data_5O4Z # _model_server_result.job_id v2mdVT9tw3Oj0io0WNeL0A _model_server_result.datetime_utc '2025-09-17 18:20:19' _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 5o4z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5O4Z # _exptl.entry_id 5O4Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-MONOPHOSPHATE" _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 5O4Z _cell.length_a 71.67 _cell.length_b 87.83 _cell.length_c 122.43 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5O4Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N 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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -61.215 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id A _chem_comp.mon_nstd_flag y _chem_comp.name "ADENOSINE-5'-MONOPHOSPHATE" _chem_comp.type 'rna linking' _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 OP3 P A sing 1 n n OP3 HOP3 A sing 2 n n P OP1 A doub 3 n n P OP2 A sing 4 n n P O5' A sing 5 n n OP2 HOP2 A sing 6 n n O5' C5' A sing 7 n n C5' C4' A sing 8 n n C5' H5' A sing 9 n n C5' "H5''" A sing 10 n n C4' O4' A sing 11 n n C4' C3' A sing 12 n n C4' H4' A sing 13 n n O4' C1' A sing 14 n n C3' O3' A sing 15 n n C3' C2' A sing 16 n n C3' H3' A sing 17 n n O3' HO3' A sing 18 n n C2' O2' A sing 19 n n C2' C1' A sing 20 n n C2' H2' A sing 21 n n O2' HO2' A sing 22 n n C1' N9 A sing 23 n n C1' H1' A sing 24 n n N9 C8 A sing 25 n y N9 C4 A sing 26 n y C8 N7 A doub 27 n y C8 H8 A sing 28 n n N7 C5 A sing 29 n y C5 C6 A sing 30 n y C5 C4 A doub 31 n y C6 N6 A sing 32 n n C6 N1 A doub 33 n y N6 H61 A sing 34 n n N6 H62 A sing 35 n n N1 C2 A sing 36 n y C2 N3 A doub 37 n y C2 H2 A sing 38 n n N3 C4 A sing 39 n y # _atom_sites.entry_id 5O4Z _atom_sites.fract_transf_matrix[1][1] 0.013953 _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] 0.011386 _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] 0.008168 _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 A A 1 401 1 A A . C 2 A A 1 402 2 A A . D 3 SO4 A 1 403 2 SO4 SO4 . E 3 SO4 A 1 404 5 SO4 SO4 . F 3 SO4 A 1 405 6 SO4 SO4 . G 3 SO4 A 1 406 7 SO4 SO4 . H 3 SO4 A 1 407 8 SO4 SO4 . I 3 SO4 A 1 408 9 SO4 SO4 . J 4 GOL A 1 409 2 GOL GOL . K 4 GOL A 1 410 3 GOL GOL . L 5 CL A 1 411 1 CL CL . M 5 CL A 1 412 2 CL CL . N 6 HOH A 1 501 5 HOH HOH . N 6 HOH A 2 502 26 HOH HOH . N 6 HOH A 3 503 207 HOH HOH . N 6 HOH A 4 504 274 HOH HOH . N 6 HOH A 5 505 46 HOH HOH . N 6 HOH A 6 506 190 HOH HOH . N 6 HOH A 7 507 148 HOH HOH . N 6 HOH A 8 508 96 HOH HOH . N 6 HOH A 9 509 210 HOH HOH . N 6 HOH A 10 510 263 HOH HOH . N 6 HOH A 11 511 80 HOH HOH . N 6 HOH A 12 512 40 HOH HOH . N 6 HOH A 13 513 57 HOH HOH . N 6 HOH A 14 514 131 HOH HOH . N 6 HOH A 15 515 35 HOH HOH . N 6 HOH A 16 516 133 HOH HOH . N 6 HOH A 17 517 101 HOH HOH . N 6 HOH A 18 518 261 HOH HOH . N 6 HOH A 19 519 166 HOH HOH . N 6 HOH A 20 520 180 HOH HOH . N 6 HOH A 21 521 47 HOH HOH . N 6 HOH A 22 522 61 HOH HOH . N 6 HOH A 23 523 56 HOH HOH . N 6 HOH A 24 524 54 HOH HOH . N 6 HOH A 25 525 73 HOH HOH . N 6 HOH A 26 526 129 HOH HOH . N 6 HOH A 27 527 69 HOH HOH . N 6 HOH A 28 528 66 HOH HOH . N 6 HOH A 29 529 7 HOH HOH . N 6 HOH A 30 530 154 HOH HOH . N 6 HOH A 31 531 76 HOH HOH . N 6 HOH A 32 532 152 HOH HOH . N 6 HOH A 33 533 95 HOH HOH . N 6 HOH A 34 534 182 HOH HOH . N 6 HOH A 35 535 164 HOH HOH . N 6 HOH A 36 536 17 HOH HOH . N 6 HOH A 37 537 278 HOH HOH . N 6 HOH A 38 538 115 HOH HOH . N 6 HOH A 39 539 134 HOH HOH . N 6 HOH A 40 540 70 HOH HOH . N 6 HOH A 41 541 248 HOH HOH . N 6 HOH A 42 542 127 HOH HOH . N 6 HOH A 43 543 109 HOH HOH . N 6 HOH A 44 544 75 HOH HOH . N 6 HOH A 45 545 18 HOH HOH . N 6 HOH A 46 546 88 HOH HOH . N 6 HOH A 47 547 242 HOH HOH . N 6 HOH A 48 548 121 HOH HOH . N 6 HOH A 49 549 2 HOH HOH . N 6 HOH A 50 550 83 HOH HOH . N 6 HOH A 51 551 39 HOH HOH . N 6 HOH A 52 552 116 HOH HOH . N 6 HOH A 53 553 123 HOH HOH . N 6 HOH A 54 554 198 HOH HOH . N 6 HOH A 55 555 147 HOH HOH . N 6 HOH A 56 556 253 HOH HOH . N 6 HOH A 57 557 13 HOH HOH . N 6 HOH A 58 558 3 HOH HOH . N 6 HOH A 59 559 181 HOH HOH . N 6 HOH A 60 560 37 HOH HOH . N 6 HOH A 61 561 141 HOH HOH . N 6 HOH A 62 562 64 HOH HOH . N 6 HOH A 63 563 27 HOH HOH . N 6 HOH A 64 564 173 HOH HOH . N 6 HOH A 65 565 1 HOH HOH . N 6 HOH A 66 566 92 HOH HOH . N 6 HOH A 67 567 155 HOH HOH . N 6 HOH A 68 568 97 HOH HOH . N 6 HOH A 69 569 100 HOH HOH . N 6 HOH A 70 570 42 HOH HOH . N 6 HOH A 71 571 84 HOH HOH . N 6 HOH A 72 572 19 HOH HOH . N 6 HOH A 73 573 82 HOH HOH . N 6 HOH A 74 574 102 HOH HOH . N 6 HOH A 75 575 130 HOH HOH . N 6 HOH A 76 576 112 HOH HOH . N 6 HOH A 77 577 254 HOH HOH . N 6 HOH A 78 578 85 HOH HOH . N 6 HOH A 79 579 74 HOH HOH . N 6 HOH A 80 580 22 HOH HOH . N 6 HOH A 81 581 90 HOH HOH . N 6 HOH A 82 582 45 HOH HOH . N 6 HOH A 83 583 279 HOH HOH . N 6 HOH A 84 584 15 HOH HOH . N 6 HOH A 85 585 119 HOH HOH . N 6 HOH A 86 586 87 HOH HOH . N 6 HOH A 87 587 4 HOH HOH . N 6 HOH A 88 588 213 HOH HOH . N 6 HOH A 89 589 60 HOH HOH . N 6 HOH A 90 590 62 HOH HOH . N 6 HOH A 91 591 14 HOH HOH . N 6 HOH A 92 592 44 HOH HOH . N 6 HOH A 93 593 110 HOH HOH . N 6 HOH A 94 594 104 HOH HOH . N 6 HOH A 95 595 20 HOH HOH . N 6 HOH A 96 596 16 HOH HOH . N 6 HOH A 97 597 33 HOH HOH . N 6 HOH A 98 598 105 HOH HOH . N 6 HOH A 99 599 21 HOH HOH . N 6 HOH A 100 600 9 HOH HOH . N 6 HOH A 101 601 12 HOH HOH . N 6 HOH A 102 602 29 HOH HOH . N 6 HOH A 103 603 25 HOH HOH . N 6 HOH A 104 604 8 HOH HOH . N 6 HOH A 105 605 6 HOH HOH . N 6 HOH A 106 606 41 HOH HOH . N 6 HOH A 107 607 107 HOH HOH . N 6 HOH A 108 608 31 HOH HOH . N 6 HOH A 109 609 255 HOH HOH . N 6 HOH A 110 610 126 HOH HOH . N 6 HOH A 111 611 91 HOH HOH . N 6 HOH A 112 612 36 HOH HOH . N 6 HOH A 113 613 262 HOH HOH . N 6 HOH A 114 614 86 HOH HOH . N 6 HOH A 115 615 118 HOH HOH . N 6 HOH A 116 616 168 HOH HOH . N 6 HOH A 117 617 257 HOH HOH . N 6 HOH A 118 618 199 HOH HOH . N 6 HOH A 119 619 34 HOH HOH . N 6 HOH A 120 620 113 HOH HOH . N 6 HOH A 121 621 93 HOH HOH . N 6 HOH A 122 622 32 HOH HOH . N 6 HOH A 123 623 10 HOH HOH . N 6 HOH A 124 624 144 HOH HOH . N 6 HOH A 125 625 246 HOH HOH . N 6 HOH A 126 626 81 HOH HOH . N 6 HOH A 127 627 49 HOH HOH . N 6 HOH A 128 628 11 HOH HOH . N 6 HOH A 129 629 23 HOH HOH . N 6 HOH A 130 630 114 HOH HOH . N 6 HOH A 131 631 128 HOH HOH . N 6 HOH A 132 632 89 HOH HOH . N 6 HOH A 133 633 165 HOH HOH . N 6 HOH A 134 634 68 HOH HOH . N 6 HOH A 135 635 138 HOH HOH . N 6 HOH A 136 636 72 HOH HOH . N 6 HOH A 137 637 117 HOH HOH . N 6 HOH A 138 638 77 HOH HOH . N 6 HOH A 139 639 50 HOH HOH . N 6 HOH A 140 640 175 HOH HOH . N 6 HOH A 141 641 269 HOH HOH . N 6 HOH A 142 642 184 HOH HOH . N 6 HOH A 143 643 48 HOH HOH . N 6 HOH A 144 644 176 HOH HOH . N 6 HOH A 145 645 94 HOH HOH . N 6 HOH A 146 646 71 HOH HOH . N 6 HOH A 147 647 67 HOH HOH . N 6 HOH A 148 648 103 HOH HOH . N 6 HOH A 149 649 204 HOH HOH . N 6 HOH A 150 650 140 HOH HOH . N 6 HOH A 151 651 30 HOH HOH . N 6 HOH A 152 652 217 HOH HOH . N 6 HOH A 153 653 63 HOH HOH . N 6 HOH A 154 654 65 HOH HOH . N 6 HOH A 155 655 193 HOH HOH . N 6 HOH A 156 656 120 HOH HOH . N 6 HOH A 157 657 55 HOH HOH . N 6 HOH A 158 658 209 HOH HOH . N 6 HOH A 159 659 186 HOH HOH . N 6 HOH A 160 660 142 HOH HOH . N 6 HOH A 161 661 151 HOH HOH . N 6 HOH A 162 662 202 HOH HOH . N 6 HOH A 163 663 43 HOH HOH . N 6 HOH A 164 664 161 HOH HOH . N 6 HOH A 165 665 51 HOH HOH . N 6 HOH A 166 666 79 HOH HOH . N 6 HOH A 167 667 146 HOH HOH . N 6 HOH A 168 668 275 HOH HOH . N 6 HOH A 169 669 78 HOH HOH . N 6 HOH A 170 670 177 HOH HOH . N 6 HOH A 171 671 28 HOH HOH . N 6 HOH A 172 672 38 HOH HOH . N 6 HOH A 173 673 192 HOH HOH . N 6 HOH A 174 674 187 HOH HOH . N 6 HOH A 175 675 220 HOH HOH . N 6 HOH A 176 676 225 HOH HOH . N 6 HOH A 177 677 150 HOH HOH . N 6 HOH A 178 678 244 HOH HOH . N 6 HOH A 179 679 167 HOH HOH . N 6 HOH A 180 680 197 HOH HOH . N 6 HOH A 181 681 258 HOH HOH . N 6 HOH A 182 682 188 HOH HOH . N 6 HOH A 183 683 136 HOH HOH . N 6 HOH A 184 684 239 HOH HOH . N 6 HOH A 185 685 277 HOH HOH . N 6 HOH A 186 686 216 HOH HOH . N 6 HOH A 187 687 267 HOH HOH . N 6 HOH A 188 688 265 HOH HOH . N 6 HOH A 189 689 243 HOH HOH . N 6 HOH A 190 690 139 HOH HOH . N 6 HOH A 191 691 211 HOH HOH . N 6 HOH A 192 692 276 HOH HOH . N 6 HOH A 193 693 280 HOH HOH . N 6 HOH A 194 694 203 HOH HOH . N 6 HOH A 195 695 222 HOH HOH . N 6 HOH A 196 696 59 HOH HOH . N 6 HOH A 197 697 212 HOH HOH . N 6 HOH A 198 698 159 HOH HOH . N 6 HOH A 199 699 132 HOH HOH . N 6 HOH A 200 700 250 HOH HOH . N 6 HOH A 201 701 201 HOH HOH . N 6 HOH A 202 702 235 HOH HOH . N 6 HOH A 203 703 149 HOH HOH . N 6 HOH A 204 704 171 HOH HOH . N 6 HOH A 205 705 24 HOH HOH . N 6 HOH A 206 706 215 HOH HOH . N 6 HOH A 207 707 125 HOH HOH . N 6 HOH A 208 708 185 HOH HOH . N 6 HOH A 209 709 124 HOH HOH . N 6 HOH A 210 710 98 HOH HOH . N 6 HOH A 211 711 226 HOH HOH . N 6 HOH A 212 712 268 HOH HOH . N 6 HOH A 213 713 111 HOH HOH . N 6 HOH A 214 714 208 HOH HOH . N 6 HOH A 215 715 108 HOH HOH . N 6 HOH A 216 716 174 HOH HOH . N 6 HOH A 217 717 231 HOH HOH . N 6 HOH A 218 718 260 HOH HOH . N 6 HOH A 219 719 145 HOH HOH . N 6 HOH A 220 720 219 HOH HOH . N 6 HOH A 221 721 223 HOH HOH . N 6 HOH A 222 722 241 HOH HOH . N 6 HOH A 223 723 247 HOH HOH . N 6 HOH A 224 724 281 HOH HOH . N 6 HOH A 225 725 122 HOH HOH . N 6 HOH A 226 726 233 HOH HOH . N 6 HOH A 227 727 252 HOH HOH . N 6 HOH A 228 728 228 HOH HOH . N 6 HOH A 229 729 214 HOH HOH . N 6 HOH A 230 730 229 HOH HOH . N 6 HOH A 231 731 172 HOH HOH . N 6 HOH A 232 732 205 HOH HOH . N 6 HOH A 233 733 170 HOH HOH . N 6 HOH A 234 734 99 HOH HOH . N 6 HOH A 235 735 162 HOH HOH . N 6 HOH A 236 736 106 HOH HOH . N 6 HOH A 237 737 249 HOH HOH . N 6 HOH A 238 738 232 HOH HOH . N 6 HOH A 239 739 245 HOH HOH . N 6 HOH A 240 740 58 HOH HOH . N 6 HOH A 241 741 194 HOH HOH . N 6 HOH A 242 742 158 HOH HOH . N 6 HOH A 243 743 234 HOH HOH . N 6 HOH A 244 744 272 HOH HOH . N 6 HOH A 245 745 179 HOH HOH . N 6 HOH A 246 746 200 HOH HOH . N 6 HOH A 247 747 227 HOH HOH . N 6 HOH A 248 748 273 HOH HOH . N 6 HOH A 249 749 196 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 OP3 A . . . B 2 0.532 -4.98 -15.159 1 39.77 ? OP3 A 401 A 1 HETATM 2 P P A . . . B 2 1.271 -4.496 -13.973 1 39.61 ? P A 401 A 1 HETATM 3 O OP1 A . . . B 2 2.458 -3.723 -14.433 1 39.53 ? OP1 A 401 A 1 HETATM 4 O OP2 A . . . B 2 0.305 -3.801 -13.087 1 39.61 ? OP2 A 401 A 1 HETATM 5 O O5' A . . . B 2 1.818 -5.759 -13.178 1 39.69 ? O5' A 401 A 1 HETATM 6 C C5' A . . . B 2 2.786 -6.633 -13.747 1 39.81 ? C5' A 401 A 1 HETATM 7 C C4' A . . . B 2 2.84 -7.939 -12.994 1 40.03 ? C4' A 401 A 1 HETATM 8 O O4' A . . . B 2 3.309 -7.662 -11.645 1 40.02 ? O4' A 401 A 1 HETATM 9 C C3' A . . . B 2 1.487 -8.639 -12.86 1 40.2 ? C3' A 401 A 1 HETATM 10 O O3' A . . . B 2 1.61 -10.056 -13.006 1 40.54 ? O3' A 401 A 1 HETATM 11 C C2' A . . . B 2 1.016 -8.26 -11.453 1 40.17 ? C2' A 401 A 1 HETATM 12 O O2' A . . . B 2 0.203 -9.233 -10.826 1 40.48 ? O2' A 401 A 1 HETATM 13 C C1' A . . . B 2 2.329 -8.031 -10.689 1 40.12 ? C1' A 401 A 1 HETATM 14 N N9 A . . . B 2 2.216 -6.922 -9.731 1 39.96 ? N9 A 401 A 1 HETATM 15 C C8 A . . . B 2 1.87 -5.631 -10.056 1 39.73 ? C8 A 401 A 1 HETATM 16 N N7 A . . . B 2 1.809 -4.805 -9.034 1 39.69 ? N7 A 401 A 1 HETATM 17 C C5 A . . . B 2 2.139 -5.606 -7.959 1 39.89 ? C5 A 401 A 1 HETATM 18 C C6 A . . . B 2 2.245 -5.308 -6.589 1 40.8 ? C6 A 401 A 1 HETATM 19 N N6 A . . . B 2 2.021 -4.084 -6.098 1 39.9 ? N6 A 401 A 1 HETATM 20 N N1 A . . . B 2 2.586 -6.312 -5.758 1 40.29 ? N1 A 401 A 1 HETATM 21 C C2 A . . . B 2 2.802 -7.526 -6.277 1 41.34 ? C2 A 401 A 1 HETATM 22 N N3 A . . . B 2 2.73 -7.932 -7.545 1 40.39 ? N3 A 401 A 1 HETATM 23 C C4 A . . . B 2 2.389 -6.912 -8.358 1 40.07 ? C4 A 401 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #