data_6PT5 # _model_server_result.job_id gW7bUVFvpkSg5pzJ10OgoQ _model_server_result.datetime_utc '2024-11-28 04:10:02' _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 6pt5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":302}' # _entry.id 6PT5 # _exptl.entry_id 6PT5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 368.428 _entity.id 3 _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.06 _cell.angle_gamma 90 _cell.entry_id 6PT5 _cell.length_a 60.246 _cell.length_b 107.115 _cell.length_c 96.105 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PT5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,K 1 1 B,G,H,L 2 1 C,I,M 3 1 D,J,N 4 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 ? 3 F N N ? 3 H N N ? 3 I N N ? 3 J 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 covale ? covale1 A OG SER 68 A SER 70 1_555 F C14 1S7 . A 1S7 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? covale ? covale2 B OG SER 68 B SER 70 1_555 H C14 1S7 . B 1S7 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale3 B NH1 ARG 248 B ARG 250 1_555 H O6 1S7 . B 1S7 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.304 ? covale ? covale4 C OG SER 68 C SER 70 1_555 I C14 1S7 . C 1S7 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 ? covale ? covale5 C NH1 ARG 248 C ARG 250 1_555 I O6 1S7 . C 1S7 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.304 ? covale ? covale6 D OG SER 68 D SER 70 1_555 J C14 1S7 . D 1S7 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? # _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 6PT5 _atom_sites.fract_transf_matrix[1][1] 0.016599 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004158 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009336 _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] 0.010727 _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 2 CL A 1 301 2 CL CL . F 3 1S7 A 1 302 4 1S7 1S7 . G 2 CL B 1 301 1 CL CL . H 3 1S7 B 1 302 8 1S7 1S7 . I 3 1S7 C 1 301 9 1S7 1S7 . J 3 1S7 D 1 301 7 1S7 1S7 . K 4 HOH A 1 401 183 HOH HOH . K 4 HOH A 2 402 94 HOH HOH . K 4 HOH A 3 403 64 HOH HOH . K 4 HOH A 4 404 133 HOH HOH . K 4 HOH A 5 405 54 HOH HOH . K 4 HOH A 6 406 68 HOH HOH . K 4 HOH A 7 407 63 HOH HOH . K 4 HOH A 8 408 187 HOH HOH . K 4 HOH A 9 409 13 HOH HOH . K 4 HOH A 10 410 10 HOH HOH . K 4 HOH A 11 411 15 HOH HOH . K 4 HOH A 12 412 3 HOH HOH . K 4 HOH A 13 413 188 HOH HOH . K 4 HOH A 14 414 207 HOH HOH . K 4 HOH A 15 415 100 HOH HOH . K 4 HOH A 16 416 69 HOH HOH . K 4 HOH A 17 417 72 HOH HOH . K 4 HOH A 18 418 39 HOH HOH . K 4 HOH A 19 419 114 HOH HOH . K 4 HOH A 20 420 79 HOH HOH . K 4 HOH A 21 421 103 HOH HOH . K 4 HOH A 22 422 211 HOH HOH . K 4 HOH A 23 423 109 HOH HOH . K 4 HOH A 24 424 59 HOH HOH . K 4 HOH A 25 425 131 HOH HOH . K 4 HOH A 26 426 162 HOH HOH . K 4 HOH A 27 427 108 HOH HOH . K 4 HOH A 28 428 16 HOH HOH . K 4 HOH A 29 429 186 HOH HOH . K 4 HOH A 30 430 174 HOH HOH . K 4 HOH A 31 431 159 HOH HOH . K 4 HOH A 32 432 185 HOH HOH . K 4 HOH A 33 433 168 HOH HOH . K 4 HOH A 34 434 77 HOH HOH . K 4 HOH A 35 435 113 HOH HOH . K 4 HOH A 36 436 153 HOH HOH . K 4 HOH A 37 437 92 HOH HOH . L 4 HOH B 1 401 172 HOH HOH . L 4 HOH B 2 402 191 HOH HOH . L 4 HOH B 3 403 11 HOH HOH . L 4 HOH B 4 404 53 HOH HOH . L 4 HOH B 5 405 195 HOH HOH . L 4 HOH B 6 406 194 HOH HOH . L 4 HOH B 7 407 150 HOH HOH . L 4 HOH B 8 408 209 HOH HOH . L 4 HOH B 9 409 198 HOH HOH . L 4 HOH B 10 410 167 HOH HOH . L 4 HOH B 11 411 124 HOH HOH . L 4 HOH B 12 412 118 HOH HOH . L 4 HOH B 13 413 71 HOH HOH . L 4 HOH B 14 414 5 HOH HOH . L 4 HOH B 15 415 110 HOH HOH . L 4 HOH B 16 416 144 HOH HOH . L 4 HOH B 17 417 116 HOH HOH . L 4 HOH B 18 418 102 HOH HOH . L 4 HOH B 19 419 142 HOH HOH . L 4 HOH B 20 420 200 HOH HOH . L 4 HOH B 21 421 98 HOH HOH . L 4 HOH B 22 422 151 HOH HOH . L 4 HOH B 23 423 212 HOH HOH . L 4 HOH B 24 424 30 HOH HOH . L 4 HOH B 25 425 201 HOH HOH . L 4 HOH B 26 426 175 HOH HOH . L 4 HOH B 27 427 138 HOH HOH . L 4 HOH B 28 428 161 HOH HOH . L 4 HOH B 29 429 104 HOH HOH . L 4 HOH B 30 430 87 HOH HOH . L 4 HOH B 31 431 106 HOH HOH . L 4 HOH B 32 432 117 HOH HOH . L 4 HOH B 33 433 210 HOH HOH . L 4 HOH B 34 434 193 HOH HOH . M 4 HOH C 1 401 55 HOH HOH . M 4 HOH C 2 402 154 HOH HOH . M 4 HOH C 3 403 34 HOH HOH . M 4 HOH C 4 404 180 HOH HOH . M 4 HOH C 5 405 99 HOH HOH . M 4 HOH C 6 406 115 HOH HOH . M 4 HOH C 7 407 126 HOH HOH . M 4 HOH C 8 408 52 HOH HOH . M 4 HOH C 9 409 45 HOH HOH . M 4 HOH C 10 410 76 HOH HOH . M 4 HOH C 11 411 83 HOH HOH . M 4 HOH C 12 412 19 HOH HOH . M 4 HOH C 13 413 166 HOH HOH . M 4 HOH C 14 414 196 HOH HOH . M 4 HOH C 15 415 28 HOH HOH . M 4 HOH C 16 416 163 HOH HOH . M 4 HOH C 17 417 74 HOH HOH . M 4 HOH C 18 418 160 HOH HOH . M 4 HOH C 19 419 56 HOH HOH . M 4 HOH C 20 420 14 HOH HOH . M 4 HOH C 21 421 86 HOH HOH . M 4 HOH C 22 422 120 HOH HOH . M 4 HOH C 23 423 176 HOH HOH . M 4 HOH C 24 424 38 HOH HOH . M 4 HOH C 25 425 123 HOH HOH . M 4 HOH C 26 426 189 HOH HOH . M 4 HOH C 27 427 112 HOH HOH . M 4 HOH C 28 428 81 HOH HOH . M 4 HOH C 29 429 31 HOH HOH . M 4 HOH C 30 430 135 HOH HOH . M 4 HOH C 31 431 164 HOH HOH . N 4 HOH D 1 401 181 HOH HOH . N 4 HOH D 2 402 205 HOH HOH . N 4 HOH D 3 403 140 HOH HOH . N 4 HOH D 4 404 192 HOH HOH . N 4 HOH D 5 405 146 HOH HOH . N 4 HOH D 6 406 62 HOH HOH . N 4 HOH D 7 407 6 HOH HOH . N 4 HOH D 8 408 158 HOH HOH . N 4 HOH D 9 409 137 HOH HOH . N 4 HOH D 10 410 57 HOH HOH . N 4 HOH D 11 411 73 HOH HOH . N 4 HOH D 12 412 139 HOH HOH . N 4 HOH D 13 413 90 HOH HOH . N 4 HOH D 14 414 199 HOH HOH . N 4 HOH D 15 415 41 HOH HOH . N 4 HOH D 16 416 202 HOH HOH . N 4 HOH D 17 417 197 HOH HOH . N 4 HOH D 18 418 203 HOH HOH . N 4 HOH D 19 419 129 HOH HOH . N 4 HOH D 20 420 177 HOH HOH . N 4 HOH D 21 421 173 HOH HOH . N 4 HOH D 22 422 24 HOH HOH . N 4 HOH D 23 423 37 HOH HOH . N 4 HOH D 24 424 66 HOH HOH . N 4 HOH D 25 425 27 HOH HOH . N 4 HOH D 26 426 97 HOH HOH . N 4 HOH D 27 427 204 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 . . . F 3 14.368 17.077 45.769 0.84 48.6 ? C 1S7 302 A 1 HETATM 2 N N 1S7 . . . F 3 12.268 16.61 43.681 0.84 49.12 ? N 1S7 302 A 1 HETATM 3 O O 1S7 . . . F 3 12.962 16.899 45.915 0.84 51.84 ? O 1S7 302 A 1 HETATM 4 S S 1S7 . . . F 3 15.228 18.669 41.537 0.84 62.24 ? S 1S7 302 A 1 HETATM 5 C C1 1S7 . . . F 3 12.315 16.016 45.013 0.84 49.91 ? C1 1S7 302 A 1 HETATM 6 O O1 1S7 . . . F 3 11.829 18.778 44.195 0.84 55.92 ? O1 1S7 302 A 1 HETATM 7 S S1 1S7 . . . F 3 9.75 17.03 45.387 0.84 53.84 ? S1 1S7 302 A 1 HETATM 8 C C2 1S7 . . . F 3 12.167 17.912 43.392 0.84 51.6 ? C2 1S7 302 A 1 HETATM 9 N N2 1S7 . . . F 3 10.559 14.562 44.584 0.84 51.16 ? N2 1S7 302 A 1 HETATM 10 C C3 1S7 . . . F 3 12.538 18.307 41.991 0.84 52.9 ? C3 1S7 302 A 1 HETATM 11 C C4 1S7 . . . F 3 13.697 19.261 42.084 0.84 58.68 ? C4 1S7 302 A 1 HETATM 12 O O4 1S7 . . . F 3 13.34 14.156 43.949 0.84 43.49 ? O4 1S7 302 A 1 HETATM 13 C C5 1S7 . . . F 3 13.823 20.562 42.568 0.84 52.72 ? C5 1S7 302 A 1 HETATM 14 O O5 1S7 . . . F 3 8.67 12.419 42.82 0.84 58.11 ? O5 1S7 302 A 1 HETATM 15 C C6 1S7 . . . F 3 15.129 21.052 42.468 0.84 61.82 ? C6 1S7 302 A 1 HETATM 16 O O6 1S7 . . . F 3 10.013 11.841 44.453 0.84 56.39 -1 O6 1S7 302 A 1 HETATM 17 C C7 1S7 . . . F 3 16.04 20.147 41.926 0.84 60.91 ? C7 1S7 302 A 1 HETATM 18 C C8 1S7 . . . F 3 10.919 15.635 45.487 0.84 50.21 ? C8 1S7 302 A 1 HETATM 19 C C9 1S7 . . . F 3 8.244 16.037 45.595 0.84 56.12 ? C9 1S7 302 A 1 HETATM 20 C C10 1S7 . . . F 3 8.208 14.955 44.548 0.84 58.18 ? C10 1S7 302 A 1 HETATM 21 C C11 1S7 . . . F 3 7.12 14.777 43.821 0.84 61.38 ? C11 1S7 302 A 1 HETATM 22 C C13 1S7 . . . F 3 9.387 14.12 44.347 0.84 53.12 ? C13 1S7 302 A 1 HETATM 23 C C14 1S7 . . . F 3 13.122 14.743 44.987 0.84 49.31 ? C14 1S7 302 A 1 HETATM 24 C C15 1S7 . . . F 3 9.343 12.696 43.835 0.84 54.26 ? C15 1S7 302 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 24 #