data_5DO9 # _model_server_result.job_id jAIgeLlBpbMnKmcxDsOlKg _model_server_result.datetime_utc '2024-11-01 07:22:23' _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 5do9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":403}' # _entry.id 5DO9 # _exptl.entry_id 5DO9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.31 _cell.angle_gamma 90 _cell.entry_id 5DO9 _cell.length_a 173.946 _cell.length_b 95.881 _cell.length_c 112.898 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DO9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 PISA dimeric 2 software_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 PISA dimeric 2 software_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,P,Q 1 1 C,D,J,K,L,R,S 2 1 E,F,M,N,O,T,U 3 1 A,G,H,I,P 4 1 D,S 4 3 C,J,K,L,R 5 1 B,Q 5 2 E,M,N,O,T 6 1 F,U 6 4 # 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' 1_545 x,y-1,z 1 0 0 0 1 0 0 0 1 0 -95.881 0 3 'crystal symmetry operation' 3_455 x-1/2,y+1/2,z 1 0 0 0 1 0 0 0 1 -86.973 47.9405 0 4 'crystal symmetry operation' 4_555 -x+1/2,y+1/2,-z -1 0 0 0 1 0 0 0 -1 86.973 47.9405 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 I N N ? 5 L N N ? 5 O 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 A OG SER 17 A SER 53 1_555 I MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc2 A OG1 THR 150 A THR 186 1_555 I MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? metalc ? metalc3 G O2B GDP . A GDP 401 1_555 I MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc4 I MG MG . A MG 403 1_555 P O HOH . A HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc5 I MG MG . A MG 403 1_555 P O HOH . A HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc6 C OG SER 17 C SER 53 1_555 L MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc7 C OG1 THR 150 C THR 186 1_555 L MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc8 J O2B GDP . C GDP 401 1_555 L MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc9 L MG MG . C MG 403 1_555 R O HOH . C HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.774 ? metalc ? metalc10 L MG MG . C MG 403 1_555 R O HOH . C HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc11 E OG SER 17 E SER 53 1_555 O MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc12 E OG1 THR 150 E THR 186 1_555 O MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc13 M O2B GDP . E GDP 401 1_555 O MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc14 O MG MG . E MG 403 1_555 T O HOH . E HOH 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc15 O MG MG . E MG 403 1_555 T O HOH . E HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5DO9 _atom_sites.fract_transf_matrix[1][1] 0.005749 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000433 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01043 _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] 0.008883 _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 G 3 GDP A 1 401 401 GDP GDP . H 4 ALF A 1 402 402 ALF ALF . I 5 MG A 1 403 407 MG MG . J 3 GDP C 1 401 401 GDP GDP . K 4 ALF C 1 402 402 ALF ALF . L 5 MG C 1 403 407 MG MG . M 3 GDP E 1 401 401 GDP GDP . N 4 ALF E 1 402 402 ALF ALF . O 5 MG E 1 403 407 MG MG . P 6 HOH A 1 501 510 HOH HOH . P 6 HOH A 2 502 704 HOH HOH . P 6 HOH A 3 503 897 HOH HOH . P 6 HOH A 4 504 770 HOH HOH . P 6 HOH A 5 505 903 HOH HOH . P 6 HOH A 6 506 549 HOH HOH . P 6 HOH A 7 507 619 HOH HOH . P 6 HOH A 8 508 573 HOH HOH . P 6 HOH A 9 509 436 HOH HOH . P 6 HOH A 10 510 667 HOH HOH . P 6 HOH A 11 511 629 HOH HOH . P 6 HOH A 12 512 438 HOH HOH . P 6 HOH A 13 513 552 HOH HOH . P 6 HOH A 14 514 876 HOH HOH . P 6 HOH A 15 515 882 HOH HOH . P 6 HOH A 16 516 922 HOH HOH . P 6 HOH A 17 517 594 HOH HOH . P 6 HOH A 18 518 904 HOH HOH . P 6 HOH A 19 519 554 HOH HOH . P 6 HOH A 20 520 852 HOH HOH . P 6 HOH A 21 521 749 HOH HOH . P 6 HOH A 22 522 924 HOH HOH . P 6 HOH A 23 523 665 HOH HOH . P 6 HOH A 24 524 886 HOH HOH . P 6 HOH A 25 525 437 HOH HOH . P 6 HOH A 26 526 883 HOH HOH . P 6 HOH A 27 527 760 HOH HOH . P 6 HOH A 28 528 581 HOH HOH . P 6 HOH A 29 529 711 HOH HOH . P 6 HOH A 30 530 751 HOH HOH . P 6 HOH A 31 531 568 HOH HOH . P 6 HOH A 32 532 755 HOH HOH . P 6 HOH A 33 533 851 HOH HOH . P 6 HOH A 34 534 532 HOH HOH . P 6 HOH A 35 535 504 HOH HOH . P 6 HOH A 36 536 767 HOH HOH . P 6 HOH A 37 537 503 HOH HOH . P 6 HOH A 38 538 856 HOH HOH . P 6 HOH A 39 539 898 HOH HOH . P 6 HOH A 40 540 772 HOH HOH . P 6 HOH A 41 541 541 HOH HOH . P 6 HOH A 42 542 750 HOH HOH . P 6 HOH A 43 543 855 HOH HOH . P 6 HOH A 44 544 761 HOH HOH . P 6 HOH A 45 545 509 HOH HOH . P 6 HOH A 46 546 746 HOH HOH . P 6 HOH A 47 547 505 HOH HOH . P 6 HOH A 48 548 922 HOH HOH . P 6 HOH A 49 549 765 HOH HOH . P 6 HOH A 50 550 877 HOH HOH . P 6 HOH A 51 551 920 HOH HOH . P 6 HOH A 52 552 888 HOH HOH . P 6 HOH A 53 553 753 HOH HOH . P 6 HOH A 54 554 854 HOH HOH . P 6 HOH A 55 555 739 HOH HOH . P 6 HOH A 56 556 511 HOH HOH . P 6 HOH A 57 557 754 HOH HOH . P 6 HOH A 58 558 745 HOH HOH . P 6 HOH A 59 559 747 HOH HOH . P 6 HOH A 60 560 892 HOH HOH . P 6 HOH A 61 561 905 HOH HOH . P 6 HOH A 62 562 744 HOH HOH . P 6 HOH A 63 563 598 HOH HOH . P 6 HOH A 64 564 606 HOH HOH . P 6 HOH A 65 565 680 HOH HOH . Q 6 HOH B 1 201 764 HOH HOH . Q 6 HOH B 2 202 580 HOH HOH . Q 6 HOH B 3 203 540 HOH HOH . Q 6 HOH B 4 204 918 HOH HOH . Q 6 HOH B 5 205 593 HOH HOH . Q 6 HOH B 6 206 555 HOH HOH . Q 6 HOH B 7 207 639 HOH HOH . Q 6 HOH B 8 208 873 HOH HOH . Q 6 HOH B 9 209 682 HOH HOH . Q 6 HOH B 10 210 684 HOH HOH . Q 6 HOH B 11 211 913 HOH HOH . Q 6 HOH B 12 212 905 HOH HOH . Q 6 HOH B 13 213 870 HOH HOH . Q 6 HOH B 14 214 763 HOH HOH . Q 6 HOH B 15 215 752 HOH HOH . Q 6 HOH B 16 216 683 HOH HOH . R 6 HOH C 1 501 920 HOH HOH . R 6 HOH C 2 502 438 HOH HOH . R 6 HOH C 3 503 732 HOH HOH . R 6 HOH C 4 504 677 HOH HOH . R 6 HOH C 5 505 436 HOH HOH . R 6 HOH C 6 506 927 HOH HOH . R 6 HOH C 7 507 726 HOH HOH . R 6 HOH C 8 508 734 HOH HOH . R 6 HOH C 9 509 591 HOH HOH . R 6 HOH C 10 510 647 HOH HOH . R 6 HOH C 11 511 739 HOH HOH . R 6 HOH C 12 512 912 HOH HOH . R 6 HOH C 13 513 923 HOH HOH . R 6 HOH C 14 514 604 HOH HOH . R 6 HOH C 15 515 597 HOH HOH . R 6 HOH C 16 516 733 HOH HOH . R 6 HOH C 17 517 437 HOH HOH . R 6 HOH C 18 518 887 HOH HOH . R 6 HOH C 19 519 566 HOH HOH . R 6 HOH C 20 520 866 HOH HOH . R 6 HOH C 21 521 903 HOH HOH . R 6 HOH C 22 522 857 HOH HOH . R 6 HOH C 23 523 928 HOH HOH . R 6 HOH C 24 524 743 HOH HOH . R 6 HOH C 25 525 578 HOH HOH . R 6 HOH C 26 526 724 HOH HOH . R 6 HOH C 27 527 624 HOH HOH . R 6 HOH C 28 528 736 HOH HOH . R 6 HOH C 29 529 537 HOH HOH . R 6 HOH C 30 530 930 HOH HOH . R 6 HOH C 31 531 670 HOH HOH . R 6 HOH C 32 532 603 HOH HOH . R 6 HOH C 33 533 521 HOH HOH . R 6 HOH C 34 534 559 HOH HOH . R 6 HOH C 35 535 673 HOH HOH . R 6 HOH C 36 536 674 HOH HOH . R 6 HOH C 37 537 735 HOH HOH . R 6 HOH C 38 538 608 HOH HOH . R 6 HOH C 39 539 538 HOH HOH . R 6 HOH C 40 540 738 HOH HOH . R 6 HOH C 41 541 725 HOH HOH . R 6 HOH C 42 542 878 HOH HOH . R 6 HOH C 43 543 908 HOH HOH . R 6 HOH C 44 544 731 HOH HOH . R 6 HOH C 45 545 858 HOH HOH . R 6 HOH C 46 546 916 HOH HOH . R 6 HOH C 47 547 926 HOH HOH . S 6 HOH D 1 201 551 HOH HOH . S 6 HOH D 2 202 567 HOH HOH . S 6 HOH D 3 203 723 HOH HOH . S 6 HOH D 4 204 702 HOH HOH . S 6 HOH D 5 205 582 HOH HOH . S 6 HOH D 6 206 562 HOH HOH . S 6 HOH D 7 207 701 HOH HOH . S 6 HOH D 8 208 697 HOH HOH . S 6 HOH D 9 209 921 HOH HOH . S 6 HOH D 10 210 904 HOH HOH . S 6 HOH D 11 211 671 HOH HOH . S 6 HOH D 12 212 871 HOH HOH . S 6 HOH D 13 213 517 HOH HOH . S 6 HOH D 14 214 558 HOH HOH . S 6 HOH D 15 215 572 HOH HOH . S 6 HOH D 16 216 707 HOH HOH . T 6 HOH E 1 501 526 HOH HOH . T 6 HOH E 2 502 528 HOH HOH . T 6 HOH E 3 503 754 HOH HOH . T 6 HOH E 4 504 436 HOH HOH . T 6 HOH E 5 505 501 HOH HOH . T 6 HOH E 6 506 622 HOH HOH . T 6 HOH E 7 507 508 HOH HOH . T 6 HOH E 8 508 920 HOH HOH . T 6 HOH E 9 509 862 HOH HOH . T 6 HOH E 10 510 529 HOH HOH . T 6 HOH E 11 511 757 HOH HOH . T 6 HOH E 12 512 438 HOH HOH . T 6 HOH E 13 513 660 HOH HOH . T 6 HOH E 14 514 907 HOH HOH . T 6 HOH E 15 515 631 HOH HOH . T 6 HOH E 16 516 753 HOH HOH . T 6 HOH E 17 517 628 HOH HOH . T 6 HOH E 18 518 755 HOH HOH . T 6 HOH E 19 519 694 HOH HOH . T 6 HOH E 20 520 743 HOH HOH . T 6 HOH E 21 521 880 HOH HOH . T 6 HOH E 22 522 585 HOH HOH . T 6 HOH E 23 523 885 HOH HOH . T 6 HOH E 24 524 672 HOH HOH . T 6 HOH E 25 525 539 HOH HOH . T 6 HOH E 26 526 745 HOH HOH . T 6 HOH E 27 527 518 HOH HOH . T 6 HOH E 28 528 513 HOH HOH . T 6 HOH E 29 529 867 HOH HOH . T 6 HOH E 30 530 758 HOH HOH . T 6 HOH E 31 531 627 HOH HOH . T 6 HOH E 32 532 525 HOH HOH . T 6 HOH E 33 533 759 HOH HOH . T 6 HOH E 34 534 690 HOH HOH . T 6 HOH E 35 535 556 HOH HOH . T 6 HOH E 36 536 860 HOH HOH . T 6 HOH E 37 537 661 HOH HOH . T 6 HOH E 38 538 588 HOH HOH . T 6 HOH E 39 539 536 HOH HOH . T 6 HOH E 40 540 735 HOH HOH . T 6 HOH E 41 541 923 HOH HOH . T 6 HOH E 42 542 612 HOH HOH . T 6 HOH E 43 543 924 HOH HOH . T 6 HOH E 44 544 879 HOH HOH . T 6 HOH E 45 545 607 HOH HOH . T 6 HOH E 46 546 547 HOH HOH . T 6 HOH E 47 547 809 HOH HOH . T 6 HOH E 48 548 533 HOH HOH . T 6 HOH E 49 549 590 HOH HOH . T 6 HOH E 50 550 569 HOH HOH . T 6 HOH E 51 551 763 HOH HOH . T 6 HOH E 52 552 748 HOH HOH . T 6 HOH E 53 553 950 HOH HOH . T 6 HOH E 54 554 921 HOH HOH . T 6 HOH E 55 555 437 HOH HOH . T 6 HOH E 56 556 749 HOH HOH . T 6 HOH E 57 557 746 HOH HOH . T 6 HOH E 58 558 645 HOH HOH . T 6 HOH E 59 559 527 HOH HOH . T 6 HOH E 60 560 550 HOH HOH . T 6 HOH E 61 561 760 HOH HOH . T 6 HOH E 62 562 662 HOH HOH . T 6 HOH E 63 563 520 HOH HOH . T 6 HOH E 64 564 524 HOH HOH . T 6 HOH E 65 565 808 HOH HOH . T 6 HOH E 66 566 859 HOH HOH . T 6 HOH E 67 567 516 HOH HOH . T 6 HOH E 68 568 747 HOH HOH . T 6 HOH E 69 569 918 HOH HOH . T 6 HOH E 70 570 663 HOH HOH . T 6 HOH E 71 571 762 HOH HOH . T 6 HOH E 72 572 861 HOH HOH . T 6 HOH E 73 573 917 HOH HOH . T 6 HOH E 74 574 737 HOH HOH . T 6 HOH E 75 575 807 HOH HOH . T 6 HOH E 76 576 742 HOH HOH . U 6 HOH F 1 201 703 HOH HOH . U 6 HOH F 2 202 707 HOH HOH . U 6 HOH F 3 203 542 HOH HOH . U 6 HOH F 4 204 561 HOH HOH . U 6 HOH F 5 205 705 HOH HOH . U 6 HOH F 6 206 754 HOH HOH . U 6 HOH F 7 207 648 HOH HOH . U 6 HOH F 8 208 669 HOH HOH . U 6 HOH F 9 209 863 HOH HOH . U 6 HOH F 10 210 872 HOH HOH . U 6 HOH F 11 211 756 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id L _atom_site.label_entity_id 5 _atom_site.Cartn_x 24.368 _atom_site.Cartn_y -60.954 _atom_site.Cartn_z 38.383 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 25.76 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 403 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #