data_7KHY # _model_server_result.job_id QP0IG1gj2VAKIrOAlM_6FA _model_server_result.datetime_utc '2024-11-24 23:24:28' _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 7khy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7KHY # _exptl.entry_id 7KHY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 385.478 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4R,5S)-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-5-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-4-methyl-4,5-d ihydro-1H-pyrrole-2-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 7KHY _cell.length_a 44.33 _cell.length_b 87.8 _cell.length_c 124.95 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KHY _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 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 49 A SER 70 1_555 B C1 MER . A MER 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.486 ? metalc ? metalc1 A NE2 HIS 17 A HIS 38 1_555 F ZN ZN . A ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? metalc ? metalc2 A NE2 HIS 17 A HIS 38 1_555 G ZN ZN . A ZN 306 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc3 A NE2 HIS 161 A HIS 182 1_555 F ZN ZN . A ZN 305 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc4 A NE2 HIS 161 A HIS 182 1_555 G ZN ZN . A ZN 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc5 A OE1 GLU 231 A GLU 252 1_555 F ZN ZN . A ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc6 A OE2 GLU 231 A GLU 252 1_555 F ZN ZN . A ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc7 A OE2 GLU 231 A GLU 252 1_555 G ZN ZN . A ZN 306 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc8 G ZN ZN . A ZN 306 1_555 H O HOH . A HOH 535 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? # _chem_comp.formula 'C17 H27 N3 O5 S' _chem_comp.formula_weight 385.478 _chem_comp.id MER _chem_comp.mon_nstd_flag . _chem_comp.name '(4R,5S)-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-5-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-4-methyl-4,5-d ihydro-1H-pyrrole-2-carboxylic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Meropenem, 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 C1 O6 MER doub 205 n n C1 C3 MER sing 206 n n C1 H1 MER sing 207 n n C5 C2 MER doub 208 n n C2 C18 MER sing 209 n n C2 S14 MER sing 210 n n C4 C3 MER sing 211 n n C3 C7 MER sing 212 n n C3 H3 MER sing 213 n n N10 C4 MER sing 214 n n C4 C18 MER sing 215 n n C4 H4 MER sing 216 n n C11 C5 MER sing 217 n n N10 C5 MER sing 218 n n O8 C7 MER sing 219 n n C7 C9 MER sing 220 n n C7 H7 MER sing 221 n n O8 HO8 MER sing 222 n n C9 H9 MER sing 223 n n C9 H9A MER sing 224 n n C9 H9B MER sing 225 n n N10 HN10 MER sing 226 n n O13 C11 MER doub 227 n n C11 O12 MER sing 228 n n O12 HO12 MER sing 229 n n S14 C15 MER sing 230 n n C16 C15 MER sing 231 n n C15 C21 MER sing 232 n n C15 H15 MER sing 233 n n C16 C17 MER sing 234 n n C16 H16 MER sing 235 n n C16 H16A MER sing 236 n n C22 C17 MER sing 237 n n C17 N19 MER sing 238 n n C17 H17 MER sing 239 n n C18 C20 MER sing 240 n n C18 H18 MER sing 241 n n N19 C21 MER sing 242 n n N19 HN19 MER sing 243 n n C20 H20 MER sing 244 n n C20 H20A MER sing 245 n n C20 H20B MER sing 246 n n C21 H21 MER sing 247 n n C21 H21A MER sing 248 n n N23 C22 MER sing 249 n n O24 C22 MER doub 250 n n C25 N23 MER sing 251 n n N23 C26 MER sing 252 n n C25 H25 MER sing 253 n n C25 H25A MER sing 254 n n C25 H25B MER sing 255 n n C26 H26 MER sing 256 n n C26 H26A MER sing 257 n n C26 H26B MER sing 258 n n # _atom_sites.entry_id 7KHY _atom_sites.fract_transf_matrix[1][1] 0.022558 _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] 0.01139 _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] 0.008003 _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 MER A 1 301 301 MER MER . C 3 MPD A 1 302 1 MPD MPD . D 4 CL A 1 303 1 CL CL . E 4 CL A 1 304 2 CL CL . F 5 ZN A 1 305 1 ZN ZN . G 5 ZN A 1 306 2 ZN ZN . H 6 HOH A 1 401 22 HOH HOH . H 6 HOH A 2 402 60 HOH HOH . H 6 HOH A 3 403 150 HOH HOH . H 6 HOH A 4 404 10 HOH HOH . H 6 HOH A 5 405 82 HOH HOH . H 6 HOH A 6 406 142 HOH HOH . H 6 HOH A 7 407 94 HOH HOH . H 6 HOH A 8 408 66 HOH HOH . H 6 HOH A 9 409 63 HOH HOH . H 6 HOH A 10 410 42 HOH HOH . H 6 HOH A 11 411 8 HOH HOH . H 6 HOH A 12 412 73 HOH HOH . H 6 HOH A 13 413 40 HOH HOH . H 6 HOH A 14 414 25 HOH HOH . H 6 HOH A 15 415 110 HOH HOH . H 6 HOH A 16 416 147 HOH HOH . H 6 HOH A 17 417 91 HOH HOH . H 6 HOH A 18 418 32 HOH HOH . H 6 HOH A 19 419 90 HOH HOH . H 6 HOH A 20 420 130 HOH HOH . H 6 HOH A 21 421 4 HOH HOH . H 6 HOH A 22 422 149 HOH HOH . H 6 HOH A 23 423 50 HOH HOH . H 6 HOH A 24 424 15 HOH HOH . H 6 HOH A 25 425 16 HOH HOH . H 6 HOH A 26 426 120 HOH HOH . H 6 HOH A 27 427 128 HOH HOH . H 6 HOH A 28 428 30 HOH HOH . H 6 HOH A 29 429 19 HOH HOH . H 6 HOH A 30 430 55 HOH HOH . H 6 HOH A 31 431 127 HOH HOH . H 6 HOH A 32 432 101 HOH HOH . H 6 HOH A 33 433 64 HOH HOH . H 6 HOH A 34 434 3 HOH HOH . H 6 HOH A 35 435 35 HOH HOH . H 6 HOH A 36 436 61 HOH HOH . H 6 HOH A 37 437 20 HOH HOH . H 6 HOH A 38 438 31 HOH HOH . H 6 HOH A 39 439 21 HOH HOH . H 6 HOH A 40 440 33 HOH HOH . H 6 HOH A 41 441 52 HOH HOH . H 6 HOH A 42 442 68 HOH HOH . H 6 HOH A 43 443 98 HOH HOH . H 6 HOH A 44 444 29 HOH HOH . H 6 HOH A 45 445 6 HOH HOH . H 6 HOH A 46 446 1 HOH HOH . H 6 HOH A 47 447 122 HOH HOH . H 6 HOH A 48 448 44 HOH HOH . H 6 HOH A 49 449 28 HOH HOH . H 6 HOH A 50 450 2 HOH HOH . H 6 HOH A 51 451 45 HOH HOH . H 6 HOH A 52 452 51 HOH HOH . H 6 HOH A 53 453 87 HOH HOH . H 6 HOH A 54 454 54 HOH HOH . H 6 HOH A 55 455 65 HOH HOH . H 6 HOH A 56 456 144 HOH HOH . H 6 HOH A 57 457 39 HOH HOH . H 6 HOH A 58 458 34 HOH HOH . H 6 HOH A 59 459 57 HOH HOH . H 6 HOH A 60 460 46 HOH HOH . H 6 HOH A 61 461 7 HOH HOH . H 6 HOH A 62 462 78 HOH HOH . H 6 HOH A 63 463 69 HOH HOH . H 6 HOH A 64 464 56 HOH HOH . H 6 HOH A 65 465 13 HOH HOH . H 6 HOH A 66 466 49 HOH HOH . H 6 HOH A 67 467 17 HOH HOH . H 6 HOH A 68 468 14 HOH HOH . H 6 HOH A 69 469 96 HOH HOH . H 6 HOH A 70 470 18 HOH HOH . H 6 HOH A 71 471 86 HOH HOH . H 6 HOH A 72 472 48 HOH HOH . H 6 HOH A 73 473 12 HOH HOH . H 6 HOH A 74 474 11 HOH HOH . H 6 HOH A 75 475 135 HOH HOH . H 6 HOH A 76 476 27 HOH HOH . H 6 HOH A 77 477 106 HOH HOH . H 6 HOH A 78 478 119 HOH HOH . H 6 HOH A 79 479 53 HOH HOH . H 6 HOH A 80 480 105 HOH HOH . H 6 HOH A 81 481 88 HOH HOH . H 6 HOH A 82 482 102 HOH HOH . H 6 HOH A 83 483 62 HOH HOH . H 6 HOH A 84 484 9 HOH HOH . H 6 HOH A 85 485 114 HOH HOH . H 6 HOH A 86 486 100 HOH HOH . H 6 HOH A 87 487 80 HOH HOH . H 6 HOH A 88 488 72 HOH HOH . H 6 HOH A 89 489 77 HOH HOH . H 6 HOH A 90 490 75 HOH HOH . H 6 HOH A 91 491 26 HOH HOH . H 6 HOH A 92 492 93 HOH HOH . H 6 HOH A 93 493 126 HOH HOH . H 6 HOH A 94 494 131 HOH HOH . H 6 HOH A 95 495 115 HOH HOH . H 6 HOH A 96 496 104 HOH HOH . H 6 HOH A 97 497 70 HOH HOH . H 6 HOH A 98 498 112 HOH HOH . H 6 HOH A 99 499 134 HOH HOH . H 6 HOH A 100 500 37 HOH HOH . H 6 HOH A 101 501 76 HOH HOH . H 6 HOH A 102 502 138 HOH HOH . H 6 HOH A 103 503 99 HOH HOH . H 6 HOH A 104 504 71 HOH HOH . H 6 HOH A 105 505 133 HOH HOH . H 6 HOH A 106 506 89 HOH HOH . H 6 HOH A 107 507 5 HOH HOH . H 6 HOH A 108 508 79 HOH HOH . H 6 HOH A 109 509 146 HOH HOH . H 6 HOH A 110 510 67 HOH HOH . H 6 HOH A 111 511 95 HOH HOH . H 6 HOH A 112 512 23 HOH HOH . H 6 HOH A 113 513 41 HOH HOH . H 6 HOH A 114 514 38 HOH HOH . H 6 HOH A 115 515 97 HOH HOH . H 6 HOH A 116 516 47 HOH HOH . H 6 HOH A 117 517 143 HOH HOH . H 6 HOH A 118 518 118 HOH HOH . H 6 HOH A 119 519 92 HOH HOH . H 6 HOH A 120 520 141 HOH HOH . H 6 HOH A 121 521 121 HOH HOH . H 6 HOH A 122 522 108 HOH HOH . H 6 HOH A 123 523 125 HOH HOH . H 6 HOH A 124 524 129 HOH HOH . H 6 HOH A 125 525 24 HOH HOH . H 6 HOH A 126 526 116 HOH HOH . H 6 HOH A 127 527 74 HOH HOH . H 6 HOH A 128 528 103 HOH HOH . H 6 HOH A 129 529 83 HOH HOH . H 6 HOH A 130 530 148 HOH HOH . H 6 HOH A 131 531 132 HOH HOH . H 6 HOH A 132 532 145 HOH HOH . H 6 HOH A 133 533 113 HOH HOH . H 6 HOH A 134 534 85 HOH HOH . H 6 HOH A 135 535 84 HOH HOH . H 6 HOH A 136 536 137 HOH HOH . H 6 HOH A 137 537 124 HOH HOH . H 6 HOH A 138 538 140 HOH HOH . H 6 HOH A 139 539 139 HOH HOH . H 6 HOH A 140 540 59 HOH HOH . H 6 HOH A 141 541 123 HOH HOH . H 6 HOH A 142 542 81 HOH HOH . H 6 HOH A 143 543 151 HOH HOH . H 6 HOH A 144 544 36 HOH HOH . H 6 HOH A 145 545 43 HOH HOH . H 6 HOH A 146 546 117 HOH HOH . H 6 HOH A 147 547 58 HOH HOH . H 6 HOH A 148 548 136 HOH HOH . H 6 HOH A 149 549 109 HOH HOH . H 6 HOH A 150 550 111 HOH HOH . H 6 HOH A 151 551 107 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 MER . . . B 2 -4.217 17.051 -13.433 0.9 18.79 ? C1 MER 301 A 1 HETATM 2 C C2 MER . . . B 2 -8.083 17.4 -11.133 0.9 32.86 ? C2 MER 301 A 1 HETATM 3 C C3 MER . . . B 2 -4.912 18.247 -12.836 0.9 23.88 ? C3 MER 301 A 1 HETATM 4 C C4 MER . . . B 2 -5.773 17.876 -11.608 0.9 23.64 ? C4 MER 301 A 1 HETATM 5 C C5 MER . . . B 2 -7.425 16.208 -11.376 0.9 30.97 ? C5 MER 301 A 1 HETATM 6 O O6 MER . . . B 2 -4.756 16.274 -14.147 0.9 17.94 ? O6 MER 301 A 1 HETATM 7 C C7 MER . . . B 2 -3.882 19.333 -12.523 0.9 22.37 ? C7 MER 301 A 1 HETATM 8 O O8 MER . . . B 2 -4.553 20.448 -11.932 0.9 26.2 ? O8 MER 301 A 1 HETATM 9 C C9 MER . . . B 2 -3.129 19.788 -13.753 0.9 22.87 ? C9 MER 301 A 1 HETATM 10 N N10 MER . . . B 2 -6.124 16.472 -11.697 0.9 22.07 ? N10 MER 301 A 1 HETATM 11 C C11 MER . . . B 2 -8.066 14.903 -11.387 0.9 29.39 ? C11 MER 301 A 1 HETATM 12 O O12 MER . . . B 2 -7.966 14.136 -12.406 0.9 30.36 ? O12 MER 301 A 1 HETATM 13 O O13 MER . . . B 2 -8.665 14.542 -10.386 0.9 32.12 ? O13 MER 301 A 1 HETATM 14 S S14 MER . . . B 2 -9.742 17.64 -10.705 0.9 42.04 ? S14 MER 301 A 1 HETATM 15 C C15 MER . . . B 2 -9.582 18.39 -9.051 0.9 45.48 ? C15 MER 301 A 1 HETATM 16 C C16 MER . . . B 2 -10.98 18.619 -8.47 0.9 45.77 ? C16 MER 301 A 1 HETATM 17 C C17 MER . . . B 2 -11.094 17.61 -7.308 0.9 53.2 ? C17 MER 301 A 1 HETATM 18 C C18 MER . . . B 2 -7.136 18.558 -11.351 0.9 25.63 ? C18 MER 301 A 1 HETATM 19 N N19 MER . . . B 2 -9.934 16.712 -7.415 0.9 55.24 ? N19 MER 301 A 1 HETATM 20 C C20 MER . . . B 2 -7.599 19.501 -12.458 0.9 26.54 ? C20 MER 301 A 1 HETATM 21 C C21 MER . . . B 2 -8.879 17.491 -8.02 0.9 45.54 ? C21 MER 301 A 1 HETATM 22 C C22 MER . . . B 2 -12.427 16.85 -7.33 0.9 51.89 ? C22 MER 301 A 1 HETATM 23 N N23 MER . . . B 2 -12.667 15.943 -8.302 0.9 50.23 ? N23 MER 301 A 1 HETATM 24 O O24 MER . . . B 2 -13.251 17.078 -6.463 0.9 50.44 ? O24 MER 301 A 1 HETATM 25 C C25 MER . . . B 2 -11.757 14.973 -8.912 0.9 44.27 ? C25 MER 301 A 1 HETATM 26 C C26 MER . . . B 2 -14.027 15.893 -8.832 0.9 45.84 ? C26 MER 301 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #