data_5XFE # _model_server_result.job_id Og2PaKprMKI2sKBtETgwWA _model_server_result.datetime_utc '2025-01-15 13:59:33' _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 5xfe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 5XFE # _exptl.entry_id 5XFE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 5XFE _cell.length_a 47.9 _cell.length_b 77.03 _cell.length_c 84.53 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XFE _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 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 _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 4 _struct_asym.id E _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 OE1 GLU 21 A GLU 18 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc2 A OD1 ASN 163 A ASN 160 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc3 A OD1 ASP 215 A ASP 212 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc4 B HG HG . A HG 401 1_555 F O HOH . A HOH 660 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc5 D MG MG . A MG 403 1_555 F O HOH . A HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc6 D MG MG . A MG 403 1_555 F O HOH . A HOH 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc7 D MG MG . A MG 403 1_555 F O HOH . A HOH 629 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 C1 C2 MPD sing 237 n n C1 H11 MPD sing 238 n n C1 H12 MPD sing 239 n n C1 H13 MPD sing 240 n n C2 O2 MPD sing 241 n n C2 CM MPD sing 242 n n C2 C3 MPD sing 243 n n O2 HO2 MPD sing 244 n n CM HM1 MPD sing 245 n n CM HM2 MPD sing 246 n n CM HM3 MPD sing 247 n n C3 C4 MPD sing 248 n n C3 H31 MPD sing 249 n n C3 H32 MPD sing 250 n n C4 O4 MPD sing 251 n n C4 C5 MPD sing 252 n n C4 H4 MPD sing 253 n n O4 HO4 MPD sing 254 n n C5 H51 MPD sing 255 n n C5 H52 MPD sing 256 n n C5 H53 MPD sing 257 n n # _atom_sites.entry_id 5XFE _atom_sites.fract_transf_matrix[1][1] 0.020877 _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] 0.012982 _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] 0.01183 _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 HG A 1 401 1 HG HG . C 2 HG A 1 402 2 HG HG . D 3 MG A 1 403 1 MG MG . E 4 MPD A 1 404 1 MPD MPD . F 5 HOH A 1 501 94 HOH HOH . F 5 HOH A 2 502 102 HOH HOH . F 5 HOH A 3 503 115 HOH HOH . F 5 HOH A 4 504 159 HOH HOH . F 5 HOH A 5 505 136 HOH HOH . F 5 HOH A 6 506 142 HOH HOH . F 5 HOH A 7 507 133 HOH HOH . F 5 HOH A 8 508 42 HOH HOH . F 5 HOH A 9 509 21 HOH HOH . F 5 HOH A 10 510 124 HOH HOH . F 5 HOH A 11 511 4 HOH HOH . F 5 HOH A 12 512 62 HOH HOH . F 5 HOH A 13 513 103 HOH HOH . F 5 HOH A 14 514 76 HOH HOH . F 5 HOH A 15 515 30 HOH HOH . F 5 HOH A 16 516 1 HOH HOH . F 5 HOH A 17 517 119 HOH HOH . F 5 HOH A 18 518 15 HOH HOH . F 5 HOH A 19 519 26 HOH HOH . F 5 HOH A 20 520 97 HOH HOH . F 5 HOH A 21 521 5 HOH HOH . F 5 HOH A 22 522 70 HOH HOH . F 5 HOH A 23 523 74 HOH HOH . F 5 HOH A 24 524 56 HOH HOH . F 5 HOH A 25 525 67 HOH HOH . F 5 HOH A 26 526 3 HOH HOH . F 5 HOH A 27 527 19 HOH HOH . F 5 HOH A 28 528 24 HOH HOH . F 5 HOH A 29 529 32 HOH HOH . F 5 HOH A 30 530 123 HOH HOH . F 5 HOH A 31 531 11 HOH HOH . F 5 HOH A 32 532 96 HOH HOH . F 5 HOH A 33 533 49 HOH HOH . F 5 HOH A 34 534 116 HOH HOH . F 5 HOH A 35 535 144 HOH HOH . F 5 HOH A 36 536 68 HOH HOH . F 5 HOH A 37 537 86 HOH HOH . F 5 HOH A 38 538 137 HOH HOH . F 5 HOH A 39 539 38 HOH HOH . F 5 HOH A 40 540 85 HOH HOH . F 5 HOH A 41 541 61 HOH HOH . F 5 HOH A 42 542 135 HOH HOH . F 5 HOH A 43 543 48 HOH HOH . F 5 HOH A 44 544 65 HOH HOH . F 5 HOH A 45 545 10 HOH HOH . F 5 HOH A 46 546 162 HOH HOH . F 5 HOH A 47 547 7 HOH HOH . F 5 HOH A 48 548 27 HOH HOH . F 5 HOH A 49 549 83 HOH HOH . F 5 HOH A 50 550 118 HOH HOH . F 5 HOH A 51 551 37 HOH HOH . F 5 HOH A 52 552 20 HOH HOH . F 5 HOH A 53 553 98 HOH HOH . F 5 HOH A 54 554 23 HOH HOH . F 5 HOH A 55 555 8 HOH HOH . F 5 HOH A 56 556 147 HOH HOH . F 5 HOH A 57 557 171 HOH HOH . F 5 HOH A 58 558 18 HOH HOH . F 5 HOH A 59 559 155 HOH HOH . F 5 HOH A 60 560 121 HOH HOH . F 5 HOH A 61 561 25 HOH HOH . F 5 HOH A 62 562 66 HOH HOH . F 5 HOH A 63 563 52 HOH HOH . F 5 HOH A 64 564 151 HOH HOH . F 5 HOH A 65 565 108 HOH HOH . F 5 HOH A 66 566 22 HOH HOH . F 5 HOH A 67 567 152 HOH HOH . F 5 HOH A 68 568 54 HOH HOH . F 5 HOH A 69 569 57 HOH HOH . F 5 HOH A 70 570 43 HOH HOH . F 5 HOH A 71 571 87 HOH HOH . F 5 HOH A 72 572 110 HOH HOH . F 5 HOH A 73 573 79 HOH HOH . F 5 HOH A 74 574 13 HOH HOH . F 5 HOH A 75 575 82 HOH HOH . F 5 HOH A 76 576 9 HOH HOH . F 5 HOH A 77 577 50 HOH HOH . F 5 HOH A 78 578 134 HOH HOH . F 5 HOH A 79 579 45 HOH HOH . F 5 HOH A 80 580 14 HOH HOH . F 5 HOH A 81 581 120 HOH HOH . F 5 HOH A 82 582 92 HOH HOH . F 5 HOH A 83 583 75 HOH HOH . F 5 HOH A 84 584 44 HOH HOH . F 5 HOH A 85 585 165 HOH HOH . F 5 HOH A 86 586 101 HOH HOH . F 5 HOH A 87 587 127 HOH HOH . F 5 HOH A 88 588 81 HOH HOH . F 5 HOH A 89 589 109 HOH HOH . F 5 HOH A 90 590 16 HOH HOH . F 5 HOH A 91 591 148 HOH HOH . F 5 HOH A 92 592 112 HOH HOH . F 5 HOH A 93 593 55 HOH HOH . F 5 HOH A 94 594 34 HOH HOH . F 5 HOH A 95 595 106 HOH HOH . F 5 HOH A 96 596 129 HOH HOH . F 5 HOH A 97 597 105 HOH HOH . F 5 HOH A 98 598 125 HOH HOH . F 5 HOH A 99 599 117 HOH HOH . F 5 HOH A 100 600 80 HOH HOH . F 5 HOH A 101 601 95 HOH HOH . F 5 HOH A 102 602 156 HOH HOH . F 5 HOH A 103 603 91 HOH HOH . F 5 HOH A 104 604 33 HOH HOH . F 5 HOH A 105 605 104 HOH HOH . F 5 HOH A 106 606 89 HOH HOH . F 5 HOH A 107 607 17 HOH HOH . F 5 HOH A 108 608 146 HOH HOH . F 5 HOH A 109 609 59 HOH HOH . F 5 HOH A 110 610 53 HOH HOH . F 5 HOH A 111 611 31 HOH HOH . F 5 HOH A 112 612 12 HOH HOH . F 5 HOH A 113 613 71 HOH HOH . F 5 HOH A 114 614 111 HOH HOH . F 5 HOH A 115 615 46 HOH HOH . F 5 HOH A 116 616 140 HOH HOH . F 5 HOH A 117 617 99 HOH HOH . F 5 HOH A 118 618 41 HOH HOH . F 5 HOH A 119 619 107 HOH HOH . F 5 HOH A 120 620 100 HOH HOH . F 5 HOH A 121 621 69 HOH HOH . F 5 HOH A 122 622 6 HOH HOH . F 5 HOH A 123 623 58 HOH HOH . F 5 HOH A 124 624 47 HOH HOH . F 5 HOH A 125 625 78 HOH HOH . F 5 HOH A 126 626 160 HOH HOH . F 5 HOH A 127 627 36 HOH HOH . F 5 HOH A 128 628 40 HOH HOH . F 5 HOH A 129 629 2 HOH HOH . F 5 HOH A 130 630 39 HOH HOH . F 5 HOH A 131 631 164 HOH HOH . F 5 HOH A 132 632 77 HOH HOH . F 5 HOH A 133 633 141 HOH HOH . F 5 HOH A 134 634 175 HOH HOH . F 5 HOH A 135 635 28 HOH HOH . F 5 HOH A 136 636 154 HOH HOH . F 5 HOH A 137 637 64 HOH HOH . F 5 HOH A 138 638 131 HOH HOH . F 5 HOH A 139 639 35 HOH HOH . F 5 HOH A 140 640 149 HOH HOH . F 5 HOH A 141 641 51 HOH HOH . F 5 HOH A 142 642 167 HOH HOH . F 5 HOH A 143 643 178 HOH HOH . F 5 HOH A 144 644 93 HOH HOH . F 5 HOH A 145 645 143 HOH HOH . F 5 HOH A 146 646 153 HOH HOH . F 5 HOH A 147 647 29 HOH HOH . F 5 HOH A 148 648 168 HOH HOH . F 5 HOH A 149 649 173 HOH HOH . F 5 HOH A 150 650 174 HOH HOH . F 5 HOH A 151 651 132 HOH HOH . F 5 HOH A 152 652 113 HOH HOH . F 5 HOH A 153 653 60 HOH HOH . F 5 HOH A 154 654 88 HOH HOH . F 5 HOH A 155 655 90 HOH HOH . F 5 HOH A 156 656 180 HOH HOH . F 5 HOH A 157 657 63 HOH HOH . F 5 HOH A 158 658 73 HOH HOH . F 5 HOH A 159 659 128 HOH HOH . F 5 HOH A 160 660 72 HOH HOH . F 5 HOH A 161 661 84 HOH HOH . F 5 HOH A 162 662 114 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 C C1 MPD . . . E 4 49.354 15.996 26.991 1 32.53 ? C1 MPD 404 A 1 HETATM 2 C C2 MPD . . . E 4 48.415 17.177 27.221 1 29.81 ? C2 MPD 404 A 1 HETATM 3 O O2 MPD . . . E 4 47.107 16.676 27.608 1 32.54 ? O2 MPD 404 A 1 HETATM 4 C CM MPD . . . E 4 48.932 18.059 28.353 1 31.65 ? CM MPD 404 A 1 HETATM 5 C C3 MPD . . . E 4 48.279 18.004 25.947 1 28.13 ? C3 MPD 404 A 1 HETATM 6 C C4 MPD . . . E 4 47.931 17.111 24.763 1 28.09 ? C4 MPD 404 A 1 HETATM 7 O O4 MPD . . . E 4 46.551 16.801 24.774 1 22.55 ? O4 MPD 404 A 1 HETATM 8 C C5 MPD . . . E 4 48.248 17.795 23.442 1 24.63 ? C5 MPD 404 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 8 #