data_3M6H # _model_server_result.job_id KphJxlruRcQKuWxY7AQI_g _model_server_result.datetime_utc '2024-11-06 03:34:02' _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 3m6h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":308}' # _entry.id 3M6H # _exptl.entry_id 3M6H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 477.531 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S,3R,4S)-4-({(3S,5S)-5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl}sulfanyl)-2-[(1S,2R)-1-formyl-2-hydroxypropyl]-3-methyl-3,4-dihydro-2H-pyrrole-5-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 3M6H _cell.length_a 49.934 _cell.length_b 67.83 _cell.length_c 75.201 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3M6H _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 _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 42 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 84 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id CAA _struct_conn.ptnr2_label_comp_id 2RG _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id 2RG _struct_conn.ptnr2_auth_seq_id 308 _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 1.528 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C22 H27 N3 O7 S' _chem_comp.formula_weight 477.531 _chem_comp.id 2RG _chem_comp.mon_nstd_flag . _chem_comp.name '(2S,3R,4S)-4-({(3S,5S)-5-[(3-carboxyphenyl)carbamoyl]pyrrolidin-3-yl}sulfanyl)-2-[(1S,2R)-1-formyl-2-hydroxypropyl]-3-methyl-3,4-dihydro-2H-pyrrole-5-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ERTAPENEM, bound form POST-ISOMERIZED' # 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 2RG doub 1 n n CA C 2RG sing 2 n n C NAX 2RG sing 3 n n N CD 2RG sing 4 n n N CA 2RG sing 5 n n N HN 2RG sing 6 n n CA CB 2RG sing 7 n n CA HA 2RG sing 8 n n CG CB 2RG sing 9 n n CB HB 2RG sing 10 n n CB HBA 2RG sing 11 n n CD CG 2RG sing 12 n n CD HD 2RG sing 13 n n CD HDA 2RG sing 14 n n CG SAK 2RG sing 15 n n CG HG 2RG sing 16 n n OAC CAA 2RG doub 17 n n CAB CAA 2RG sing 18 n n CAA HAA 2RG sing 19 n n CAB CAD 2RG sing 20 n n CAB CAE 2RG sing 21 n n CAB HAB 2RG sing 22 n n CAH CAD 2RG sing 23 n n CAD NAJ 2RG sing 24 n n CAD HAD 2RG sing 25 n n CAF CAE 2RG sing 26 n n CAE OAG 2RG sing 27 n n CAE HAE 2RG sing 28 n n CAF HAF 2RG sing 29 n n CAF HAFA 2RG sing 30 n n CAF HAFB 2RG sing 31 n n OAG HOAG 2RG sing 32 n n CAS CAH 2RG sing 33 n n CAH CAI 2RG sing 34 n n CAH HAH 2RG sing 35 n n CAI CAL 2RG sing 36 n n CAI SAK 2RG sing 37 n n CAI HAI 2RG sing 38 n n CAL NAJ 2RG doub 39 n n CAM CAL 2RG sing 40 n n OAU CAM 2RG doub 41 n n CAM OAT 2RG sing 42 n n CAS HAS 2RG sing 43 n n CAS HASA 2RG sing 44 n n CAS HASB 2RG sing 45 n n OAT HOAT 2RG sing 46 n n NAX CAY 2RG sing 47 n n NAX HNAX 2RG sing 48 n n CAY CAZ 2RG doub 49 n y CAY CBD 2RG sing 50 n y CAZ CBA 2RG sing 51 n y CAZ HAZ 2RG sing 52 n n CBA CBE 2RG sing 53 n n CBA CBB 2RG doub 54 n y CBC CBB 2RG sing 55 n y CBB HBB 2RG sing 56 n n CBD CBC 2RG doub 57 n y CBC HBC 2RG sing 58 n n CBD HBD 2RG sing 59 n n OBF CBE 2RG doub 60 n n CBE OBG 2RG sing 61 n n OBG HOBG 2RG sing 62 n n # _atom_sites.entry_id 3M6H _atom_sites.fract_transf_matrix[1][1] 0.020026 _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] 0.014743 _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] 0.013298 _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 PO4 A 1 1 1 PO4 PO4 . C 2 PO4 A 1 2 2 PO4 PO4 . D 3 2RG A 1 308 1 2RG 2RG . E 4 HOH A 1 3 3 HOH HOH . E 4 HOH A 2 4 4 HOH HOH . E 4 HOH A 3 5 5 HOH HOH . E 4 HOH A 4 6 6 HOH HOH . E 4 HOH A 5 7 7 HOH HOH . E 4 HOH A 6 8 8 HOH HOH . E 4 HOH A 7 9 9 HOH HOH . E 4 HOH A 8 10 10 HOH HOH . E 4 HOH A 9 11 11 HOH HOH . E 4 HOH A 10 12 12 HOH HOH . E 4 HOH A 11 13 13 HOH HOH . E 4 HOH A 12 14 14 HOH HOH . E 4 HOH A 13 15 15 HOH HOH . E 4 HOH A 14 16 16 HOH HOH . E 4 HOH A 15 17 17 HOH HOH . E 4 HOH A 16 18 18 HOH HOH . E 4 HOH A 17 19 19 HOH HOH . E 4 HOH A 18 20 20 HOH HOH . E 4 HOH A 19 21 21 HOH HOH . E 4 HOH A 20 22 22 HOH HOH . E 4 HOH A 21 23 23 HOH HOH . E 4 HOH A 22 24 24 HOH HOH . E 4 HOH A 23 25 25 HOH HOH . E 4 HOH A 24 26 26 HOH HOH . E 4 HOH A 25 27 27 HOH HOH . E 4 HOH A 26 28 28 HOH HOH . E 4 HOH A 27 29 29 HOH HOH . E 4 HOH A 28 30 30 HOH HOH . E 4 HOH A 29 31 31 HOH HOH . E 4 HOH A 30 32 32 HOH HOH . E 4 HOH A 31 33 33 HOH HOH . E 4 HOH A 32 34 34 HOH HOH . E 4 HOH A 33 35 35 HOH HOH . E 4 HOH A 34 36 36 HOH HOH . E 4 HOH A 35 37 37 HOH HOH . E 4 HOH A 36 38 38 HOH HOH . E 4 HOH A 37 39 39 HOH HOH . E 4 HOH A 38 40 40 HOH HOH . E 4 HOH A 39 41 41 HOH HOH . E 4 HOH A 40 42 42 HOH HOH . E 4 HOH A 41 309 1 HOH HOH . E 4 HOH A 42 310 2 HOH HOH . E 4 HOH A 43 311 43 HOH HOH . E 4 HOH A 44 312 44 HOH HOH . E 4 HOH A 45 313 45 HOH HOH . E 4 HOH A 46 314 46 HOH HOH . E 4 HOH A 47 315 47 HOH HOH . E 4 HOH A 48 316 48 HOH HOH . E 4 HOH A 49 317 49 HOH HOH . E 4 HOH A 50 318 50 HOH HOH . E 4 HOH A 51 319 51 HOH HOH . E 4 HOH A 52 320 52 HOH HOH . E 4 HOH A 53 321 53 HOH HOH . E 4 HOH A 54 322 54 HOH HOH . E 4 HOH A 55 323 55 HOH HOH . E 4 HOH A 56 324 56 HOH HOH . E 4 HOH A 57 325 57 HOH HOH . E 4 HOH A 58 326 58 HOH HOH . E 4 HOH A 59 327 59 HOH HOH . E 4 HOH A 60 328 60 HOH HOH . E 4 HOH A 61 329 61 HOH HOH . E 4 HOH A 62 330 62 HOH HOH . E 4 HOH A 63 331 63 HOH HOH . E 4 HOH A 64 332 64 HOH HOH . E 4 HOH A 65 333 65 HOH HOH . E 4 HOH A 66 334 66 HOH HOH . E 4 HOH A 67 335 67 HOH HOH . E 4 HOH A 68 336 68 HOH HOH . E 4 HOH A 69 337 69 HOH HOH . E 4 HOH A 70 338 70 HOH HOH . E 4 HOH A 71 339 71 HOH HOH . E 4 HOH A 72 340 72 HOH HOH . E 4 HOH A 73 341 73 HOH HOH . E 4 HOH A 74 342 74 HOH HOH . E 4 HOH A 75 343 75 HOH HOH . E 4 HOH A 76 344 76 HOH HOH . E 4 HOH A 77 345 77 HOH HOH . E 4 HOH A 78 346 78 HOH HOH . E 4 HOH A 79 347 79 HOH HOH . E 4 HOH A 80 348 80 HOH HOH . E 4 HOH A 81 349 81 HOH HOH . E 4 HOH A 82 350 82 HOH HOH . E 4 HOH A 83 351 83 HOH HOH . E 4 HOH A 84 352 84 HOH HOH . E 4 HOH A 85 353 85 HOH HOH . E 4 HOH A 86 354 86 HOH HOH . E 4 HOH A 87 355 87 HOH HOH . E 4 HOH A 88 356 88 HOH HOH . E 4 HOH A 89 357 89 HOH HOH . E 4 HOH A 90 358 90 HOH HOH . E 4 HOH A 91 359 91 HOH HOH . E 4 HOH A 92 360 92 HOH HOH . E 4 HOH A 93 361 93 HOH HOH . E 4 HOH A 94 362 94 HOH HOH . E 4 HOH A 95 363 95 HOH HOH . E 4 HOH A 96 364 96 HOH HOH . E 4 HOH A 97 365 97 HOH HOH . E 4 HOH A 98 366 98 HOH HOH . E 4 HOH A 99 367 99 HOH HOH . E 4 HOH A 100 368 100 HOH HOH . E 4 HOH A 101 369 101 HOH HOH . E 4 HOH A 102 370 102 HOH HOH . E 4 HOH A 103 371 103 HOH HOH . E 4 HOH A 104 372 104 HOH HOH . E 4 HOH A 105 373 105 HOH HOH . E 4 HOH A 106 374 106 HOH HOH . E 4 HOH A 107 375 107 HOH HOH . E 4 HOH A 108 376 108 HOH HOH . E 4 HOH A 109 377 109 HOH HOH . E 4 HOH A 110 378 110 HOH HOH . E 4 HOH A 111 379 111 HOH HOH . E 4 HOH A 112 380 112 HOH HOH . E 4 HOH A 113 381 113 HOH HOH . E 4 HOH A 114 382 114 HOH HOH . E 4 HOH A 115 383 115 HOH HOH . E 4 HOH A 116 384 116 HOH HOH . E 4 HOH A 117 385 117 HOH HOH . E 4 HOH A 118 386 118 HOH HOH . E 4 HOH A 119 387 119 HOH HOH . E 4 HOH A 120 388 120 HOH HOH . E 4 HOH A 121 389 121 HOH HOH . E 4 HOH A 122 390 122 HOH HOH . E 4 HOH A 123 391 123 HOH HOH . E 4 HOH A 124 392 124 HOH HOH . E 4 HOH A 125 393 125 HOH HOH . E 4 HOH A 126 394 126 HOH HOH . E 4 HOH A 127 395 127 HOH HOH . E 4 HOH A 128 396 128 HOH HOH . E 4 HOH A 129 397 129 HOH HOH . E 4 HOH A 130 398 130 HOH HOH . E 4 HOH A 131 399 131 HOH HOH . E 4 HOH A 132 400 132 HOH HOH . E 4 HOH A 133 401 133 HOH HOH . E 4 HOH A 134 402 134 HOH HOH . E 4 HOH A 135 403 135 HOH HOH . E 4 HOH A 136 404 136 HOH HOH . E 4 HOH A 137 405 137 HOH HOH . E 4 HOH A 138 406 138 HOH HOH . E 4 HOH A 139 407 139 HOH HOH . E 4 HOH A 140 408 140 HOH HOH . E 4 HOH A 141 409 141 HOH HOH . E 4 HOH A 142 410 142 HOH HOH . E 4 HOH A 143 411 143 HOH HOH . E 4 HOH A 144 412 144 HOH HOH . E 4 HOH A 145 413 145 HOH HOH . E 4 HOH A 146 414 146 HOH HOH . E 4 HOH A 147 415 147 HOH HOH . E 4 HOH A 148 416 148 HOH HOH . E 4 HOH A 149 417 149 HOH HOH . E 4 HOH A 150 418 150 HOH HOH . E 4 HOH A 151 419 151 HOH HOH . E 4 HOH A 152 420 152 HOH HOH . E 4 HOH A 153 421 153 HOH HOH . E 4 HOH A 154 422 154 HOH HOH . E 4 HOH A 155 423 155 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 2RG . . . D 3 -2.759 -8.339 3.565 1 20.74 ? C 2RG 308 A 1 HETATM 2 N N 2RG . . . D 3 -4.882 -7.591 2.405 1 21.49 ? N 2RG 308 A 1 HETATM 3 O O 2RG . . . D 3 -2.704 -9.351 2.855 1 20.89 ? O 2RG 308 A 1 HETATM 4 C CA 2RG . . . D 3 -3.831 -7.214 3.367 1 21.23 ? CA 2RG 308 A 1 HETATM 5 C CB 2RG . . . D 3 -4.56 -6.918 4.692 1 21.31 ? CB 2RG 308 A 1 HETATM 6 C CD 2RG . . . D 3 -6.056 -6.833 2.859 1 20.96 ? CD 2RG 308 A 1 HETATM 7 C CG 2RG . . . D 3 -6.043 -7.082 4.359 1 21.18 ? CG 2RG 308 A 1 HETATM 8 C CAA 2RG . . . D 3 -11.766 -11.43 5.194 1 6.94 ? CAA 2RG 308 A 1 HETATM 9 C CAB 2RG . . . D 3 -10.443 -11.888 4.598 1 10.48 ? CAB 2RG 308 A 1 HETATM 10 O OAC 2RG . . . D 3 -12.557 -10.591 4.361 1 4.34 ? OAC 2RG 308 A 1 HETATM 11 C CAD 2RG . . . D 3 -9.365 -10.808 4.848 1 12.71 ? CAD 2RG 308 A 1 HETATM 12 C CAE 2RG . . . D 3 -10.154 -13.24 5.263 1 11.24 ? CAE 2RG 308 A 1 HETATM 13 C CAF 2RG . . . D 3 -8.817 -13.871 4.868 1 8.4 ? CAF 2RG 308 A 1 HETATM 14 O OAG 2RG . . . D 3 -10.261 -13.107 6.697 1 11.96 ? OAG 2RG 308 A 1 HETATM 15 C CAH 2RG . . . D 3 -8.397 -10.592 3.655 1 12.41 ? CAH 2RG 308 A 1 HETATM 16 C CAI 2RG . . . D 3 -8.096 -9.083 3.739 1 14.51 ? CAI 2RG 308 A 1 HETATM 17 N NAJ 2RG . . . D 3 -10.053 -9.51 5.047 1 13.31 ? NAJ 2RG 308 A 1 HETATM 18 S SAK 2RG . . . D 3 -6.623 -8.777 4.803 1 17.74 ? SAK 2RG 308 A 1 HETATM 19 C CAL 2RG . . . D 3 -9.375 -8.564 4.407 1 14.57 ? CAL 2RG 308 A 1 HETATM 20 C CAM 2RG . . . D 3 -9.896 -7.139 4.354 1 15.36 ? CAM 2RG 308 A 1 HETATM 21 C CAS 2RG . . . D 3 -9.002 -10.993 2.309 1 10.19 ? CAS 2RG 308 A 1 HETATM 22 O OAT 2RG . . . D 3 -10.966 -6.904 4.942 1 15.24 ? OAT 2RG 308 A 1 HETATM 23 O OAU 2RG . . . D 3 -9.236 -6.284 3.747 1 17.45 ? OAU 2RG 308 A 1 HETATM 24 N NAX 2RG . . . D 3 -1.907 -8.051 4.554 1 19.8 ? NAX 2RG 308 A 1 HETATM 25 C CAY 2RG . . . D 3 -0.875 -8.77 5.005 1 19.06 ? CAY 2RG 308 A 1 HETATM 26 C CAZ 2RG . . . D 3 -0.951 -10.158 5.202 1 17.5 ? CAZ 2RG 308 A 1 HETATM 27 C CBA 2RG . . . D 3 0.153 -10.839 5.714 1 15.78 ? CBA 2RG 308 A 1 HETATM 28 C CBB 2RG . . . D 3 1.314 -10.143 6.044 1 17.14 ? CBB 2RG 308 A 1 HETATM 29 C CBC 2RG . . . D 3 1.398 -8.768 5.854 1 18.47 ? CBC 2RG 308 A 1 HETATM 30 C CBD 2RG . . . D 3 0.291 -8.084 5.348 1 17.99 ? CBD 2RG 308 A 1 HETATM 31 C CBE 2RG . . . D 3 0.103 -12.347 5.943 1 15.11 ? CBE 2RG 308 A 1 HETATM 32 O OBF 2RG . . . D 3 -0.937 -12.958 5.666 1 13.65 ? OBF 2RG 308 A 1 HETATM 33 O OBG 2RG . . . D 3 1.11 -12.89 6.411 1 12.51 ? OBG 2RG 308 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 33 #