . G 4 HOH A 118 518 294 HOH HOH . G 4 HOH A 119 519 185 HOH HOH . G 4 HOH A 120 520 300 HOH HOH . G 4 HOH A 121 521 302 HOH HOH . G 4 HOH A 122 522 299 HOH HOH . G 4 HOH A 123 523 243 HOH HOH . G 4 HOH A 124 524 284 HOH HOH . G 4 HOH A 125 525 234 HOH HOH . G 4 HOH A 126 526 232 HOH HOH . G 4 HOH A 127 527 190 HOH HOH . G 4 HOH A 128 528 313 HOH HOH . G 4 HOH A 129 529 301 HOH HOH . G 4 HOH A 130 530 194 HOH HOH . G 4 HOH A 131 531 177 HOH HOH . G 4 HOH A 132 532 131 HOH HOH . G 4 HOH A 133 533 282 HOH HOH . G 4 HOH A 134 534 244 HOH HOH . G 4 HOH A 135 535 317 HOH HOH . G 4 HOH A 136 536 293 HOH HOH . H 4 HOH B 1 401 269 HOH HOH . H 4 HOH B 2 402 123 HOH HOH . H 4 HOH B 3 403 254 HOH HOH . H 4 HOH B 4 404 132 HOH HOH . H 4 HOH B 5 405 266 HOH HOH . H 4 HOH B 6 406 144 HOH HOH . H 4 HOH B 7 407 262 HOH HOH . H 4 HOH B 8 408 85 HOH HOH . H 4 HOH B 9 409 51 HOH HOH . H 4 HOH B 10 410 92 HOH HOH . H 4 HOH B 11 411 158 HOH HOH . H 4 HOH B 12 412 265 HOH HOH . H 4 HOH B 13 413 15 HOH HOH . H 4 HOH B 14 414 81 HOH HOH . H 4 HOH B 15 415 208 HOH HOH . H 4 HOH B 16 416 160 HOH HOH . H 4 HOH B 17 417 259 HOH HOH . H 4 HOH B 18 418 102 HOH HOH . H 4 HOH B 19 419 71 HOH HOH . H 4 HOH B 20 420 211 HOH HOH . H 4 HOH B 21 421 148 HOH HOH . H 4 HOH B 22 422 307 HOH HOH . H 4 HOH B 23 423 146 HOH HOH . H 4 HOH B 24 424 139 HOH HOH . H 4 HOH B 25 425 116 HOH HOH . H 4 HOH B 26 426 226 HOH HOH . H 4 HOH B 27 427 130 HOH HOH . H 4 HOH B 28 428 57 HOH HOH . H 4 HOH B 29 429 257 HOH HOH . H 4 HOH B 30 430 10 HOH HOH . H 4 HOH B 31 431 31 HOH HOH . H 4 HOH B 32 432 16 HOH HOH . H 4 HOH B 33 433 197 HOH HOH . H 4 HOH B 34 434 134 HOH HOH . H 4 HOH B 35 435 182 HOH HOH . H 4 HOH B 36 436 82 HOH HOH . H 4 HOH B 37 437 124 HOH HOH . H 4 HOH B 38 438 9 HOH HOH . H 4 HOH B 39 439 133 HOH HOH . H 4 HOH B 40 440 227 HOH HOH . H 4 HOH B 41 441 37 HOH HOH . H 4 HOH B 42 442 75 HOH HOH . H 4 HOH B 43 443 42 HOH HOH . H 4 HOH B 44 444 201 HOH HOH . H 4 HOH B 45 445 84 HOH HOH . H 4 HOH B 46 446 58 HOH HOH . H 4 HOH B 47 447 112 HOH HOH . H 4 HOH B 48 448 163 HOH HOH . H 4 HOH B 49 449 207 HOH HOH . H 4 HOH B 50 450 157 HOH HOH . H 4 HOH B 51 451 306 HOH HOH . H 4 HOH B 52 452 145 HOH HOH . H 4 HOH B 53 453 65 HOH HOH . H 4 HOH B 54 454 11 HOH HOH . H 4 HOH B 55 455 87 HOH HOH . H 4 HOH B 56 456 36 HOH HOH . H 4 HOH B 57 457 40 HOH HOH . H 4 HOH B 58 458 32 HOH HOH . H 4 HOH B 59 459 67 HOH HOH . H 4 HOH B 60 460 167 HOH HOH . H 4 HOH B 61 461 69 HOH HOH . H 4 HOH B 62 462 219 HOH HOH . H 4 HOH B 63 463 120 HOH HOH . H 4 HOH B 64 464 150 HOH HOH . H 4 HOH B 65 465 95 HOH HOH . H 4 HOH B 66 466 94 HOH HOH . H 4 HOH B 67 467 204 HOH HOH . H 4 HOH B 68 468 53 HOH HOH . H 4 HOH B 69 469 223 HOH HOH . H 4 HOH B 70 470 35 HOH HOH . H 4 HOH B 71 471 309 HOH HOH . H 4 HOH B 72 472 100 HOH HOH . H 4 HOH B 73 473 126 HOH HOH . H 4 HOH B 74 474 252 HOH HOH . H 4 HOH B 75 475 78 HOH HOH . H 4 HOH B 76 476 264 HOH HOH . H 4 HOH B 77 477 162 HOH HOH . H 4 HOH B 78 478 47 HOH HOH . H 4 HOH B 79 479 225 HOH HOH . H 4 HOH B 80 480 41 HOH HOH . H 4 HOH B 81 481 8 HOH HOH . H 4 HOH B 82 482 89 HOH HOH . H 4 HOH B 83 483 6 HOH HOH . H 4 HOH B 84 484 296 HOH HOH . H 4 HOH B 85 485 179 HOH HOH . H 4 HOH B 86 486 20 HOH HOH . H 4 HOH B 87 487 99 HOH HOH . H 4 HOH B 88 488 189 HOH HOH . H 4 HOH B 89 489 103 HOH HOH . H 4 HOH B 90 490 61 HOH HOH . H 4 HOH B 91 491 156 HOH HOH . H 4 HOH B 92 492 77 HOH HOH . H 4 HOH B 93 493 137 HOH HOH . H 4 HOH B 94 494 74 HOH HOH . H 4 HOH B 95 495 318 HOH HOH . H 4 HOH B 96 496 181 HOH HOH . H 4 HOH B 97 497 29 HOH HOH . H 4 HOH B 98 498 174 HOH HOH . H 4 HOH B 99 499 13 HOH HOH . H 4 HOH B 100 500 17 HOH HOH . H 4 HOH B 101 501 193 HOH HOH . H 4 HOH B 102 502 290 HOH HOH . H 4 HOH B 103 503 54 HOH HOH . H 4 HOH B 104 504 122 HOH HOH . H 4 HOH B 105 505 72 HOH HOH . H 4 HOH B 106 506 60 HOH HOH . H 4 HOH B 107 507 108 HOH HOH . H 4 HOH B 108 508 276 HOH HOH . H 4 HOH B 109 509 154 HOH HOH . H 4 HOH B 110 510 62 HOH HOH . H 4 HOH B 111 511 88 HOH HOH . H 4 HOH B 112 512 138 HOH HOH . H 4 HOH B 113 513 153 HOH HOH . H 4 HOH B 114 514 271 HOH HOH . H 4 HOH B 115 515 115 HOH HOH . H 4 HOH B 116 516 289 HOH HOH . H 4 HOH B 117 517 304 HOH HOH . H 4 HOH B 118 518 288 HOH HOH . H 4 HOH B 119 519 295 HOH HOH . H 4 HOH B 120 520 2 HOH HOH . H 4 HOH B 121 521 176 HOH HOH . H 4 HOH B 122 522 127 HOH HOH . H 4 HOH B 123 523 251 HOH HOH . H 4 HOH B 124 524 260 HOH HOH . H 4 HOH B 125 525 258 HOH HOH . H 4 HOH B 126 526 49 HOH HOH . H 4 HOH B 127 527 255 HOH HOH . H 4 HOH B 128 528 220 HOH HOH . H 4 HOH B 129 529 212 HOH HOH . H 4 HOH B 130 530 215 HOH HOH . H 4 HOH B 131 531 312 HOH HOH . H 4 HOH B 132 532 159 HOH HOH . H 4 HOH B 133 533 214 HOH HOH . H 4 HOH B 134 534 66 HOH HOH . H 4 HOH B 135 535 272 HOH HOH . H 4 HOH B 136 536 270 HOH HOH . H 4 HOH B 137 537 136 HOH HOH . H 4 HOH B 138 538 161 HOH HOH . H 4 HOH B 139 539 38 HOH HOH . H 4 HOH B 140 540 155 HOH HOH . H 4 HOH B 141 541 210 HOH HOH . H 4 HOH B 142 542 183 HOH HOH . H 4 HOH B 143 543 109 HOH HOH . H 4 HOH B 144 544 59 HOH HOH . H 4 HOH B 145 545 291 HOH HOH . H 4 HOH B 146 546 308 HOH HOH . H 4 HOH B 147 547 310 HOH HOH . H 4 HOH B 148 548 292 HOH HOH . H 4 HOH B 149 549 303 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C10 9CG . . . C 2 -3.045 3.835 26.591 1 29.98 ? C10 9CG 300 A 1 HETATM 2 C C11 9CG . . . C 2 -2.478 2.736 27.152 1 39.05 ? C11 9CG 300 A 1 HETATM 3 C C02 9CG . . . C 2 -1.505 0.724 24.148 1 48.7 ? C02 9CG 300 A 1 HETATM 4 C C04 9CG . . . C 2 -2.091 1.961 22.1 1 41.23 ? C04 9CG 300 A 1 HETATM 5 C C05 9CG . . . C 2 -2.656 3.062 22.96 1 30.49 ? C05 9CG 300 A 1 HETATM 6 C C06 9CG . . . C 2 -3.223 4.159 22.403 1 28.21 ? C06 9CG 300 A 1 HETATM 7 C C07 9CG . . . C 2 -3.743 5.177 23.214 1 25.93 ? C07 9CG 300 A 1 HETATM 8 C C08 9CG . . . C 2 -3.697 5.084 24.565 1 21.21 ? C08 9CG 300 A 1 HETATM 9 C C09 9CG . . . C 2 -3.119 3.966 25.181 1 26.83 ? C09 9CG 300 A 1 HETATM 10 C C12 9CG . . . C 2 -1.965 1.708 26.337 1 42.24 ? C12 9CG 300 A 1 HETATM 11 C C13 9CG . . . C 2 -2.016 1.823 24.985 1 42.62 ? C13 9CG 300 A 1 HETATM 12 C C14 9CG . . . C 2 -2.592 2.948 24.369 1 28.96 ? C14 9CG 300 A 1 HETATM 13 O O01 9CG . . . C 2 -1.347 -0.386 24.574 1 55.23 ? O01 9CG 300 A 1 HETATM 14 O O03 9CG . . . C 2 -1.318 0.984 22.832 1 48.64 ? O03 9CG 300 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #