data_2QWN # _model_server_result.job_id NJ8Ursv2iP2oYLmXyPTSFQ _model_server_result.datetime_utc '2025-08-30 14:56:00' _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 2qwn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":487}' # _entry.id 2QWN # _exptl.entry_id 2QWN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 6 _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 90 _cell.entry_id 2QWN _cell.length_a 38.627 _cell.length_b 58.262 _cell.length_c 225.929 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2QWN _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,I _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 6 _struct_asym.id G _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 disulf ? disulf1 A SG CYS 171 A CYS 171 1_555 B SG CYS 65 B CYS 876 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc1 A OD2 ASP 10 A ASP 10 1_555 D NA NA . A NA 489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.664 ? metalc ? metalc2 A O TYR 15 A TYR 15 1_555 D NA NA . A NA 489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? metalc ? metalc3 A O THR 204 A THR 204 1_555 E NA NA . A NA 490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? metalc ? metalc4 A OG1 THR 204 A THR 204 1_555 E NA NA . A NA 490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.764 ? metalc ? metalc5 A OD2 ASP 206 A ASP 206 1_555 E NA NA . A NA 490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? metalc ? metalc6 G O3B ADP . A ADP 487 1_555 D NA NA . A NA 489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc7 G O3B ADP . A ADP 487 1_555 F MG MG . A MG 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? metalc ? metalc8 C O4 PO4 . A PO4 488 1_555 E NA NA . A NA 490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc9 C O4 PO4 . A PO4 488 1_555 F MG MG . A MG 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc10 D NA NA . A NA 489 1_555 H O HOH . A HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.558 ? metalc ? metalc11 D NA NA . A NA 489 1_555 H O HOH . A HOH 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc12 D NA NA . A NA 489 1_555 H O HOH . A HOH 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc13 F MG MG . A MG 491 1_555 H O HOH . A HOH 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc14 F MG MG . A MG 491 1_555 H O HOH . A HOH 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc15 F MG MG . A MG 491 1_555 H O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? # _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 ? # 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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2QWN _atom_sites.fract_transf_matrix[1][1] 0.025889 _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] 0.017164 _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] 0.004426 _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 3 PO4 A 1 488 488 PO4 PO4 . D 4 NA A 1 489 489 NA NA . E 4 NA A 1 490 490 NA NA . F 5 MG A 1 491 491 MG MG . G 6 ADP A 1 487 487 ADP ADP . H 7 HOH A 1 492 1 HOH HOH . H 7 HOH A 2 493 2 HOH HOH . H 7 HOH A 3 494 3 HOH HOH . H 7 HOH A 4 495 5 HOH HOH . H 7 HOH A 5 496 7 HOH HOH . H 7 HOH A 6 497 8 HOH HOH . H 7 HOH A 7 498 9 HOH HOH . H 7 HOH A 8 499 10 HOH HOH . H 7 HOH A 9 500 11 HOH HOH . H 7 HOH A 10 501 12 HOH HOH . H 7 HOH A 11 502 13 HOH HOH . H 7 HOH A 12 503 14 HOH HOH . H 7 HOH A 13 504 15 HOH HOH . H 7 HOH A 14 505 16 HOH HOH . H 7 HOH A 15 506 17 HOH HOH . H 7 HOH A 16 507 19 HOH HOH . H 7 HOH A 17 508 20 HOH HOH . H 7 HOH A 18 509 22 HOH HOH . H 7 HOH A 19 510 23 HOH HOH . H 7 HOH A 20 511 24 HOH HOH . H 7 HOH A 21 512 25 HOH HOH . H 7 HOH A 22 513 26 HOH HOH . H 7 HOH A 23 514 27 HOH HOH . H 7 HOH A 24 515 28 HOH HOH . H 7 HOH A 25 516 29 HOH HOH . H 7 HOH A 26 517 30 HOH HOH . H 7 HOH A 27 518 31 HOH HOH . H 7 HOH A 28 519 32 HOH HOH . H 7 HOH A 29 520 34 HOH HOH . H 7 HOH A 30 521 35 HOH HOH . H 7 HOH A 31 522 36 HOH HOH . H 7 HOH A 32 523 39 HOH HOH . H 7 HOH A 33 524 41 HOH HOH . H 7 HOH A 34 525 42 HOH HOH . H 7 HOH A 35 526 43 HOH HOH . H 7 HOH A 36 527 45 HOH HOH . H 7 HOH A 37 528 46 HOH HOH . H 7 HOH A 38 529 47 HOH HOH . H 7 HOH A 39 530 48 HOH HOH . H 7 HOH A 40 531 49 HOH HOH . H 7 HOH A 41 532 50 HOH HOH . H 7 HOH A 42 533 51 HOH HOH . H 7 HOH A 43 534 52 HOH HOH . H 7 HOH A 44 535 53 HOH HOH . H 7 HOH A 45 536 54 HOH HOH . H 7 HOH A 46 537 55 HOH HOH . H 7 HOH A 47 538 56 HOH HOH . H 7 HOH A 48 539 57 HOH HOH . H 7 HOH A 49 540 58 HOH HOH . H 7 HOH A 50 541 59 HOH HOH . H 7 HOH A 51 542 60 HOH HOH . H 7 HOH A 52 543 61 HOH HOH . H 7 HOH A 53 544 62 HOH HOH . H 7 HOH A 54 545 63 HOH HOH . H 7 HOH A 55 546 64 HOH HOH . H 7 HOH A 56 547 66 HOH HOH . H 7 HOH A 57 548 67 HOH HOH . H 7 HOH A 58 549 68 HOH HOH . H 7 HOH A 59 550 69 HOH HOH . H 7 HOH A 60 551 71 HOH HOH . H 7 HOH A 61 552 72 HOH HOH . H 7 HOH A 62 553 73 HOH HOH . H 7 HOH A 63 554 74 HOH HOH . H 7 HOH A 64 555 76 HOH HOH . H 7 HOH A 65 556 77 HOH HOH . H 7 HOH A 66 557 81 HOH HOH . H 7 HOH A 67 558 82 HOH HOH . H 7 HOH A 68 559 83 HOH HOH . H 7 HOH A 69 560 84 HOH HOH . H 7 HOH A 70 561 85 HOH HOH . H 7 HOH A 71 562 86 HOH HOH . H 7 HOH A 72 563 87 HOH HOH . H 7 HOH A 73 564 88 HOH HOH . H 7 HOH A 74 565 89 HOH HOH . H 7 HOH A 75 566 90 HOH HOH . H 7 HOH A 76 567 91 HOH HOH . H 7 HOH A 77 568 92 HOH HOH . H 7 HOH A 78 569 93 HOH HOH . H 7 HOH A 79 570 94 HOH HOH . H 7 HOH A 80 571 95 HOH HOH . H 7 HOH A 81 572 96 HOH HOH . H 7 HOH A 82 573 97 HOH HOH . H 7 HOH A 83 574 98 HOH HOH . H 7 HOH A 84 575 100 HOH HOH . H 7 HOH A 85 576 101 HOH HOH . H 7 HOH A 86 577 104 HOH HOH . H 7 HOH A 87 578 105 HOH HOH . H 7 HOH A 88 579 106 HOH HOH . H 7 HOH A 89 580 107 HOH HOH . H 7 HOH A 90 581 108 HOH HOH . H 7 HOH A 91 582 109 HOH HOH . H 7 HOH A 92 583 110 HOH HOH . H 7 HOH A 93 584 111 HOH HOH . H 7 HOH A 94 585 112 HOH HOH . H 7 HOH A 95 586 113 HOH HOH . H 7 HOH A 96 587 114 HOH HOH . H 7 HOH A 97 588 115 HOH HOH . H 7 HOH A 98 589 116 HOH HOH . H 7 HOH A 99 590 117 HOH HOH . H 7 HOH A 100 591 118 HOH HOH . H 7 HOH A 101 592 119 HOH HOH . H 7 HOH A 102 593 121 HOH HOH . H 7 HOH A 103 594 123 HOH HOH . H 7 HOH A 104 595 124 HOH HOH . H 7 HOH A 105 596 125 HOH HOH . H 7 HOH A 106 597 126 HOH HOH . H 7 HOH A 107 598 127 HOH HOH . H 7 HOH A 108 599 128 HOH HOH . H 7 HOH A 109 600 129 HOH HOH . H 7 HOH A 110 601 130 HOH HOH . H 7 HOH A 111 602 131 HOH HOH . H 7 HOH A 112 603 132 HOH HOH . H 7 HOH A 113 604 133 HOH HOH . H 7 HOH A 114 605 134 HOH HOH . H 7 HOH A 115 606 135 HOH HOH . H 7 HOH A 116 607 136 HOH HOH . H 7 HOH A 117 608 138 HOH HOH . H 7 HOH A 118 609 139 HOH HOH . H 7 HOH A 119 610 140 HOH HOH . I 7 HOH B 1 4 4 HOH HOH . I 7 HOH B 2 6 6 HOH HOH . I 7 HOH B 3 18 18 HOH HOH . I 7 HOH B 4 21 21 HOH HOH . I 7 HOH B 5 33 33 HOH HOH . I 7 HOH B 6 37 37 HOH HOH . I 7 HOH B 7 38 38 HOH HOH . I 7 HOH B 8 40 40 HOH HOH . I 7 HOH B 9 44 44 HOH HOH . I 7 HOH B 10 65 65 HOH HOH . I 7 HOH B 11 70 70 HOH HOH . I 7 HOH B 12 75 75 HOH HOH . I 7 HOH B 13 78 78 HOH HOH . I 7 HOH B 14 79 79 HOH HOH . I 7 HOH B 15 80 80 HOH HOH . I 7 HOH B 16 99 99 HOH HOH . I 7 HOH B 17 102 102 HOH HOH . I 7 HOH B 18 103 103 HOH HOH . I 7 HOH B 19 120 120 HOH HOH . I 7 HOH B 20 122 122 HOH HOH . I 7 HOH B 21 137 137 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 . . . G 6 -14.052 -2.208 23.19 1 40.9 ? PB ADP 487 A 1 HETATM 2 O O1B ADP . . . G 6 -14.044 -3.592 23.819 1 38.47 ? O1B ADP 487 A 1 HETATM 3 O O2B ADP . . . G 6 -14.585 -2.228 21.793 1 39.99 ? O2B ADP 487 A 1 HETATM 4 O O3B ADP . . . G 6 -14.642 -1.096 24.023 1 36.29 ? O3B ADP 487 A 1 HETATM 5 P PA ADP . . . G 6 -11.632 -0.613 22.603 1 42.47 ? PA ADP 487 A 1 HETATM 6 O O1A ADP . . . G 6 -12.49 0.643 22.694 1 40.66 ? O1A ADP 487 A 1 HETATM 7 O O2A ADP . . . G 6 -10.287 -0.738 23.292 1 42.65 ? O2A ADP 487 A 1 HETATM 8 O O3A ADP . . . G 6 -12.449 -1.927 23.085 1 42.05 ? O3A ADP 487 A 1 HETATM 9 O O5' ADP . . . G 6 -11.357 -0.853 21.05 1 41 ? O5' ADP 487 A 1 HETATM 10 C C5' ADP . . . G 6 -10.741 -2.041 20.584 1 41.13 ? C5' ADP 487 A 1 HETATM 11 C C4' ADP . . . G 6 -10.648 -1.893 19.071 1 40.7 ? C4' ADP 487 A 1 HETATM 12 O O4' ADP . . . G 6 -9.969 -0.681 18.749 1 39.46 ? O4' ADP 487 A 1 HETATM 13 C C3' ADP . . . G 6 -9.863 -3.023 18.411 1 40.3 ? C3' ADP 487 A 1 HETATM 14 O O3' ADP . . . G 6 -10.437 -3.294 17.121 1 40.01 ? O3' ADP 487 A 1 HETATM 15 C C2' ADP . . . G 6 -8.503 -2.426 18.183 1 38.45 ? C2' ADP 487 A 1 HETATM 16 O O2' ADP . . . G 6 -7.858 -3.073 17.087 1 39.12 ? O2' ADP 487 A 1 HETATM 17 C C1' ADP . . . G 6 -8.897 -1.003 17.845 1 39.33 ? C1' ADP 487 A 1 HETATM 18 N N9 ADP . . . G 6 -7.745 -0.08 17.951 1 38.83 ? N9 ADP 487 A 1 HETATM 19 C C8 ADP . . . G 6 -7.006 0.184 19.05 1 39.27 ? C8 ADP 487 A 1 HETATM 20 N N7 ADP . . . G 6 -6.027 1.083 18.77 1 39.99 ? N7 ADP 487 A 1 HETATM 21 C C5 ADP . . . G 6 -6.147 1.407 17.465 1 39.56 ? C5 ADP 487 A 1 HETATM 22 C C6 ADP . . . G 6 -5.451 2.288 16.5 1 39.5 ? C6 ADP 487 A 1 HETATM 23 N N6 ADP . . . G 6 -4.395 3.038 16.864 1 39.27 ? N6 ADP 487 A 1 HETATM 24 N N1 ADP . . . G 6 -5.904 2.329 15.229 1 40.34 ? N1 ADP 487 A 1 HETATM 25 C C2 ADP . . . G 6 -6.953 1.588 14.814 1 40.5 ? C2 ADP 487 A 1 HETATM 26 N N3 ADP . . . G 6 -7.625 0.759 15.627 1 41.62 ? N3 ADP 487 A 1 HETATM 27 C C4 ADP . . . G 6 -7.283 0.636 16.939 1 39.6 ? C4 ADP 487 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 386 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #