data_5MXG # _model_server_result.job_id wabOZADvEtYusdwPt2egLA _model_server_result.datetime_utc '2024-11-28 05:20:19' _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 5mxg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":410}' # _entry.id 5MXG # _exptl.entry_id 5MXG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 5MXG _cell.length_a 80.309 _cell.length_b 80.309 _cell.length_c 112.973 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5MXG _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 GAL NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 FUC GAL C1 O1 . O2 HO2 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 913 NAG 2 n B GAL 2 B 2 GAL A 912 GAL 2 n B FUC 3 B 3 FUC A 911 FUC 2 n C NAG 1 C 1 NAG A 933 NAG 2 n C GAL 2 C 2 GAL A 932 GAL 2 n C FUC 3 C 3 FUC A 931 FUC 2 n D NAG 1 D 1 NAG A 963 NAG 2 n D GAL 2 D 2 GAL A 962 GAL 2 n D FUC 3 D 3 FUC A 961 FUC # 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 covale ? covale1 B O4 NAG . B NAG 1 1_555 B C1 GAL . B GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 B O2 GAL . B GAL 2 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 GAL . C GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale4 C O2 GAL . C GAL 2 1_555 C C1 FUC . C FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 D O4 NAG . D NAG 1 1_555 D C1 GAL . D GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 ? covale ? covale6 D O2 GAL . D GAL 2 1_555 D C1 FUC . D FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A O VAL 179 A VAL 179 1_555 E NA NA . A NA 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc2 E NA NA . A NA 410 1_555 F O HOH . A HOH 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? metalc ? metalc3 E NA NA . A NA 410 1_555 F O HOH . A HOH 550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc4 E NA NA . A NA 410 1_555 F O HOH . A HOH 584 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? # _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 5MXG _atom_sites.fract_transf_matrix[1][1] 0.012452 _atom_sites.fract_transf_matrix[1][2] 0.007189 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014378 _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] 0.008852 _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 E 3 NA A 1 410 999 NA NA . F 4 HOH A 1 501 84 HOH HOH . F 4 HOH A 2 502 67 HOH HOH . F 4 HOH A 3 503 24 HOH HOH . F 4 HOH A 4 504 82 HOH HOH . F 4 HOH A 5 505 74 HOH HOH . F 4 HOH A 6 506 50 HOH HOH . F 4 HOH A 7 507 31 HOH HOH . F 4 HOH A 8 508 95 HOH HOH . F 4 HOH A 9 509 98 HOH HOH . F 4 HOH A 10 510 90 HOH HOH . F 4 HOH A 11 511 47 HOH HOH . F 4 HOH A 12 512 69 HOH HOH . F 4 HOH A 13 513 96 HOH HOH . F 4 HOH A 14 514 33 HOH HOH . F 4 HOH A 15 515 79 HOH HOH . F 4 HOH A 16 516 71 HOH HOH . F 4 HOH A 17 517 5 HOH HOH . F 4 HOH A 18 518 65 HOH HOH . F 4 HOH A 19 519 62 HOH HOH . F 4 HOH A 20 520 20 HOH HOH . F 4 HOH A 21 521 26 HOH HOH . F 4 HOH A 22 522 76 HOH HOH . F 4 HOH A 23 523 49 HOH HOH . F 4 HOH A 24 524 15 HOH HOH . F 4 HOH A 25 525 38 HOH HOH . F 4 HOH A 26 526 40 HOH HOH . F 4 HOH A 27 527 12 HOH HOH . F 4 HOH A 28 528 36 HOH HOH . F 4 HOH A 29 529 63 HOH HOH . F 4 HOH A 30 530 41 HOH HOH . F 4 HOH A 31 531 19 HOH HOH . F 4 HOH A 32 532 78 HOH HOH . F 4 HOH A 33 533 16 HOH HOH . F 4 HOH A 34 534 70 HOH HOH . F 4 HOH A 35 535 39 HOH HOH . F 4 HOH A 36 536 30 HOH HOH . F 4 HOH A 37 537 81 HOH HOH . F 4 HOH A 38 538 14 HOH HOH . F 4 HOH A 39 539 86 HOH HOH . F 4 HOH A 40 540 55 HOH HOH . F 4 HOH A 41 541 46 HOH HOH . F 4 HOH A 42 542 9 HOH HOH . F 4 HOH A 43 543 80 HOH HOH . F 4 HOH A 44 544 51 HOH HOH . F 4 HOH A 45 545 75 HOH HOH . F 4 HOH A 46 546 42 HOH HOH . F 4 HOH A 47 547 21 HOH HOH . F 4 HOH A 48 548 32 HOH HOH . F 4 HOH A 49 549 73 HOH HOH . F 4 HOH A 50 550 101 HOH HOH . F 4 HOH A 51 551 11 HOH HOH . F 4 HOH A 52 552 61 HOH HOH . F 4 HOH A 53 553 103 HOH HOH . F 4 HOH A 54 554 52 HOH HOH . F 4 HOH A 55 555 85 HOH HOH . F 4 HOH A 56 556 13 HOH HOH . F 4 HOH A 57 557 17 HOH HOH . F 4 HOH A 58 558 87 HOH HOH . F 4 HOH A 59 559 59 HOH HOH . F 4 HOH A 60 560 72 HOH HOH . F 4 HOH A 61 561 43 HOH HOH . F 4 HOH A 62 562 8 HOH HOH . F 4 HOH A 63 563 29 HOH HOH . F 4 HOH A 64 564 64 HOH HOH . F 4 HOH A 65 565 88 HOH HOH . F 4 HOH A 66 566 56 HOH HOH . F 4 HOH A 67 567 57 HOH HOH . F 4 HOH A 68 568 97 HOH HOH . F 4 HOH A 69 569 89 HOH HOH . F 4 HOH A 70 570 44 HOH HOH . F 4 HOH A 71 571 77 HOH HOH . F 4 HOH A 72 572 35 HOH HOH . F 4 HOH A 73 573 28 HOH HOH . F 4 HOH A 74 574 100 HOH HOH . F 4 HOH A 75 575 1 HOH HOH . F 4 HOH A 76 576 66 HOH HOH . F 4 HOH A 77 577 23 HOH HOH . F 4 HOH A 78 578 22 HOH HOH . F 4 HOH A 79 579 53 HOH HOH . F 4 HOH A 80 580 58 HOH HOH . F 4 HOH A 81 581 3 HOH HOH . F 4 HOH A 82 582 37 HOH HOH . F 4 HOH A 83 583 54 HOH HOH . F 4 HOH A 84 584 48 HOH HOH . F 4 HOH A 85 585 45 HOH HOH . F 4 HOH A 86 586 93 HOH HOH . F 4 HOH A 87 587 94 HOH HOH . F 4 HOH A 88 588 27 HOH HOH . F 4 HOH A 89 589 4 HOH HOH . F 4 HOH A 90 590 7 HOH HOH . F 4 HOH A 91 591 83 HOH HOH . F 4 HOH A 92 592 18 HOH HOH . F 4 HOH A 93 593 25 HOH HOH . F 4 HOH A 94 594 99 HOH HOH . F 4 HOH A 95 595 2 HOH HOH . F 4 HOH A 96 596 10 HOH HOH . F 4 HOH A 97 597 6 HOH HOH . F 4 HOH A 98 598 68 HOH HOH . F 4 HOH A 99 599 102 HOH HOH . F 4 HOH A 100 600 60 HOH HOH . F 4 HOH A 101 601 91 HOH HOH . F 4 HOH A 102 602 92 HOH HOH . F 4 HOH A 103 603 34 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 3 _atom_site.Cartn_x 9.533 _atom_site.Cartn_y 37.692 _atom_site.Cartn_z 9.869 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 41.42 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 410 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #