data_5DN1 # _model_server_result.job_id NzvedN1dLWtEf-YLiyw8og _model_server_result.datetime_utc '2024-12-25 04:22:34' _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 5dn1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 5DN1 # _exptl.entry_id 5DN1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 338.211 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE' _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 5DN1 _cell.length_a 65.208 _cell.length_b 65.208 _cell.length_c 104.538 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DN1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H15 N4 O8 P' _chem_comp.formula_weight 338.211 _chem_comp.id AMZ _chem_comp.mon_nstd_flag . _chem_comp.name 'AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms AICAR # 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 O5 C6 AMZ doub 13 n n C6 N2 AMZ sing 14 n n C6 C3A AMZ sing 15 n n N2 H11 AMZ sing 16 n n N2 H12 AMZ sing 17 n n C3A C7A AMZ doub 18 n y C3A N1 AMZ sing 19 n y C7A N3 AMZ sing 20 n n C7A N AMZ sing 21 n y N3 H9 AMZ sing 22 n n N3 H10 AMZ sing 23 n n N1 C5 AMZ doub 24 n y C5 N AMZ sing 25 n y C5 H13 AMZ sing 26 n n N C1 AMZ sing 27 n n C1 C2 AMZ sing 28 n n C1 O AMZ sing 29 n n C1 H2 AMZ sing 30 n n C2 C3 AMZ sing 31 n n C2 O1 AMZ sing 32 n n C2 H3 AMZ sing 33 n n C3 O2 AMZ sing 34 n n C3 C AMZ sing 35 n n C3 H4 AMZ sing 36 n n O2 H5 AMZ sing 37 n n O1 H1 AMZ sing 38 n n O C AMZ sing 39 n n C C4 AMZ sing 40 n n C H6 AMZ sing 41 n n C4 O3 AMZ sing 42 n n C4 H7 AMZ sing 43 n n C4 H8 AMZ sing 44 n n O3 P AMZ sing 45 n n P OP1 AMZ sing 46 n n P O4 AMZ sing 47 n n P OP2 AMZ doub 48 n n OP1 H15 AMZ sing 49 n n O4 H14 AMZ sing 50 n n # _atom_sites.entry_id 5DN1 _atom_sites.fract_transf_matrix[1][1] 0.015336 _atom_sites.fract_transf_matrix[1][2] 0.008854 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017708 _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] 0.009566 _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 B 2 SO4 A 1 301 2 SO4 SO4 . C 2 SO4 A 1 302 3 SO4 SO4 . D 3 GOL A 1 303 1 GOL GOL . E 4 AMZ A 1 304 1 AMZ AMZ . F 5 HOH A 1 401 256 HOH HOH . F 5 HOH A 2 402 152 HOH HOH . F 5 HOH A 3 403 239 HOH HOH . F 5 HOH A 4 404 233 HOH HOH . F 5 HOH A 5 405 178 HOH HOH . F 5 HOH A 6 406 192 HOH HOH . F 5 HOH A 7 407 190 HOH HOH . F 5 HOH A 8 408 104 HOH HOH . F 5 HOH A 9 409 247 HOH HOH . F 5 HOH A 10 410 27 HOH HOH . F 5 HOH A 11 411 125 HOH HOH . F 5 HOH A 12 412 157 HOH HOH . F 5 HOH A 13 413 205 HOH HOH . F 5 HOH A 14 414 228 HOH HOH . F 5 HOH A 15 415 187 HOH HOH . F 5 HOH A 16 416 37 HOH HOH . F 5 HOH A 17 417 196 HOH HOH . F 5 HOH A 18 418 171 HOH HOH . F 5 HOH A 19 419 51 HOH HOH . F 5 HOH A 20 420 225 HOH HOH . F 5 HOH A 21 421 188 HOH HOH . F 5 HOH A 22 422 61 HOH HOH . F 5 HOH A 23 423 102 HOH HOH . F 5 HOH A 24 424 59 HOH HOH . F 5 HOH A 25 425 183 HOH HOH . F 5 HOH A 26 426 130 HOH HOH . F 5 HOH A 27 427 149 HOH HOH . F 5 HOH A 28 428 82 HOH HOH . F 5 HOH A 29 429 176 HOH HOH . F 5 HOH A 30 430 17 HOH HOH . F 5 HOH A 31 431 85 HOH HOH . F 5 HOH A 32 432 18 HOH HOH . F 5 HOH A 33 433 115 HOH HOH . F 5 HOH A 34 434 123 HOH HOH . F 5 HOH A 35 435 234 HOH HOH . F 5 HOH A 36 436 21 HOH HOH . F 5 HOH A 37 437 79 HOH HOH . F 5 HOH A 38 438 53 HOH HOH . F 5 HOH A 39 439 142 HOH HOH . F 5 HOH A 40 440 131 HOH HOH . F 5 HOH A 41 441 25 HOH HOH . F 5 HOH A 42 442 168 HOH HOH . F 5 HOH A 43 443 68 HOH HOH . F 5 HOH A 44 444 129 HOH HOH . F 5 HOH A 45 445 29 HOH HOH . F 5 HOH A 46 446 16 HOH HOH . F 5 HOH A 47 447 204 HOH HOH . F 5 HOH A 48 448 105 HOH HOH . F 5 HOH A 49 449 93 HOH HOH . F 5 HOH A 50 450 57 HOH HOH . F 5 HOH A 51 451 35 HOH HOH . F 5 HOH A 52 452 189 HOH HOH . F 5 HOH A 53 453 10 HOH HOH . F 5 HOH A 54 454 139 HOH HOH . F 5 HOH A 55 455 41 HOH HOH . F 5 HOH A 56 456 52 HOH HOH . F 5 HOH A 57 457 208 HOH HOH . F 5 HOH A 58 458 36 HOH HOH . F 5 HOH A 59 459 145 HOH HOH . F 5 HOH A 60 460 110 HOH HOH . F 5 HOH A 61 461 197 HOH HOH . F 5 HOH A 62 462 150 HOH HOH . F 5 HOH A 63 463 117 HOH HOH . F 5 HOH A 64 464 73 HOH HOH . F 5 HOH A 65 465 1 HOH HOH . F 5 HOH A 66 466 23 HOH HOH . F 5 HOH A 67 467 3 HOH HOH . F 5 HOH A 68 468 30 HOH HOH . F 5 HOH A 69 469 11 HOH HOH . F 5 HOH A 70 470 47 HOH HOH . F 5 HOH A 71 471 28 HOH HOH . F 5 HOH A 72 472 84 HOH HOH . F 5 HOH A 73 473 114 HOH HOH . F 5 HOH A 74 474 81 HOH HOH . F 5 HOH A 75 475 235 HOH HOH . F 5 HOH A 76 476 22 HOH HOH . F 5 HOH A 77 477 50 HOH HOH . F 5 HOH A 78 478 55 HOH HOH . F 5 HOH A 79 479 232 HOH HOH . F 5 HOH A 80 480 120 HOH HOH . F 5 HOH A 81 481 8 HOH HOH . F 5 HOH A 82 482 230 HOH HOH . F 5 HOH A 83 483 19 HOH HOH . F 5 HOH A 84 484 163 HOH HOH . F 5 HOH A 85 485 48 HOH HOH . F 5 HOH A 86 486 46 HOH HOH . F 5 HOH A 87 487 90 HOH HOH . F 5 HOH A 88 488 34 HOH HOH . F 5 HOH A 89 489 126 HOH HOH . F 5 HOH A 90 490 147 HOH HOH . F 5 HOH A 91 491 186 HOH HOH . F 5 HOH A 92 492 158 HOH HOH . F 5 HOH A 93 493 148 HOH HOH . F 5 HOH A 94 494 7 HOH HOH . F 5 HOH A 95 495 26 HOH HOH . F 5 HOH A 96 496 43 HOH HOH . F 5 HOH A 97 497 75 HOH HOH . F 5 HOH A 98 498 109 HOH HOH . F 5 HOH A 99 499 113 HOH HOH . F 5 HOH A 100 500 20 HOH HOH . F 5 HOH A 101 501 14 HOH HOH . F 5 HOH A 102 502 100 HOH HOH . F 5 HOH A 103 503 136 HOH HOH . F 5 HOH A 104 504 161 HOH HOH . F 5 HOH A 105 505 6 HOH HOH . F 5 HOH A 106 506 219 HOH HOH . F 5 HOH A 107 507 119 HOH HOH . F 5 HOH A 108 508 86 HOH HOH . F 5 HOH A 109 509 236 HOH HOH . F 5 HOH A 110 510 67 HOH HOH . F 5 HOH A 111 511 96 HOH HOH . F 5 HOH A 112 512 24 HOH HOH . F 5 HOH A 113 513 78 HOH HOH . F 5 HOH A 114 514 4 HOH HOH . F 5 HOH A 115 515 56 HOH HOH . F 5 HOH A 116 516 12 HOH HOH . F 5 HOH A 117 517 164 HOH HOH . F 5 HOH A 118 518 127 HOH HOH . F 5 HOH A 119 519 5 HOH HOH . F 5 HOH A 120 520 42 HOH HOH . F 5 HOH A 121 521 166 HOH HOH . F 5 HOH A 122 522 238 HOH HOH . F 5 HOH A 123 523 101 HOH HOH . F 5 HOH A 124 524 91 HOH HOH . F 5 HOH A 125 525 195 HOH HOH . F 5 HOH A 126 526 31 HOH HOH . F 5 HOH A 127 527 191 HOH HOH . F 5 HOH A 128 528 69 HOH HOH . F 5 HOH A 129 529 45 HOH HOH . F 5 HOH A 130 530 38 HOH HOH . F 5 HOH A 131 531 95 HOH HOH . F 5 HOH A 132 532 40 HOH HOH . F 5 HOH A 133 533 252 HOH HOH . F 5 HOH A 134 534 62 HOH HOH . F 5 HOH A 135 535 184 HOH HOH . F 5 HOH A 136 536 65 HOH HOH . F 5 HOH A 137 537 244 HOH HOH . F 5 HOH A 138 538 143 HOH HOH . F 5 HOH A 139 539 209 HOH HOH . F 5 HOH A 140 540 177 HOH HOH . F 5 HOH A 141 541 154 HOH HOH . F 5 HOH A 142 542 138 HOH HOH . F 5 HOH A 143 543 76 HOH HOH . F 5 HOH A 144 544 141 HOH HOH . F 5 HOH A 145 545 159 HOH HOH . F 5 HOH A 146 546 245 HOH HOH . F 5 HOH A 147 547 251 HOH HOH . F 5 HOH A 148 548 99 HOH HOH . F 5 HOH A 149 549 58 HOH HOH . F 5 HOH A 150 550 9 HOH HOH . F 5 HOH A 151 551 32 HOH HOH . F 5 HOH A 152 552 97 HOH HOH . F 5 HOH A 153 553 137 HOH HOH . F 5 HOH A 154 554 106 HOH HOH . F 5 HOH A 155 555 74 HOH HOH . F 5 HOH A 156 556 193 HOH HOH . F 5 HOH A 157 557 144 HOH HOH . F 5 HOH A 158 558 221 HOH HOH . F 5 HOH A 159 559 70 HOH HOH . F 5 HOH A 160 560 156 HOH HOH . F 5 HOH A 161 561 175 HOH HOH . F 5 HOH A 162 562 15 HOH HOH . F 5 HOH A 163 563 71 HOH HOH . F 5 HOH A 164 564 227 HOH HOH . F 5 HOH A 165 565 162 HOH HOH . F 5 HOH A 166 566 83 HOH HOH . F 5 HOH A 167 567 172 HOH HOH . F 5 HOH A 168 568 181 HOH HOH . F 5 HOH A 169 569 77 HOH HOH . F 5 HOH A 170 570 155 HOH HOH . F 5 HOH A 171 571 218 HOH HOH . F 5 HOH A 172 572 254 HOH HOH . F 5 HOH A 173 573 170 HOH HOH . F 5 HOH A 174 574 250 HOH HOH . F 5 HOH A 175 575 212 HOH HOH . F 5 HOH A 176 576 13 HOH HOH . F 5 HOH A 177 577 253 HOH HOH . F 5 HOH A 178 578 98 HOH HOH . F 5 HOH A 179 579 223 HOH HOH . F 5 HOH A 180 580 122 HOH HOH . F 5 HOH A 181 581 44 HOH HOH . F 5 HOH A 182 582 116 HOH HOH . F 5 HOH A 183 583 80 HOH HOH . F 5 HOH A 184 584 180 HOH HOH . F 5 HOH A 185 585 89 HOH HOH . F 5 HOH A 186 586 72 HOH HOH . F 5 HOH A 187 587 198 HOH HOH . F 5 HOH A 188 588 207 HOH HOH . F 5 HOH A 189 589 255 HOH HOH . F 5 HOH A 190 590 200 HOH HOH . F 5 HOH A 191 591 241 HOH HOH . F 5 HOH A 192 592 179 HOH HOH . F 5 HOH A 193 593 49 HOH HOH . F 5 HOH A 194 594 226 HOH HOH . F 5 HOH A 195 595 92 HOH HOH . F 5 HOH A 196 596 185 HOH HOH . F 5 HOH A 197 597 39 HOH HOH . F 5 HOH A 198 598 146 HOH HOH . F 5 HOH A 199 599 2 HOH HOH . F 5 HOH A 200 600 134 HOH HOH . F 5 HOH A 201 601 33 HOH HOH . F 5 HOH A 202 602 243 HOH HOH . F 5 HOH A 203 603 103 HOH HOH . F 5 HOH A 204 604 160 HOH HOH . F 5 HOH A 205 605 210 HOH HOH . F 5 HOH A 206 606 112 HOH HOH . F 5 HOH A 207 607 108 HOH HOH . F 5 HOH A 208 608 174 HOH HOH . F 5 HOH A 209 609 220 HOH HOH . F 5 HOH A 210 610 135 HOH HOH . F 5 HOH A 211 611 124 HOH HOH . F 5 HOH A 212 612 246 HOH HOH . F 5 HOH A 213 613 63 HOH HOH . F 5 HOH A 214 614 133 HOH HOH . F 5 HOH A 215 615 199 HOH HOH . F 5 HOH A 216 616 94 HOH HOH . F 5 HOH A 217 617 215 HOH HOH . F 5 HOH A 218 618 173 HOH HOH . F 5 HOH A 219 619 153 HOH HOH . F 5 HOH A 220 620 201 HOH HOH . F 5 HOH A 221 621 140 HOH HOH . F 5 HOH A 222 622 229 HOH HOH . F 5 HOH A 223 623 213 HOH HOH . F 5 HOH A 224 624 64 HOH HOH . F 5 HOH A 225 625 202 HOH HOH . F 5 HOH A 226 626 132 HOH HOH . F 5 HOH A 227 627 217 HOH HOH . F 5 HOH A 228 628 60 HOH HOH . F 5 HOH A 229 629 194 HOH HOH . F 5 HOH A 230 630 231 HOH HOH . F 5 HOH A 231 631 128 HOH HOH . F 5 HOH A 232 632 248 HOH HOH . F 5 HOH A 233 633 214 HOH HOH . F 5 HOH A 234 634 107 HOH HOH . F 5 HOH A 235 635 88 HOH HOH . F 5 HOH A 236 636 242 HOH HOH . F 5 HOH A 237 637 121 HOH HOH . F 5 HOH A 238 638 224 HOH HOH . F 5 HOH A 239 639 203 HOH HOH . F 5 HOH A 240 640 182 HOH HOH . F 5 HOH A 241 641 111 HOH HOH . F 5 HOH A 242 642 222 HOH HOH . F 5 HOH A 243 643 118 HOH HOH . F 5 HOH A 244 644 66 HOH HOH . F 5 HOH A 245 645 237 HOH HOH . F 5 HOH A 246 646 206 HOH HOH . F 5 HOH A 247 647 216 HOH HOH . F 5 HOH A 248 648 54 HOH HOH . F 5 HOH A 249 649 249 HOH HOH . F 5 HOH A 250 650 240 HOH HOH . F 5 HOH A 251 651 87 HOH HOH . F 5 HOH A 252 652 211 HOH HOH . F 5 HOH A 253 653 165 HOH HOH . F 5 HOH A 254 654 167 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 O O5 AMZ . . . E 4 8.144 53.75 9.881 1 57.38 ? O5 AMZ 304 A 1 HETATM 2 C C6 AMZ . . . E 4 8.956 52.859 10.084 1 60.21 ? C6 AMZ 304 A 1 HETATM 3 N N2 AMZ . . . E 4 10.241 53.067 10.353 1 59.13 ? N2 AMZ 304 A 1 HETATM 4 C C3A AMZ . . . E 4 8.499 51.456 10.064 1 59.78 ? C3A AMZ 304 A 1 HETATM 5 C C7A AMZ . . . E 4 7.148 51.063 9.664 1 61.89 ? C7A AMZ 304 A 1 HETATM 6 N N3 AMZ . . . E 4 6.166 51.911 9.26 1 55.22 ? N3 AMZ 304 A 1 HETATM 7 N N1 AMZ . . . E 4 9.119 50.302 10.38 1 62.51 ? N1 AMZ 304 A 1 HETATM 8 C C5 AMZ . . . E 4 8.222 49.291 10.189 1 67.47 ? C5 AMZ 304 A 1 HETATM 9 N N AMZ . . . E 4 7.03 49.754 9.751 1 70.59 ? N AMZ 304 A 1 HETATM 10 C C1 AMZ . . . E 4 5.838 48.945 9.454 1 80.69 ? C1 AMZ 304 A 1 HETATM 11 C C2 AMZ . . . E 4 5.975 48.307 8.083 1 89.73 ? C2 AMZ 304 A 1 HETATM 12 C C3 AMZ . . . E 4 5.598 46.859 8.306 1 89.93 ? C3 AMZ 304 A 1 HETATM 13 O O2 AMZ . . . E 4 4.227 46.668 7.947 1 95.71 ? O2 AMZ 304 A 1 HETATM 14 O O1 AMZ . . . E 4 5.087 48.936 7.153 1 94.26 ? O1 AMZ 304 A 1 HETATM 15 O O AMZ . . . E 4 5.83 47.906 10.432 1 78.18 ? O AMZ 304 A 1 HETATM 16 C C AMZ . . . E 4 5.768 46.63 9.802 1 78.1 ? C AMZ 304 A 1 HETATM 17 C C4 AMZ . . . E 4 7.032 45.841 10.107 1 60.64 ? C4 AMZ 304 A 1 HETATM 18 O O3 AMZ . . . E 4 7.205 45.588 11.501 1 37.2 ? O3 AMZ 304 A 1 HETATM 19 P P AMZ . . . E 4 8.139 44.332 11.785 1 25.31 ? P AMZ 304 A 1 HETATM 20 O OP1 AMZ . . . E 4 9.439 44.726 11.15 1 36.36 ? OP1 AMZ 304 A 1 HETATM 21 O O4 AMZ . . . E 4 8.201 44.093 13.262 1 30.16 ? O4 AMZ 304 A 1 HETATM 22 O OP2 AMZ . . . E 4 7.376 43.235 11.08 1 45.22 ? OP2 AMZ 304 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 22 #