data_5OS4 # _model_server_result.job_id yL4OR492vXP-_Kiyjyu6Hw _model_server_result.datetime_utc '2024-11-06 22:42:28' _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 5os4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5OS4 # _exptl.entry_id 5OS4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 5OS4 _cell.length_a 81.52 _cell.length_b 81.52 _cell.length_c 174.02 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OS4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _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,G _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OD1 ASN 135 A ASN 261 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc2 A OD2 ASP 148 A ASP 274 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? covale ? covale1 A C THR 161 A THR 287 1_555 A N TPO 162 A TPO 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C TPO 162 A TPO 288 1_555 A N LEU 163 A LEU 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc3 B O1B ADP . A ADP 401 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc4 B O3B ADP . A ADP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc5 B O2A ADP . A ADP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc6 C MG MG . A MG 402 1_555 G O HOH . A HOH 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc7 C MG MG . A MG 402 1_555 G O HOH . A HOH 591 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc8 D MG MG . A MG 403 1_555 G O HOH . A HOH 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc9 D MG MG . A MG 403 1_555 G O HOH . A HOH 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc10 D MG MG . A MG 403 1_555 G O HOH . A HOH 583 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc11 D MG MG . A MG 403 1_555 G O HOH . A HOH 625 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc12 D MG MG . A MG 403 1_555 G O HOH . A HOH 587 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5OS4 _atom_sites.fract_transf_matrix[1][1] 0.012267 _atom_sites.fract_transf_matrix[1][2] 0.007082 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014165 _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] 0.005746 _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 ADP A 1 401 1392 ADP ADP . C 3 MG A 1 402 1395 MG MG . D 3 MG A 1 403 1396 MG MG . E 4 A8H A 1 404 1 A8H FRG . F 5 SO4 A 1 405 1 SO4 SO4 . G 6 HOH A 1 501 76 HOH HOH . G 6 HOH A 2 502 83 HOH HOH . G 6 HOH A 3 503 72 HOH HOH . G 6 HOH A 4 504 49 HOH HOH . G 6 HOH A 5 505 41 HOH HOH . G 6 HOH A 6 506 133 HOH HOH . G 6 HOH A 7 507 82 HOH HOH . G 6 HOH A 8 508 67 HOH HOH . G 6 HOH A 9 509 86 HOH HOH . G 6 HOH A 10 510 116 HOH HOH . G 6 HOH A 11 511 60 HOH HOH . G 6 HOH A 12 512 74 HOH HOH . G 6 HOH A 13 513 61 HOH HOH . G 6 HOH A 14 514 106 HOH HOH . G 6 HOH A 15 515 65 HOH HOH . G 6 HOH A 16 516 25 HOH HOH . G 6 HOH A 17 517 31 HOH HOH . G 6 HOH A 18 518 80 HOH HOH . G 6 HOH A 19 519 34 HOH HOH . G 6 HOH A 20 520 18 HOH HOH . G 6 HOH A 21 521 32 HOH HOH . G 6 HOH A 22 522 68 HOH HOH . G 6 HOH A 23 523 53 HOH HOH . G 6 HOH A 24 524 24 HOH HOH . G 6 HOH A 25 525 90 HOH HOH . G 6 HOH A 26 526 16 HOH HOH . G 6 HOH A 27 527 10 HOH HOH . G 6 HOH A 28 528 35 HOH HOH . G 6 HOH A 29 529 20 HOH HOH . G 6 HOH A 30 530 81 HOH HOH . G 6 HOH A 31 531 6 HOH HOH . G 6 HOH A 32 532 37 HOH HOH . G 6 HOH A 33 533 66 HOH HOH . G 6 HOH A 34 534 124 HOH HOH . G 6 HOH A 35 535 40 HOH HOH . G 6 HOH A 36 536 23 HOH HOH . G 6 HOH A 37 537 2 HOH HOH . G 6 HOH A 38 538 54 HOH HOH . G 6 HOH A 39 539 123 HOH HOH . G 6 HOH A 40 540 63 HOH HOH . G 6 HOH A 41 541 94 HOH HOH . G 6 HOH A 42 542 26 HOH HOH . G 6 HOH A 43 543 22 HOH HOH . G 6 HOH A 44 544 69 HOH HOH . G 6 HOH A 45 545 131 HOH HOH . G 6 HOH A 46 546 36 HOH HOH . G 6 HOH A 47 547 12 HOH HOH . G 6 HOH A 48 548 47 HOH HOH . G 6 HOH A 49 549 1 HOH HOH . G 6 HOH A 50 550 78 HOH HOH . G 6 HOH A 51 551 125 HOH HOH . G 6 HOH A 52 552 5 HOH HOH . G 6 HOH A 53 553 14 HOH HOH . G 6 HOH A 54 554 51 HOH HOH . G 6 HOH A 55 555 27 HOH HOH . G 6 HOH A 56 556 44 HOH HOH . G 6 HOH A 57 557 15 HOH HOH . G 6 HOH A 58 558 79 HOH HOH . G 6 HOH A 59 559 85 HOH HOH . G 6 HOH A 60 560 95 HOH HOH . G 6 HOH A 61 561 93 HOH HOH . G 6 HOH A 62 562 138 HOH HOH . G 6 HOH A 63 563 126 HOH HOH . G 6 HOH A 64 564 102 HOH HOH . G 6 HOH A 65 565 104 HOH HOH . G 6 HOH A 66 566 7 HOH HOH . G 6 HOH A 67 567 120 HOH HOH . G 6 HOH A 68 568 38 HOH HOH . G 6 HOH A 69 569 107 HOH HOH . G 6 HOH A 70 570 59 HOH HOH . G 6 HOH A 71 571 75 HOH HOH . G 6 HOH A 72 572 42 HOH HOH . G 6 HOH A 73 573 21 HOH HOH . G 6 HOH A 74 574 19 HOH HOH . G 6 HOH A 75 575 8 HOH HOH . G 6 HOH A 76 576 64 HOH HOH . G 6 HOH A 77 577 71 HOH HOH . G 6 HOH A 78 578 110 HOH HOH . G 6 HOH A 79 579 11 HOH HOH . G 6 HOH A 80 580 39 HOH HOH . G 6 HOH A 81 581 33 HOH HOH . G 6 HOH A 82 582 28 HOH HOH . G 6 HOH A 83 583 137 HOH HOH . G 6 HOH A 84 584 127 HOH HOH . G 6 HOH A 85 585 87 HOH HOH . G 6 HOH A 86 586 13 HOH HOH . G 6 HOH A 87 587 70 HOH HOH . G 6 HOH A 88 588 17 HOH HOH . G 6 HOH A 89 589 128 HOH HOH . G 6 HOH A 90 590 3 HOH HOH . G 6 HOH A 91 591 29 HOH HOH . G 6 HOH A 92 592 105 HOH HOH . G 6 HOH A 93 593 50 HOH HOH . G 6 HOH A 94 594 100 HOH HOH . G 6 HOH A 95 595 112 HOH HOH . G 6 HOH A 96 596 30 HOH HOH . G 6 HOH A 97 597 57 HOH HOH . G 6 HOH A 98 598 62 HOH HOH . G 6 HOH A 99 599 9 HOH HOH . G 6 HOH A 100 600 73 HOH HOH . G 6 HOH A 101 601 4 HOH HOH . G 6 HOH A 102 602 97 HOH HOH . G 6 HOH A 103 603 130 HOH HOH . G 6 HOH A 104 604 109 HOH HOH . G 6 HOH A 105 605 119 HOH HOH . G 6 HOH A 106 606 45 HOH HOH . G 6 HOH A 107 607 46 HOH HOH . G 6 HOH A 108 608 55 HOH HOH . G 6 HOH A 109 609 118 HOH HOH . G 6 HOH A 110 610 88 HOH HOH . G 6 HOH A 111 611 103 HOH HOH . G 6 HOH A 112 612 140 HOH HOH . G 6 HOH A 113 613 58 HOH HOH . G 6 HOH A 114 614 136 HOH HOH . G 6 HOH A 115 615 48 HOH HOH . G 6 HOH A 116 616 121 HOH HOH . G 6 HOH A 117 617 99 HOH HOH . G 6 HOH A 118 618 84 HOH HOH . G 6 HOH A 119 619 91 HOH HOH . G 6 HOH A 120 620 111 HOH HOH . G 6 HOH A 121 621 132 HOH HOH . G 6 HOH A 122 622 43 HOH HOH . G 6 HOH A 123 623 113 HOH HOH . G 6 HOH A 124 624 122 HOH HOH . G 6 HOH A 125 625 135 HOH HOH . G 6 HOH A 126 626 96 HOH HOH . G 6 HOH A 127 627 101 HOH HOH . G 6 HOH A 128 628 89 HOH HOH . G 6 HOH A 129 629 108 HOH HOH . G 6 HOH A 130 630 52 HOH HOH . G 6 HOH A 131 631 139 HOH HOH . G 6 HOH A 132 632 98 HOH HOH . G 6 HOH A 133 633 115 HOH HOH . G 6 HOH A 134 634 141 HOH HOH . G 6 HOH A 135 635 77 HOH HOH . G 6 HOH A 136 636 134 HOH HOH . G 6 HOH A 137 637 129 HOH HOH . G 6 HOH A 138 638 92 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 P PB ADP . . . B 2 -12.091 24.019 -5.87 1 31.55 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . B 2 -12.755 23.586 -7.154 1 34.47 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . B 2 -11.541 22.831 -5.129 1 37.28 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . B 2 -12.895 25.02 -5.06 1 32.56 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . B 2 -10.668 26.284 -7.007 1 29.15 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . B 2 -10.41 26.271 -8.496 1 32.41 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . B 2 -11.713 27.212 -6.448 1 29.72 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . B 2 -10.753 24.81 -6.356 1 31.12 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . B 2 -9.275 26.808 -6.374 1 28.95 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . B 2 -9.032 26.696 -4.952 1 30.29 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . B 2 -8.275 27.913 -4.398 1 31.97 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . B 2 -6.966 28.052 -4.97 1 29.57 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . B 2 -8.964 29.235 -4.685 1 30.03 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . B 2 -9.974 29.514 -3.703 1 30.24 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . B 2 -7.803 30.221 -4.654 1 30.86 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . B 2 -7.407 30.485 -3.29 1 31.74 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . B 2 -6.67 29.428 -5.258 1 26.4 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . B 2 -6.636 29.603 -6.732 1 27.48 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . B 2 -7.34 28.865 -7.622 1 25.84 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . B 2 -7.079 29.248 -8.9 1 27.18 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . B 2 -6.184 30.252 -8.823 1 27.56 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . B 2 -5.48 31.085 -9.808 1 32.05 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . B 2 -5.736 30.904 -11.133 1 27.3 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . B 2 -4.621 32.03 -9.333 1 25.53 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . B 2 -4.391 32.204 -8.012 1 28.44 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . B 2 -4.989 31.46 -7.058 1 27.52 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . B 2 -5.887 30.484 -7.402 1 29.06 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 27 #