data_4YMI # _model_server_result.job_id LsZpFF8RgzO101ZrwFP0GQ _model_server_result.datetime_utc '2024-11-14 09:43:22' _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 4ymi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 4YMI # _exptl.entry_id 4YMI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 135.127 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENINE _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 4YMI _cell.length_a 63.29 _cell.length_b 115.24 _cell.length_c 56.76 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YMI _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N N # _chem_comp.formula 'C5 H5 N5' _chem_comp.formula_weight 135.127 _chem_comp.id ADE _chem_comp.mon_nstd_flag . _chem_comp.name ADENINE _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 N9 C8 ADE sing 1 n y N9 C4 ADE sing 2 n y N9 HN9 ADE sing 3 n n C8 N7 ADE doub 4 n y C8 H8 ADE sing 5 n n N7 C5 ADE sing 6 n y C5 C6 ADE sing 7 n y C5 C4 ADE doub 8 n y C6 N6 ADE sing 9 n n C6 N1 ADE doub 10 n y N6 HN61 ADE sing 11 n n N6 HN62 ADE sing 12 n n N1 C2 ADE sing 13 n y C2 N3 ADE doub 14 n y C2 H2 ADE sing 15 n n N3 C4 ADE sing 16 n y # _atom_sites.entry_id 4YMI _atom_sites.fract_transf_matrix[1][1] 0.0158 _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] 0.008678 _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] 0.017618 _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 NAP A 1 301 300 NAP NAP . D 3 ADE A 1 302 301 ADE ADE . E 3 ADE A 1 303 301 ADE ADE . F 2 NAP B 1 300 300 NAP NAP . G 4 HOH A 1 401 203 HOH HOH . G 4 HOH A 2 402 254 HOH HOH . G 4 HOH A 3 403 388 HOH HOH . G 4 HOH A 4 404 376 HOH HOH . G 4 HOH A 5 405 327 HOH HOH . G 4 HOH A 6 406 126 HOH HOH . G 4 HOH A 7 407 36 HOH HOH . G 4 HOH A 8 408 61 HOH HOH . G 4 HOH A 9 409 259 HOH HOH . G 4 HOH A 10 410 166 HOH HOH . G 4 HOH A 11 411 201 HOH HOH . G 4 HOH A 12 412 230 HOH HOH . G 4 HOH A 13 413 31 HOH HOH . G 4 HOH A 14 414 148 HOH HOH . G 4 HOH A 15 415 390 HOH HOH . G 4 HOH A 16 416 158 HOH HOH . G 4 HOH A 17 417 55 HOH HOH . G 4 HOH A 18 418 272 HOH HOH . G 4 HOH A 19 419 389 HOH HOH . G 4 HOH A 20 420 387 HOH HOH . G 4 HOH A 21 421 359 HOH HOH . G 4 HOH A 22 422 75 HOH HOH . G 4 HOH A 23 423 346 HOH HOH . G 4 HOH A 24 424 361 HOH HOH . G 4 HOH A 25 425 38 HOH HOH . G 4 HOH A 26 426 238 HOH HOH . G 4 HOH A 27 427 93 HOH HOH . G 4 HOH A 28 428 133 HOH HOH . G 4 HOH A 29 429 4 HOH HOH . G 4 HOH A 30 430 181 HOH HOH . G 4 HOH A 31 431 29 HOH HOH . G 4 HOH A 32 432 84 HOH HOH . G 4 HOH A 33 433 59 HOH HOH . G 4 HOH A 34 434 72 HOH HOH . G 4 HOH A 35 435 73 HOH HOH . G 4 HOH A 36 436 318 HOH HOH . G 4 HOH A 37 437 67 HOH HOH . G 4 HOH A 38 438 292 HOH HOH . G 4 HOH A 39 439 218 HOH HOH . G 4 HOH A 40 440 8 HOH HOH . G 4 HOH A 41 441 375 HOH HOH . G 4 HOH A 42 442 149 HOH HOH . G 4 HOH A 43 443 213 HOH HOH . G 4 HOH A 44 444 99 HOH HOH . G 4 HOH A 45 445 49 HOH HOH . G 4 HOH A 46 446 88 HOH HOH . G 4 HOH A 47 447 2 HOH HOH . G 4 HOH A 48 448 253 HOH HOH . G 4 HOH A 49 449 169 HOH HOH . G 4 HOH A 50 450 125 HOH HOH . G 4 HOH A 51 451 82 HOH HOH . G 4 HOH A 52 452 151 HOH HOH . G 4 HOH A 53 453 50 HOH HOH . G 4 HOH A 54 454 9 HOH HOH . G 4 HOH A 55 455 5 HOH HOH . G 4 HOH A 56 456 152 HOH HOH . G 4 HOH A 57 457 107 HOH HOH . G 4 HOH A 58 458 211 HOH HOH . G 4 HOH A 59 459 186 HOH HOH . G 4 HOH A 60 460 46 HOH HOH . G 4 HOH A 61 461 165 HOH HOH . G 4 HOH A 62 462 102 HOH HOH . G 4 HOH A 63 463 7 HOH HOH . G 4 HOH A 64 464 140 HOH HOH . G 4 HOH A 65 465 139 HOH HOH . G 4 HOH A 66 466 42 HOH HOH . G 4 HOH A 67 467 23 HOH HOH . G 4 HOH A 68 468 96 HOH HOH . G 4 HOH A 69 469 116 HOH HOH . G 4 HOH A 70 470 25 HOH HOH . G 4 HOH A 71 471 111 HOH HOH . G 4 HOH A 72 472 10 HOH HOH . G 4 HOH A 73 473 19 HOH HOH . G 4 HOH A 74 474 70 HOH HOH . G 4 HOH A 75 475 51 HOH HOH . G 4 HOH A 76 476 175 HOH HOH . G 4 HOH A 77 477 48 HOH HOH . G 4 HOH A 78 478 85 HOH HOH . G 4 HOH A 79 479 263 HOH HOH . G 4 HOH A 80 480 167 HOH HOH . G 4 HOH A 81 481 145 HOH HOH . G 4 HOH A 82 482 81 HOH HOH . G 4 HOH A 83 483 13 HOH HOH . G 4 HOH A 84 484 56 HOH HOH . G 4 HOH A 85 485 104 HOH HOH . G 4 HOH A 86 486 150 HOH HOH . G 4 HOH A 87 487 246 HOH HOH . G 4 HOH A 88 488 235 HOH HOH . G 4 HOH A 89 489 122 HOH HOH . G 4 HOH A 90 490 37 HOH HOH . G 4 HOH A 91 491 280 HOH HOH . G 4 HOH A 92 492 57 HOH HOH . G 4 HOH A 93 493 251 HOH HOH . G 4 HOH A 94 494 17 HOH HOH . G 4 HOH A 95 495 269 HOH HOH . G 4 HOH A 96 496 225 HOH HOH . G 4 HOH A 97 497 345 HOH HOH . G 4 HOH A 98 498 118 HOH HOH . G 4 HOH A 99 499 178 HOH HOH . G 4 HOH A 100 500 71 HOH HOH . G 4 HOH A 101 501 39 HOH HOH . G 4 HOH A 102 502 154 HOH HOH . G 4 HOH A 103 503 105 HOH HOH . G 4 HOH A 104 504 68 HOH HOH . G 4 HOH A 105 505 377 HOH HOH . G 4 HOH A 106 506 60 HOH HOH . G 4 HOH A 107 507 183 HOH HOH . G 4 HOH A 108 508 396 HOH HOH . G 4 HOH A 109 509 197 HOH HOH . G 4 HOH A 110 510 267 HOH HOH . G 4 HOH A 111 511 380 HOH HOH . G 4 HOH A 112 512 231 HOH HOH . G 4 HOH A 113 513 30 HOH HOH . G 4 HOH A 114 514 330 HOH HOH . G 4 HOH A 115 515 308 HOH HOH . G 4 HOH A 116 516 34 HOH HOH . G 4 HOH A 117 517 115 HOH HOH . G 4 HOH A 118 518 349 HOH HOH . G 4 HOH A 119 519 120 HOH HOH . G 4 HOH A 120 520 392 HOH HOH . G 4 HOH A 121 521 284 HOH HOH . G 4 HOH A 122 522 127 HOH HOH . G 4 HOH A 123 523 378 HOH HOH . G 4 HOH A 124 524 204 HOH HOH . G 4 HOH A 125 525 379 HOH HOH . G 4 HOH A 126 526 281 HOH HOH . G 4 HOH A 127 527 164 HOH HOH . G 4 HOH A 128 528 97 HOH HOH . G 4 HOH A 129 529 312 HOH HOH . G 4 HOH A 130 530 290 HOH HOH . G 4 HOH A 131 531 176 HOH HOH . G 4 HOH A 132 532 196 HOH HOH . G 4 HOH A 133 533 339 HOH HOH . G 4 HOH A 134 534 293 HOH HOH . G 4 HOH A 135 535 287 HOH HOH . G 4 HOH A 136 536 288 HOH HOH . G 4 HOH A 137 537 285 HOH HOH . G 4 HOH A 138 538 243 HOH HOH . G 4 HOH A 139 539 373 HOH HOH . G 4 HOH A 140 540 386 HOH HOH . G 4 HOH A 141 541 132 HOH HOH . G 4 HOH A 142 542 90 HOH HOH . G 4 HOH A 143 543 374 HOH HOH . G 4 HOH A 144 544 205 HOH HOH . G 4 HOH A 145 545 207 HOH HOH . G 4 HOH A 146 546 52 HOH HOH . G 4 HOH A 147 547 324 HOH HOH . G 4 HOH A 148 548 192 HOH HOH . G 4 HOH A 149 549 333 HOH HOH . G 4 HOH A 150 550 275 HOH HOH . H 4 HOH B 1 401 160 HOH HOH . H 4 HOH B 2 402 214 HOH HOH . H 4 HOH B 3 403 338 HOH HOH . H 4 HOH B 4 404 153 HOH HOH . H 4 HOH B 5 405 393 HOH HOH . H 4 HOH B 6 406 191 HOH HOH . H 4 HOH B 7 407 240 HOH HOH . H 4 HOH B 8 408 241 HOH HOH . H 4 HOH B 9 409 44 HOH HOH . H 4 HOH B 10 410 144 HOH HOH . H 4 HOH B 11 411 277 HOH HOH . H 4 HOH B 12 412 117 HOH HOH . H 4 HOH B 13 413 112 HOH HOH . H 4 HOH B 14 414 18 HOH HOH . H 4 HOH B 15 415 262 HOH HOH . H 4 HOH B 16 416 394 HOH HOH . H 4 HOH B 17 417 14 HOH HOH . H 4 HOH B 18 418 180 HOH HOH . H 4 HOH B 19 419 28 HOH HOH . H 4 HOH B 20 420 78 HOH HOH . H 4 HOH B 21 421 274 HOH HOH . H 4 HOH B 22 422 217 HOH HOH . H 4 HOH B 23 423 297 HOH HOH . H 4 HOH B 24 424 341 HOH HOH . H 4 HOH B 25 425 395 HOH HOH . H 4 HOH B 26 426 291 HOH HOH . H 4 HOH B 27 427 41 HOH HOH . H 4 HOH B 28 428 136 HOH HOH . H 4 HOH B 29 429 142 HOH HOH . H 4 HOH B 30 430 155 HOH HOH . H 4 HOH B 31 431 6 HOH HOH . H 4 HOH B 32 432 215 HOH HOH . H 4 HOH B 33 433 227 HOH HOH . H 4 HOH B 34 434 1 HOH HOH . H 4 HOH B 35 435 294 HOH HOH . H 4 HOH B 36 436 79 HOH HOH . H 4 HOH B 37 437 137 HOH HOH . H 4 HOH B 38 438 222 HOH HOH . H 4 HOH B 39 439 296 HOH HOH . H 4 HOH B 40 440 98 HOH HOH . H 4 HOH B 41 441 354 HOH HOH . H 4 HOH B 42 442 236 HOH HOH . H 4 HOH B 43 443 171 HOH HOH . H 4 HOH B 44 444 226 HOH HOH . H 4 HOH B 45 445 22 HOH HOH . H 4 HOH B 46 446 229 HOH HOH . H 4 HOH B 47 447 87 HOH HOH . H 4 HOH B 48 448 63 HOH HOH . H 4 HOH B 49 449 32 HOH HOH . H 4 HOH B 50 450 103 HOH HOH . H 4 HOH B 51 451 74 HOH HOH . H 4 HOH B 52 452 147 HOH HOH . H 4 HOH B 53 453 248 HOH HOH . H 4 HOH B 54 454 11 HOH HOH . H 4 HOH B 55 455 69 HOH HOH . H 4 HOH B 56 456 369 HOH HOH . H 4 HOH B 57 457 141 HOH HOH . H 4 HOH B 58 458 15 HOH HOH . H 4 HOH B 59 459 177 HOH HOH . H 4 HOH B 60 460 190 HOH HOH . H 4 HOH B 61 461 21 HOH HOH . H 4 HOH B 62 462 173 HOH HOH . H 4 HOH B 63 463 276 HOH HOH . H 4 HOH B 64 464 43 HOH HOH . H 4 HOH B 65 465 357 HOH HOH . H 4 HOH B 66 466 249 HOH HOH . H 4 HOH B 67 467 33 HOH HOH . H 4 HOH B 68 468 239 HOH HOH . H 4 HOH B 69 469 138 HOH HOH . H 4 HOH B 70 470 3 HOH HOH . H 4 HOH B 71 471 189 HOH HOH . H 4 HOH B 72 472 157 HOH HOH . H 4 HOH B 73 473 114 HOH HOH . H 4 HOH B 74 474 382 HOH HOH . H 4 HOH B 75 475 193 HOH HOH . H 4 HOH B 76 476 20 HOH HOH . H 4 HOH B 77 477 27 HOH HOH . H 4 HOH B 78 478 35 HOH HOH . H 4 HOH B 79 479 66 HOH HOH . H 4 HOH B 80 480 223 HOH HOH . H 4 HOH B 81 481 80 HOH HOH . H 4 HOH B 82 482 129 HOH HOH . H 4 HOH B 83 483 16 HOH HOH . H 4 HOH B 84 484 77 HOH HOH . H 4 HOH B 85 485 110 HOH HOH . H 4 HOH B 86 486 172 HOH HOH . H 4 HOH B 87 487 161 HOH HOH . H 4 HOH B 88 488 58 HOH HOH . H 4 HOH B 89 489 92 HOH HOH . H 4 HOH B 90 490 53 HOH HOH . H 4 HOH B 91 491 233 HOH HOH . H 4 HOH B 92 492 65 HOH HOH . H 4 HOH B 93 493 83 HOH HOH . H 4 HOH B 94 494 168 HOH HOH . H 4 HOH B 95 495 109 HOH HOH . H 4 HOH B 96 496 62 HOH HOH . H 4 HOH B 97 497 364 HOH HOH . H 4 HOH B 98 498 206 HOH HOH . H 4 HOH B 99 499 24 HOH HOH . H 4 HOH B 100 500 162 HOH HOH . H 4 HOH B 101 501 12 HOH HOH . H 4 HOH B 102 502 47 HOH HOH . H 4 HOH B 103 503 45 HOH HOH . H 4 HOH B 104 504 106 HOH HOH . H 4 HOH B 105 505 391 HOH HOH . H 4 HOH B 106 506 347 HOH HOH . H 4 HOH B 107 507 128 HOH HOH . H 4 HOH B 108 508 121 HOH HOH . H 4 HOH B 109 509 146 HOH HOH . H 4 HOH B 110 510 195 HOH HOH . H 4 HOH B 111 511 26 HOH HOH . H 4 HOH B 112 512 182 HOH HOH . H 4 HOH B 113 513 64 HOH HOH . H 4 HOH B 114 514 130 HOH HOH . H 4 HOH B 115 515 370 HOH HOH . H 4 HOH B 116 516 356 HOH HOH . H 4 HOH B 117 517 199 HOH HOH . H 4 HOH B 118 518 234 HOH HOH . H 4 HOH B 119 519 101 HOH HOH . H 4 HOH B 120 520 108 HOH HOH . H 4 HOH B 121 521 337 HOH HOH . H 4 HOH B 122 522 54 HOH HOH . H 4 HOH B 123 523 237 HOH HOH . H 4 HOH B 124 524 134 HOH HOH . H 4 HOH B 125 525 266 HOH HOH . H 4 HOH B 126 526 286 HOH HOH . H 4 HOH B 127 527 260 HOH HOH . H 4 HOH B 128 528 187 HOH HOH . H 4 HOH B 129 529 174 HOH HOH . H 4 HOH B 130 530 94 HOH HOH . H 4 HOH B 131 531 216 HOH HOH . H 4 HOH B 132 532 265 HOH HOH . H 4 HOH B 133 533 219 HOH HOH . H 4 HOH B 134 534 352 HOH HOH . H 4 HOH B 135 535 100 HOH HOH . H 4 HOH B 136 536 224 HOH HOH . H 4 HOH B 137 537 113 HOH HOH . H 4 HOH B 138 538 159 HOH HOH . H 4 HOH B 139 539 306 HOH HOH . H 4 HOH B 140 540 156 HOH HOH . H 4 HOH B 141 541 323 HOH HOH . H 4 HOH B 142 542 321 HOH HOH . H 4 HOH B 143 543 76 HOH HOH . H 4 HOH B 144 544 283 HOH HOH . H 4 HOH B 145 545 184 HOH HOH . H 4 HOH B 146 546 332 HOH HOH . H 4 HOH B 147 547 208 HOH HOH . H 4 HOH B 148 548 89 HOH HOH . H 4 HOH B 149 549 188 HOH HOH . H 4 HOH B 150 550 86 HOH HOH . H 4 HOH B 151 551 228 HOH HOH . H 4 HOH B 152 552 135 HOH HOH . H 4 HOH B 153 553 143 HOH HOH . H 4 HOH B 154 554 271 HOH HOH . H 4 HOH B 155 555 268 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 N N9 ADE . . . E 3 1.434 3.579 5.847 1 29.09 ? N9 ADE 303 A 1 HETATM 2 C C8 ADE . . . E 3 1.516 4.824 6.418 1 22.28 ? C8 ADE 303 A 1 HETATM 3 N N7 ADE . . . E 3 1.536 5.806 5.544 1 31.37 ? N7 ADE 303 A 1 HETATM 4 C C5 ADE . . . E 3 1.455 5.163 4.315 1 37.02 ? C5 ADE 303 A 1 HETATM 5 C C6 ADE . . . E 3 1.425 5.645 2.988 1 46.69 ? C6 ADE 303 A 1 HETATM 6 N N6 ADE . . . E 3 1.484 6.947 2.674 1 49.02 ? N6 ADE 303 A 1 HETATM 7 N N1 ADE . . . E 3 1.333 4.734 1.992 1 45.71 ? N1 ADE 303 A 1 HETATM 8 C C2 ADE . . . E 3 1.275 3.432 2.309 1 51.56 ? C2 ADE 303 A 1 HETATM 9 N N3 ADE . . . E 3 1.295 2.86 3.516 1 50.52 ? N3 ADE 303 A 1 HETATM 10 C C4 ADE . . . E 3 1.387 3.789 4.485 1 38.6 ? C4 ADE 303 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 10 #