data_7KCY # _model_server_result.job_id cWUgxHzQwTHYXapJ7OYQuQ _model_server_result.datetime_utc '2024-11-25 12:35:18' _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 7kcy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 7KCY # _exptl.entry_id 7KCY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 368.428 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-2-{(1S)-1-methoxy-2-oxo-1-[(thiophen-2-ylacetyl)amino]ethyl}-5-methylidene-5,6-dihydro-2H-1,3-thiazine-4-carboxylic acid' _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 7KCY _cell.length_a 50.16 _cell.length_b 83.01 _cell.length_c 103.64 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KCY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _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 _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 2 _struct_asym.id B _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 covale ? covale1 A OG SER 59 A SER 75 1_555 B C14 1S7 . A 1S7 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.527 ? metalc ? metalc1 A NE2 HIS 346 A HIS 362 1_555 D ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc2 A OD1 ASP 348 A ASP 364 1_555 D ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc3 A OD2 ASP 348 A ASP 364 1_555 D ZN ZN . A ZN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc4 D ZN ZN . A ZN 403 1_555 E O HOH . A HOH 633 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc5 D ZN ZN . A ZN 403 1_555 E O HOH . A HOH 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? # _chem_comp.formula 'C15 H16 N2 O5 S2' _chem_comp.formula_weight 368.428 _chem_comp.id 1S7 _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-2-{(1S)-1-methoxy-2-oxo-1-[(thiophen-2-ylacetyl)amino]ethyl}-5-methylidene-5,6-dihydro-2H-1,3-thiazine-4-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Cefoxitin, bound form' # 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 O C 1S7 sing 1 n n C H 1S7 sing 2 n n C HA 1S7 sing 3 n n C HB 1S7 sing 4 n n C1 N 1S7 sing 5 n n N C2 1S7 sing 6 n n N HN 1S7 sing 7 n n C1 O 1S7 sing 8 n n C4 S 1S7 sing 9 n y C7 S 1S7 sing 10 n y C8 C1 1S7 sing 11 n n C14 C1 1S7 sing 12 n n O1 C2 1S7 doub 13 n n C9 S1 1S7 sing 14 n n S1 C8 1S7 sing 15 n n C2 C3 1S7 sing 16 n n C8 N2 1S7 sing 17 n n C13 N2 1S7 doub 18 n n C3 C4 1S7 sing 19 n n C3 H3 1S7 sing 20 n n C3 H3A 1S7 sing 21 n n C5 C4 1S7 doub 22 n y O4 C14 1S7 doub 23 n n C5 C6 1S7 sing 24 n y C5 H5 1S7 sing 25 n n C15 O5 1S7 doub 26 n n C6 C7 1S7 doub 27 n y C6 H6 1S7 sing 28 n n C15 O6 1S7 sing 29 n n O6 HO6 1S7 sing 30 n n C7 H7 1S7 sing 31 n n C8 H8 1S7 sing 32 n n C9 C10 1S7 sing 33 n n C9 H9 1S7 sing 34 n n C9 H9A 1S7 sing 35 n n C11 C10 1S7 doub 36 n n C10 C13 1S7 sing 37 n n C11 H11 1S7 sing 38 n n C11 H11A 1S7 sing 39 n n C13 C15 1S7 sing 40 n n C14 H14 1S7 sing 41 n n # _atom_sites.entry_id 7KCY _atom_sites.fract_transf_matrix[1][1] 0.019936 _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] 0.012047 _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] 0.009649 _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 1S7 A 1 401 401 1S7 FOX . C 3 GOL A 1 402 601 GOL GOL . D 4 ZN A 1 403 1 ZN ZN . E 5 HOH A 1 501 185 HOH HOH . E 5 HOH A 2 502 89 HOH HOH . E 5 HOH A 3 503 1 HOH HOH . E 5 HOH A 4 504 109 HOH HOH . E 5 HOH A 5 505 43 HOH HOH . E 5 HOH A 6 506 57 HOH HOH . E 5 HOH A 7 507 166 HOH HOH . E 5 HOH A 8 508 116 HOH HOH . E 5 HOH A 9 509 169 HOH HOH . E 5 HOH A 10 510 104 HOH HOH . E 5 HOH A 11 511 46 HOH HOH . E 5 HOH A 12 512 73 HOH HOH . E 5 HOH A 13 513 58 HOH HOH . E 5 HOH A 14 514 65 HOH HOH . E 5 HOH A 15 515 24 HOH HOH . E 5 HOH A 16 516 51 HOH HOH . E 5 HOH A 17 517 55 HOH HOH . E 5 HOH A 18 518 111 HOH HOH . E 5 HOH A 19 519 144 HOH HOH . E 5 HOH A 20 520 110 HOH HOH . E 5 HOH A 21 521 20 HOH HOH . E 5 HOH A 22 522 118 HOH HOH . E 5 HOH A 23 523 23 HOH HOH . E 5 HOH A 24 524 64 HOH HOH . E 5 HOH A 25 525 37 HOH HOH . E 5 HOH A 26 526 3 HOH HOH . E 5 HOH A 27 527 36 HOH HOH . E 5 HOH A 28 528 170 HOH HOH . E 5 HOH A 29 529 25 HOH HOH . E 5 HOH A 30 530 178 HOH HOH . E 5 HOH A 31 531 13 HOH HOH . E 5 HOH A 32 532 80 HOH HOH . E 5 HOH A 33 533 4 HOH HOH . E 5 HOH A 34 534 126 HOH HOH . E 5 HOH A 35 535 16 HOH HOH . E 5 HOH A 36 536 15 HOH HOH . E 5 HOH A 37 537 2 HOH HOH . E 5 HOH A 38 538 9 HOH HOH . E 5 HOH A 39 539 72 HOH HOH . E 5 HOH A 40 540 68 HOH HOH . E 5 HOH A 41 541 61 HOH HOH . E 5 HOH A 42 542 88 HOH HOH . E 5 HOH A 43 543 7 HOH HOH . E 5 HOH A 44 544 60 HOH HOH . E 5 HOH A 45 545 63 HOH HOH . E 5 HOH A 46 546 10 HOH HOH . E 5 HOH A 47 547 125 HOH HOH . E 5 HOH A 48 548 31 HOH HOH . E 5 HOH A 49 549 26 HOH HOH . E 5 HOH A 50 550 53 HOH HOH . E 5 HOH A 51 551 12 HOH HOH . E 5 HOH A 52 552 147 HOH HOH . E 5 HOH A 53 553 98 HOH HOH . E 5 HOH A 54 554 17 HOH HOH . E 5 HOH A 55 555 120 HOH HOH . E 5 HOH A 56 556 5 HOH HOH . E 5 HOH A 57 557 115 HOH HOH . E 5 HOH A 58 558 45 HOH HOH . E 5 HOH A 59 559 187 HOH HOH . E 5 HOH A 60 560 153 HOH HOH . E 5 HOH A 61 561 82 HOH HOH . E 5 HOH A 62 562 103 HOH HOH . E 5 HOH A 63 563 145 HOH HOH . E 5 HOH A 64 564 78 HOH HOH . E 5 HOH A 65 565 86 HOH HOH . E 5 HOH A 66 566 174 HOH HOH . E 5 HOH A 67 567 47 HOH HOH . E 5 HOH A 68 568 87 HOH HOH . E 5 HOH A 69 569 97 HOH HOH . E 5 HOH A 70 570 107 HOH HOH . E 5 HOH A 71 571 44 HOH HOH . E 5 HOH A 72 572 32 HOH HOH . E 5 HOH A 73 573 184 HOH HOH . E 5 HOH A 74 574 77 HOH HOH . E 5 HOH A 75 575 100 HOH HOH . E 5 HOH A 76 576 14 HOH HOH . E 5 HOH A 77 577 179 HOH HOH . E 5 HOH A 78 578 151 HOH HOH . E 5 HOH A 79 579 48 HOH HOH . E 5 HOH A 80 580 66 HOH HOH . E 5 HOH A 81 581 75 HOH HOH . E 5 HOH A 82 582 180 HOH HOH . E 5 HOH A 83 583 34 HOH HOH . E 5 HOH A 84 584 137 HOH HOH . E 5 HOH A 85 585 163 HOH HOH . E 5 HOH A 86 586 155 HOH HOH . E 5 HOH A 87 587 93 HOH HOH . E 5 HOH A 88 588 102 HOH HOH . E 5 HOH A 89 589 142 HOH HOH . E 5 HOH A 90 590 143 HOH HOH . E 5 HOH A 91 591 164 HOH HOH . E 5 HOH A 92 592 158 HOH HOH . E 5 HOH A 93 593 161 HOH HOH . E 5 HOH A 94 594 96 HOH HOH . E 5 HOH A 95 595 22 HOH HOH . E 5 HOH A 96 596 29 HOH HOH . E 5 HOH A 97 597 91 HOH HOH . E 5 HOH A 98 598 70 HOH HOH . E 5 HOH A 99 599 113 HOH HOH . E 5 HOH A 100 600 18 HOH HOH . E 5 HOH A 101 601 11 HOH HOH . E 5 HOH A 102 602 6 HOH HOH . E 5 HOH A 103 603 182 HOH HOH . E 5 HOH A 104 604 38 HOH HOH . E 5 HOH A 105 605 69 HOH HOH . E 5 HOH A 106 606 127 HOH HOH . E 5 HOH A 107 607 160 HOH HOH . E 5 HOH A 108 608 41 HOH HOH . E 5 HOH A 109 609 27 HOH HOH . E 5 HOH A 110 610 28 HOH HOH . E 5 HOH A 111 611 101 HOH HOH . E 5 HOH A 112 612 177 HOH HOH . E 5 HOH A 113 613 152 HOH HOH . E 5 HOH A 114 614 95 HOH HOH . E 5 HOH A 115 615 90 HOH HOH . E 5 HOH A 116 616 94 HOH HOH . E 5 HOH A 117 617 30 HOH HOH . E 5 HOH A 118 618 71 HOH HOH . E 5 HOH A 119 619 154 HOH HOH . E 5 HOH A 120 620 114 HOH HOH . E 5 HOH A 121 621 8 HOH HOH . E 5 HOH A 122 622 131 HOH HOH . E 5 HOH A 123 623 108 HOH HOH . E 5 HOH A 124 624 76 HOH HOH . E 5 HOH A 125 625 59 HOH HOH . E 5 HOH A 126 626 81 HOH HOH . E 5 HOH A 127 627 121 HOH HOH . E 5 HOH A 128 628 149 HOH HOH . E 5 HOH A 129 629 62 HOH HOH . E 5 HOH A 130 630 173 HOH HOH . E 5 HOH A 131 631 19 HOH HOH . E 5 HOH A 132 632 119 HOH HOH . E 5 HOH A 133 633 133 HOH HOH . E 5 HOH A 134 634 106 HOH HOH . E 5 HOH A 135 635 176 HOH HOH . E 5 HOH A 136 636 99 HOH HOH . E 5 HOH A 137 637 67 HOH HOH . E 5 HOH A 138 638 183 HOH HOH . E 5 HOH A 139 639 92 HOH HOH . E 5 HOH A 140 640 132 HOH HOH . E 5 HOH A 141 641 117 HOH HOH . E 5 HOH A 142 642 181 HOH HOH . E 5 HOH A 143 643 162 HOH HOH . E 5 HOH A 144 644 148 HOH HOH . E 5 HOH A 145 645 85 HOH HOH . E 5 HOH A 146 646 175 HOH HOH . E 5 HOH A 147 647 129 HOH HOH . E 5 HOH A 148 648 33 HOH HOH . E 5 HOH A 149 649 188 HOH HOH . E 5 HOH A 150 650 74 HOH HOH . E 5 HOH A 151 651 21 HOH HOH . E 5 HOH A 152 652 171 HOH HOH . E 5 HOH A 153 653 79 HOH HOH . E 5 HOH A 154 654 105 HOH HOH . E 5 HOH A 155 655 49 HOH HOH . E 5 HOH A 156 656 42 HOH HOH . E 5 HOH A 157 657 130 HOH HOH . E 5 HOH A 158 658 83 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 C 1S7 . . . B 2 -4.367 20.069 13.598 1 57.46 ? C 1S7 401 A 1 HETATM 2 N N 1S7 . . . B 2 -6.485 18.195 14.894 1 69.44 ? N 1S7 401 A 1 HETATM 3 O O 1S7 . . . B 2 -4.641 19.762 14.961 1 57.28 ? O 1S7 401 A 1 HETATM 4 S S 1S7 . . . B 2 -9.893 21.036 14.425 1 94.18 ? S 1S7 401 A 1 HETATM 5 C C1 1S7 . . . B 2 -5.081 18.423 15.243 1 65.09 ? C1 1S7 401 A 1 HETATM 6 O O1 1S7 . . . B 2 -7.034 20.358 14.58 1 79.42 ? O1 1S7 401 A 1 HETATM 7 S S1 1S7 . . . B 2 -6.287 18.559 17.697 1 71.15 ? S1 1S7 401 A 1 HETATM 8 C C2 1S7 . . . B 2 -7.292 19.16 14.449 1 79.04 ? C2 1S7 401 A 1 HETATM 9 N N2 1S7 . . . B 2 -4.348 16.75 16.831 1 62.44 ? N2 1S7 401 A 1 HETATM 10 C C3 1S7 . . . B 2 -8.535 18.681 13.725 1 71.59 ? C3 1S7 401 A 1 HETATM 11 C C4 1S7 . . . B 2 -9.814 19.36 14.115 1 78.83 ? C4 1S7 401 A 1 HETATM 12 O O4 1S7 . . . B 2 -4.685 16.444 13.958 1 47.81 ? O4 1S7 401 A 1 HETATM 13 C C5 1S7 . . . B 2 -11.064 18.759 14.242 1 78.12 ? C5 1S7 401 A 1 HETATM 14 O O5 1S7 . . . B 2 -3.049 14.451 17.133 1 57.21 ? O5 1S7 401 A 1 HETATM 15 C C6 1S7 . . . B 2 -12.067 19.727 14.504 1 89.38 ? C6 1S7 401 A 1 HETATM 16 O O6 1S7 . . . B 2 -4.943 13.427 17.441 1 60.05 ? O6 1S7 401 A 1 HETATM 17 C C7 1S7 . . . B 2 -11.582 20.983 14.606 1 94.44 ? C7 1S7 401 A 1 HETATM 18 C C8 1S7 . . . B 2 -4.827 18.141 16.741 1 68.52 ? C8 1S7 401 A 1 HETATM 19 C C9 1S7 . . . B 2 -7.093 16.956 17.728 1 79.21 ? C9 1S7 401 A 1 HETATM 20 C C10 1S7 . . . B 2 -6.116 15.904 18.155 1 76.83 ? C10 1S7 401 A 1 HETATM 21 C C11 1S7 . . . B 2 -6.381 15.125 19.19 1 78.03 ? C11 1S7 401 A 1 HETATM 22 C C13 1S7 . . . B 2 -4.963 15.752 17.44 1 63.6 ? C13 1S7 401 A 1 HETATM 23 C C14 1S7 . . . B 2 -4.226 17.451 14.421 1 58.84 ? C14 1S7 401 A 1 HETATM 24 C C15 1S7 . . . B 2 -4.247 14.412 17.344 1 58.42 ? C15 1S7 401 A 1 HETATM 25 H H 1S7 . . . B 2 -3.612 19.54 13.292 1 68.98 ? H 1S7 401 A 1 HETATM 26 H HA 1S7 . . . B 2 -4.155 21.013 13.514 1 68.98 ? HA 1S7 401 A 1 HETATM 27 H HB 1S7 . . . B 2 -5.146 19.863 13.056 1 68.98 ? HB 1S7 401 A 1 HETATM 28 H HN 1S7 . . . B 2 -6.807 17.388 14.981 1 83.35 ? HN 1S7 401 A 1 HETATM 29 H H3 1S7 . . . B 2 -8.643 17.722 13.884 1 85.93 ? H3 1S7 401 A 1 HETATM 30 H H3A 1S7 . . . B 2 -8.408 18.808 12.764 1 85.93 ? H3A 1S7 401 A 1 HETATM 31 H H5 1S7 . . . B 2 -11.216 17.834 14.164 1 93.76 ? H5 1S7 401 A 1 HETATM 32 H H6 1S7 . . . B 2 -12.979 19.515 14.597 1 107.28 ? H6 1S7 401 A 1 HETATM 33 H H7 1S7 . . . B 2 -12.113 21.742 14.759 1 113.35 ? H7 1S7 401 A 1 HETATM 34 H H8 1S7 . . . B 2 -4.128 18.73 17.13 1 82.25 ? H8 1S7 401 A 1 HETATM 35 H H9 1S7 . . . B 2 -7.439 16.744 16.839 1 95.07 ? H9 1S7 401 A 1 HETATM 36 H H9A 1S7 . . . B 2 -7.846 16.978 18.35 1 95.07 ? H9A 1S7 401 A 1 HETATM 37 H H11 1S7 . . . B 2 -5.763 14.461 19.458 1 93.65 ? H11 1S7 401 A 1 HETATM 38 H H11A 1S7 . . . B 2 -7.19 15.228 19.669 1 93.65 ? H11A 1S7 401 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 38 #