data_9ICM # _model_server_result.job_id iMzNbb-fxO3JeqF7VOmdiA _model_server_result.datetime_utc '2024-10-18 14:34:48' _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 9icm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":342}' # _entry.id 9ICM # _exptl.entry_id 9ICM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 9ICM _cell.length_a 178.698 _cell.length_b 57.867 _cell.length_c 48.556 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9ICM _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 ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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 ? 4 D N N ? 4 E N 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 B OP1 DG 6 P DG 6 1_555 D NA NA . A NA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc2 C O LEU 62 A LEU 62 3_547 E NA NA . A NA 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc3 C O THR 101 A THR 101 1_555 D NA NA . A NA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc4 C O VAL 103 A VAL 103 1_555 D NA NA . A NA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc5 C O ILE 106 A ILE 106 1_555 D NA NA . A NA 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? hydrog WATSON-CRICK hydrog1 A N3 DC 1 T DC 2 1_555 B N1 DG 6 P DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 T DC 2 1_555 B O6 DG 6 P DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 T DC 2 1_555 B N2 DG 6 P DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DA 2 T DA 3 1_555 B N3 DT 5 P DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N6 DA 2 T DA 3 1_555 B O4 DT 5 P DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N3 DT 3 T DT 4 1_555 B N1 DA 4 P DA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A O4 DT 3 T DT 4 1_555 B N6 DA 4 P DA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N3 DC 4 T DC 5 1_555 B N1 DG 3 P DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N4 DC 4 T DC 5 1_555 B O6 DG 3 P DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O2 DC 4 T DC 5 1_555 B N2 DG 3 P DG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DT 5 T DT 6 1_555 B N1 DA 2 P DA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O4 DT 5 T DT 6 1_555 B N6 DA 2 P DA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DG 6 T DG 7 1_555 B N3 DC 1 P DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 DG 6 T DG 7 1_555 B O2 DC 1 P DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 DG 6 T DG 7 1_555 B N4 DC 1 P DC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 9ICM _atom_sites.fract_transf_matrix[1][1] 0.005596 _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] 0.017281 _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] 0.020595 _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 D 4 NA A 1 341 341 NA NA . E 4 NA A 1 342 342 NA NA . F 5 HOH T 1 517 517 HOH HOH . F 5 HOH T 2 525 525 HOH HOH . F 5 HOH T 3 526 526 HOH HOH . F 5 HOH T 4 527 527 HOH HOH . F 5 HOH T 5 537 537 HOH HOH . F 5 HOH T 6 546 546 HOH HOH . F 5 HOH T 7 547 547 HOH HOH . F 5 HOH T 8 564 564 HOH HOH . F 5 HOH T 9 573 573 HOH HOH . F 5 HOH T 10 585 585 HOH HOH . F 5 HOH T 11 594 594 HOH HOH . F 5 HOH T 12 596 596 HOH HOH . F 5 HOH T 13 617 617 HOH HOH . F 5 HOH T 14 634 634 HOH HOH . F 5 HOH T 15 655 655 HOH HOH . F 5 HOH T 16 663 663 HOH HOH . F 5 HOH T 17 664 664 HOH HOH . F 5 HOH T 18 665 665 HOH HOH . G 5 HOH P 1 510 510 HOH HOH . G 5 HOH P 2 511 511 HOH HOH . G 5 HOH P 3 524 524 HOH HOH . G 5 HOH P 4 540 540 HOH HOH . G 5 HOH P 5 567 567 HOH HOH . G 5 HOH P 6 568 568 HOH HOH . G 5 HOH P 7 570 570 HOH HOH . G 5 HOH P 8 571 571 HOH HOH . G 5 HOH P 9 572 572 HOH HOH . G 5 HOH P 10 595 595 HOH HOH . G 5 HOH P 11 598 598 HOH HOH . G 5 HOH P 12 599 599 HOH HOH . G 5 HOH P 13 612 612 HOH HOH . G 5 HOH P 14 613 613 HOH HOH . G 5 HOH P 15 614 614 HOH HOH . G 5 HOH P 16 615 615 HOH HOH . G 5 HOH P 17 635 635 HOH HOH . G 5 HOH P 18 648 648 HOH HOH . H 5 HOH A 1 501 501 HOH HOH . H 5 HOH A 2 502 502 HOH HOH . H 5 HOH A 3 503 503 HOH HOH . H 5 HOH A 4 505 505 HOH HOH . H 5 HOH A 5 506 506 HOH HOH . H 5 HOH A 6 507 507 HOH HOH . H 5 HOH A 7 508 508 HOH HOH . H 5 HOH A 8 509 509 HOH HOH . H 5 HOH A 9 512 512 HOH HOH . H 5 HOH A 10 513 513 HOH HOH . H 5 HOH A 11 514 514 HOH HOH . H 5 HOH A 12 515 515 HOH HOH . H 5 HOH A 13 516 516 HOH HOH . H 5 HOH A 14 518 518 HOH HOH . H 5 HOH A 15 519 519 HOH HOH . H 5 HOH A 16 520 520 HOH HOH . H 5 HOH A 17 521 521 HOH HOH . H 5 HOH A 18 523 523 HOH HOH . H 5 HOH A 19 528 528 HOH HOH . H 5 HOH A 20 529 529 HOH HOH . H 5 HOH A 21 530 530 HOH HOH . H 5 HOH A 22 531 531 HOH HOH . H 5 HOH A 23 532 532 HOH HOH . H 5 HOH A 24 533 533 HOH HOH . H 5 HOH A 25 534 534 HOH HOH . H 5 HOH A 26 535 535 HOH HOH . H 5 HOH A 27 536 536 HOH HOH . H 5 HOH A 28 538 538 HOH HOH . H 5 HOH A 29 539 539 HOH HOH . H 5 HOH A 30 541 541 HOH HOH . H 5 HOH A 31 542 542 HOH HOH . H 5 HOH A 32 543 543 HOH HOH . H 5 HOH A 33 544 544 HOH HOH . H 5 HOH A 34 545 545 HOH HOH . H 5 HOH A 35 548 548 HOH HOH . H 5 HOH A 36 549 549 HOH HOH . H 5 HOH A 37 550 550 HOH HOH . H 5 HOH A 38 551 551 HOH HOH . H 5 HOH A 39 552 552 HOH HOH . H 5 HOH A 40 553 553 HOH HOH . H 5 HOH A 41 554 554 HOH HOH . H 5 HOH A 42 555 555 HOH HOH . H 5 HOH A 43 556 556 HOH HOH . H 5 HOH A 44 557 557 HOH HOH . H 5 HOH A 45 558 558 HOH HOH . H 5 HOH A 46 560 560 HOH HOH . H 5 HOH A 47 561 561 HOH HOH . H 5 HOH A 48 562 562 HOH HOH . H 5 HOH A 49 563 563 HOH HOH . H 5 HOH A 50 565 565 HOH HOH . H 5 HOH A 51 566 566 HOH HOH . H 5 HOH A 52 575 575 HOH HOH . H 5 HOH A 53 576 576 HOH HOH . H 5 HOH A 54 577 577 HOH HOH . H 5 HOH A 55 578 578 HOH HOH . H 5 HOH A 56 579 579 HOH HOH . H 5 HOH A 57 580 580 HOH HOH . H 5 HOH A 58 581 581 HOH HOH . H 5 HOH A 59 582 582 HOH HOH . H 5 HOH A 60 583 583 HOH HOH . H 5 HOH A 61 584 584 HOH HOH . H 5 HOH A 62 587 587 HOH HOH . H 5 HOH A 63 589 589 HOH HOH . H 5 HOH A 64 590 590 HOH HOH . H 5 HOH A 65 591 591 HOH HOH . H 5 HOH A 66 592 592 HOH HOH . H 5 HOH A 67 593 593 HOH HOH . H 5 HOH A 68 597 597 HOH HOH . H 5 HOH A 69 600 600 HOH HOH . H 5 HOH A 70 601 601 HOH HOH . H 5 HOH A 71 603 603 HOH HOH . H 5 HOH A 72 604 604 HOH HOH . H 5 HOH A 73 606 606 HOH HOH . H 5 HOH A 74 607 607 HOH HOH . H 5 HOH A 75 608 608 HOH HOH . H 5 HOH A 76 610 610 HOH HOH . H 5 HOH A 77 611 611 HOH HOH . H 5 HOH A 78 616 616 HOH HOH . H 5 HOH A 79 618 618 HOH HOH . H 5 HOH A 80 620 620 HOH HOH . H 5 HOH A 81 621 621 HOH HOH . H 5 HOH A 82 622 622 HOH HOH . H 5 HOH A 83 623 623 HOH HOH . H 5 HOH A 84 624 624 HOH HOH . H 5 HOH A 85 625 625 HOH HOH . H 5 HOH A 86 626 626 HOH HOH . H 5 HOH A 87 627 627 HOH HOH . H 5 HOH A 88 628 628 HOH HOH . H 5 HOH A 89 629 629 HOH HOH . H 5 HOH A 90 630 630 HOH HOH . H 5 HOH A 91 631 631 HOH HOH . H 5 HOH A 92 637 637 HOH HOH . H 5 HOH A 93 638 638 HOH HOH . H 5 HOH A 94 639 639 HOH HOH . H 5 HOH A 95 640 640 HOH HOH . H 5 HOH A 96 641 641 HOH HOH . H 5 HOH A 97 642 642 HOH HOH . H 5 HOH A 98 643 643 HOH HOH . H 5 HOH A 99 644 644 HOH HOH . H 5 HOH A 100 645 645 HOH HOH . H 5 HOH A 101 646 646 HOH HOH . H 5 HOH A 102 647 647 HOH HOH . H 5 HOH A 103 649 649 HOH HOH . H 5 HOH A 104 650 650 HOH HOH . H 5 HOH A 105 651 651 HOH HOH . H 5 HOH A 106 652 652 HOH HOH . H 5 HOH A 107 653 653 HOH HOH . H 5 HOH A 108 654 654 HOH HOH . H 5 HOH A 109 656 656 HOH HOH . H 5 HOH A 110 657 657 HOH HOH . H 5 HOH A 111 658 658 HOH HOH . H 5 HOH A 112 659 659 HOH HOH . H 5 HOH A 113 660 660 HOH HOH . H 5 HOH A 114 661 661 HOH HOH . H 5 HOH A 115 662 662 HOH HOH . H 5 HOH A 116 666 666 HOH HOH . H 5 HOH A 117 667 667 HOH HOH . H 5 HOH A 118 668 668 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 4 _atom_site.Cartn_x 41.761 _atom_site.Cartn_y 33.094 _atom_site.Cartn_z 45.599 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 51.04 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 342 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #