data_5GHY # _model_server_result.job_id 1jtyerLgJj0ijCwg_iPzOQ _model_server_result.datetime_utc '2024-11-22 09:47:30' _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 5ghy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5GHY # _exptl.entry_id 5GHY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 340.418 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-METHYL-2-[2-OXO-1-(2-THIOPHEN-2-YL-ACETYLAMINO)-ETHYL]-3,6-DIHYDRO-2H-[1,3]THIAZINE-4-CARBOXYLIC ACID' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 76.84 _cell.angle_beta 75.58 _cell.angle_gamma 69.07 _cell.entry_id 5GHY _cell.length_a 43.24 _cell.length_b 45.94 _cell.length_c 65.99 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GHY _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 ? 2 C N N ? 2 D N N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 47 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 70 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id C8 _struct_conn.ptnr2_label_comp_id CED _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CED _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _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 1.367 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C14 H16 N2 O4 S2' _chem_comp.formula_weight 340.418 _chem_comp.id CED _chem_comp.mon_nstd_flag . _chem_comp.name '5-METHYL-2-[2-OXO-1-(2-THIOPHEN-2-YL-ACETYLAMINO)-ETHYL]-3,6-DIHYDRO-2H-[1,3]THIAZINE-4-CARBOXYLIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DEGRADED CEPHALORIDINE, open 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 S1 C2 CED sing 70 n n S1 C6 CED sing 71 n n C2 C3 CED sing 72 n n C2 H21 CED sing 73 n n C2 H22 CED sing 74 n n C3 C3' CED sing 75 n n C3 C4 CED doub 76 n n C3' "H3'1" CED sing 77 n n C3' "H3'2" CED sing 78 n n C3' "H3'3" CED sing 79 n n C4 C4' CED sing 80 n n C4 N5 CED sing 81 n n C4' O4A CED doub 82 n n C4' O4B CED sing 83 n n O4B HO4 CED sing 84 n n N5 C6 CED sing 85 n n N5 HN5 CED sing 86 n n C6 C7 CED sing 87 n n C6 H6 CED sing 88 n n C7 C8 CED sing 89 n n C7 N10 CED sing 90 n n C7 H7 CED sing 91 n n C8 O9 CED doub 92 n n C8 H8 CED sing 93 n n N10 C11 CED sing 94 n n N10 HN1 CED sing 95 n n C11 O12 CED doub 96 n n C11 C13 CED sing 97 n n C13 C14 CED sing 98 n n C13 H131 CED sing 99 n n C13 H132 CED sing 100 n n C14 C15 CED doub 101 n y C14 S19 CED sing 102 n y C15 C16 CED sing 103 n y C15 H15 CED sing 104 n n C16 C17 CED doub 105 n y C16 H16 CED sing 106 n n C17 S19 CED sing 107 n y C17 H17 CED sing 108 n n # _atom_sites.entry_id 5GHY _atom_sites.fract_transf_matrix[1][1] 0.023127 _atom_sites.fract_transf_matrix[1][2] -0.008845 _atom_sites.fract_transf_matrix[1][3] -0.004645 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023305 _atom_sites.fract_transf_matrix[2][3] -0.003616 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015834 _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 C 2 CED B 1 301 1 CED CED . D 2 CED A 1 301 1 CED CED . E 3 HOH B 1 401 16 HOH HOH . E 3 HOH B 2 402 98 HOH HOH . E 3 HOH B 3 403 51 HOH HOH . E 3 HOH B 4 404 37 HOH HOH . E 3 HOH B 5 405 123 HOH HOH . E 3 HOH B 6 406 42 HOH HOH . E 3 HOH B 7 407 122 HOH HOH . E 3 HOH B 8 408 126 HOH HOH . E 3 HOH B 9 409 95 HOH HOH . E 3 HOH B 10 410 10 HOH HOH . E 3 HOH B 11 411 100 HOH HOH . E 3 HOH B 12 412 39 HOH HOH . E 3 HOH B 13 413 43 HOH HOH . E 3 HOH B 14 414 78 HOH HOH . E 3 HOH B 15 415 91 HOH HOH . E 3 HOH B 16 416 27 HOH HOH . E 3 HOH B 17 417 69 HOH HOH . E 3 HOH B 18 418 13 HOH HOH . E 3 HOH B 19 419 116 HOH HOH . E 3 HOH B 20 420 40 HOH HOH . E 3 HOH B 21 421 62 HOH HOH . E 3 HOH B 22 422 107 HOH HOH . E 3 HOH B 23 423 131 HOH HOH . E 3 HOH B 24 424 9 HOH HOH . E 3 HOH B 25 425 114 HOH HOH . E 3 HOH B 26 426 129 HOH HOH . E 3 HOH B 27 427 23 HOH HOH . E 3 HOH B 28 428 28 HOH HOH . E 3 HOH B 29 429 56 HOH HOH . E 3 HOH B 30 430 138 HOH HOH . E 3 HOH B 31 431 29 HOH HOH . E 3 HOH B 32 432 103 HOH HOH . E 3 HOH B 33 433 12 HOH HOH . E 3 HOH B 34 434 2 HOH HOH . E 3 HOH B 35 435 58 HOH HOH . E 3 HOH B 36 436 11 HOH HOH . E 3 HOH B 37 437 90 HOH HOH . E 3 HOH B 38 438 135 HOH HOH . E 3 HOH B 39 439 80 HOH HOH . E 3 HOH B 40 440 73 HOH HOH . E 3 HOH B 41 441 52 HOH HOH . E 3 HOH B 42 442 96 HOH HOH . E 3 HOH B 43 443 20 HOH HOH . E 3 HOH B 44 444 57 HOH HOH . E 3 HOH B 45 445 111 HOH HOH . E 3 HOH B 46 446 24 HOH HOH . E 3 HOH B 47 447 137 HOH HOH . E 3 HOH B 48 448 8 HOH HOH . E 3 HOH B 49 449 4 HOH HOH . E 3 HOH B 50 450 115 HOH HOH . E 3 HOH B 51 451 77 HOH HOH . E 3 HOH B 52 452 7 HOH HOH . E 3 HOH B 53 453 30 HOH HOH . E 3 HOH B 54 454 3 HOH HOH . E 3 HOH B 55 455 17 HOH HOH . E 3 HOH B 56 456 50 HOH HOH . E 3 HOH B 57 457 71 HOH HOH . E 3 HOH B 58 458 140 HOH HOH . E 3 HOH B 59 459 53 HOH HOH . E 3 HOH B 60 460 128 HOH HOH . E 3 HOH B 61 461 61 HOH HOH . E 3 HOH B 62 462 109 HOH HOH . E 3 HOH B 63 463 85 HOH HOH . E 3 HOH B 64 464 108 HOH HOH . E 3 HOH B 65 465 125 HOH HOH . E 3 HOH B 66 466 134 HOH HOH . E 3 HOH B 67 467 141 HOH HOH . E 3 HOH B 68 468 113 HOH HOH . E 3 HOH B 69 469 142 HOH HOH . E 3 HOH B 70 470 72 HOH HOH . E 3 HOH B 71 471 67 HOH HOH . E 3 HOH B 72 472 139 HOH HOH . F 3 HOH A 1 401 132 HOH HOH . F 3 HOH A 2 402 97 HOH HOH . F 3 HOH A 3 403 110 HOH HOH . F 3 HOH A 4 404 150 HOH HOH . F 3 HOH A 5 405 18 HOH HOH . F 3 HOH A 6 406 81 HOH HOH . F 3 HOH A 7 407 70 HOH HOH . F 3 HOH A 8 408 38 HOH HOH . F 3 HOH A 9 409 127 HOH HOH . F 3 HOH A 10 410 106 HOH HOH . F 3 HOH A 11 411 102 HOH HOH . F 3 HOH A 12 412 74 HOH HOH . F 3 HOH A 13 413 47 HOH HOH . F 3 HOH A 14 414 87 HOH HOH . F 3 HOH A 15 415 83 HOH HOH . F 3 HOH A 16 416 104 HOH HOH . F 3 HOH A 17 417 49 HOH HOH . F 3 HOH A 18 418 44 HOH HOH . F 3 HOH A 19 419 86 HOH HOH . F 3 HOH A 20 420 89 HOH HOH . F 3 HOH A 21 421 120 HOH HOH . F 3 HOH A 22 422 32 HOH HOH . F 3 HOH A 23 423 34 HOH HOH . F 3 HOH A 24 424 93 HOH HOH . F 3 HOH A 25 425 92 HOH HOH . F 3 HOH A 26 426 35 HOH HOH . F 3 HOH A 27 427 88 HOH HOH . F 3 HOH A 28 428 82 HOH HOH . F 3 HOH A 29 429 41 HOH HOH . F 3 HOH A 30 430 21 HOH HOH . F 3 HOH A 31 431 31 HOH HOH . F 3 HOH A 32 432 79 HOH HOH . F 3 HOH A 33 433 36 HOH HOH . F 3 HOH A 34 434 117 HOH HOH . F 3 HOH A 35 435 112 HOH HOH . F 3 HOH A 36 436 60 HOH HOH . F 3 HOH A 37 437 33 HOH HOH . F 3 HOH A 38 438 45 HOH HOH . F 3 HOH A 39 439 133 HOH HOH . F 3 HOH A 40 440 54 HOH HOH . F 3 HOH A 41 441 121 HOH HOH . F 3 HOH A 42 442 84 HOH HOH . F 3 HOH A 43 443 119 HOH HOH . F 3 HOH A 44 444 136 HOH HOH . F 3 HOH A 45 445 105 HOH HOH . F 3 HOH A 46 446 5 HOH HOH . F 3 HOH A 47 447 94 HOH HOH . F 3 HOH A 48 448 48 HOH HOH . F 3 HOH A 49 449 14 HOH HOH . F 3 HOH A 50 450 76 HOH HOH . F 3 HOH A 51 451 55 HOH HOH . F 3 HOH A 52 452 26 HOH HOH . F 3 HOH A 53 453 15 HOH HOH . F 3 HOH A 54 454 63 HOH HOH . F 3 HOH A 55 455 118 HOH HOH . F 3 HOH A 56 456 149 HOH HOH . F 3 HOH A 57 457 99 HOH HOH . F 3 HOH A 58 458 59 HOH HOH . F 3 HOH A 59 459 65 HOH HOH . F 3 HOH A 60 460 101 HOH HOH . F 3 HOH A 61 461 130 HOH HOH . F 3 HOH A 62 462 1 HOH HOH . F 3 HOH A 63 463 66 HOH HOH . F 3 HOH A 64 464 19 HOH HOH . F 3 HOH A 65 465 25 HOH HOH . F 3 HOH A 66 466 68 HOH HOH . F 3 HOH A 67 467 124 HOH HOH . F 3 HOH A 68 468 148 HOH HOH . F 3 HOH A 69 469 147 HOH HOH . F 3 HOH A 70 470 143 HOH HOH . F 3 HOH A 71 471 144 HOH HOH . F 3 HOH A 72 472 146 HOH HOH . F 3 HOH A 73 473 145 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 S S1 CED . . . C 2 11.254 34.413 33.657 1 21.58 ? S1 CED 301 B 1 HETATM 2 C C2 CED . . . C 2 12.802 33.764 34.204 1 21.94 ? C2 CED 301 B 1 HETATM 3 C C3 CED . . . C 2 12.796 32.252 34.267 1 22.08 ? C3 CED 301 B 1 HETATM 4 C C3' CED . . . C 2 14.088 31.541 33.945 1 24.45 ? C3' CED 301 B 1 HETATM 5 C C4 CED . . . C 2 11.694 31.575 34.644 1 20.77 ? C4 CED 301 B 1 HETATM 6 C C4' CED . . . C 2 11.725 30.119 34.833 1 22.61 ? C4' CED 301 B 1 HETATM 7 O O4A CED . . . C 2 12.695 29.462 34.415 1 24.95 ? O4A CED 301 B 1 HETATM 8 O O4B CED . . . C 2 10.762 29.55 35.398 1 20.97 ? O4B CED 301 B 1 HETATM 9 N N5 CED . . . C 2 10.518 32.164 34.895 1 19.12 ? N5 CED 301 B 1 HETATM 10 C C6 CED . . . C 2 10.213 33.591 34.809 1 19.88 ? C6 CED 301 B 1 HETATM 11 C C7 CED . . . C 2 10.214 34.302 36.175 1 19.17 ? C7 CED 301 B 1 HETATM 12 C C8 CED . . . C 2 9.66 33.398 37.241 1 18.39 ? C8 CED 301 B 1 HETATM 13 O O9 CED . . . C 2 10.408 32.683 37.89 1 18.01 ? O9 CED 301 B 1 HETATM 14 N N10 CED . . . C 2 11.495 34.861 36.604 1 20.83 ? N10 CED 301 B 1 HETATM 15 C C11 CED . . . C 2 11.69 36.185 36.578 1 21.57 ? C11 CED 301 B 1 HETATM 16 O O12 CED . . . C 2 10.988 36.943 35.931 1 18.54 ? O12 CED 301 B 1 HETATM 17 C C13 CED . . . C 2 12.918 36.722 37.265 1 24.61 ? C13 CED 301 B 1 HETATM 18 C C14 CED . . . C 2 14.038 36.633 36.262 1 29.39 ? C14 CED 301 B 1 HETATM 19 C C15 CED . . . C 2 14.139 37.087 34.951 1 28.44 ? C15 CED 301 B 1 HETATM 20 C C16 CED . . . C 2 15.338 36.683 34.361 1 33.43 ? C16 CED 301 B 1 HETATM 21 C C17 CED . . . C 2 16.092 35.872 35.2 1 34.13 ? C17 CED 301 B 1 HETATM 22 S S19 CED . . . C 2 15.355 35.621 36.746 1 40.33 ? S19 CED 301 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #