data_5N5I
#
_model_server_result.job_id            u5JSKrx9uXoWB27a2ln8Pg 
_model_server_result.datetime_utc      '2024-11-07 08:52:03' 
_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          5n5i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":304}' 
#
_entry.id    5N5I 
#
_exptl.entry_id    5N5I 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              401.478 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2~{S},3~{R},4~{S})-2-[(2~{S},3~{R})-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-[(3~{S},5~{S})-5-(dimethylcarbamoy l)pyrrolidin-3-yl]sulfanyl-3-methyl-3,4-dihydro-2~{H}-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            5N5I 
_cell.length_a            38.943 
_cell.length_b            68.084 
_cell.length_c            39.817 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5N5I 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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                             E 
_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
metalc ? metalc1 A O GLY 44 A GLY 64 1_555 D ZN ZN . A ZN 303 2_658 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
metalc ? metalc2 A NE2 HIS 94 A HIS 114 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? 
metalc ? metalc3 A ND1 HIS 96 A HIS 116 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? 
metalc ? metalc4 A OD2 ASP 98 A ASP 118 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc5 A O SER 134 A SER 154 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc6 A OE1 GLU 136 A GLU 156 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? 
metalc ? metalc7 A OE2 GLU 136 A GLU 156 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.649 ? 
metalc ? metalc8 A NE2 HIS 159 A HIS 179 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc9 A SG CYS 178 A CYS 198 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? 
metalc ? metalc10 A NE2 HIS 220 A HIS 240 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc11 B ZN ZN . A ZN 301 1_555 E O32 LMP . A LMP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? 
metalc ? metalc12 B ZN ZN . A ZN 301 1_555 F O HOH . A HOH 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc13 C ZN ZN . A ZN 302 1_555 F O HOH . A HOH 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? 
metalc ? metalc14 D ZN ZN . A ZN 303 1_555 F O HOH . A HOH 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? 
#
_chem_comp.formula           'C17 H27 N3 O6 S' 
_chem_comp.formula_weight    401.478 
_chem_comp.id                LMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2~{S},3~{R},4~{S})-2-[(2~{S},3~{R})-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-[(3~{S},5~{S})-5-(dimethylcarbamoy l)pyrrolidin-3-yl]sulfanyl-3-methyl-3,4-dihydro-2~{H}-pyrrole-5-carboxylic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'Hydrolyzed Meropenem' 
#
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
O62 C61 LMP sing 194 n n 
C62 C61 LMP sing 195 n n 
C11 C1 LMP sing 196 n n 
C61 C6 LMP sing 197 n n 
O71 C7 LMP doub 198 n n 
C7 C6 LMP sing 199 n n 
C7 O72 LMP sing 200 n n 
C1 C2 LMP sing 201 n n 
C1 C5 LMP sing 202 n n 
C2 C3 LMP sing 203 n n 
C2 S21 LMP sing 204 n n 
C6 C5 LMP sing 205 n n 
C3 C31 LMP sing 206 n n 
C3 N4 LMP doub 207 n n 
O31 C31 LMP doub 208 n n 
C5 N4 LMP sing 209 n n 
C31 O32 LMP sing 210 n n 
S21 C1A LMP sing 211 n n 
C1A C2A LMP sing 212 n n 
C1A C4A LMP sing 213 n n 
C2A C5A LMP sing 214 n n 
C4A N3A LMP sing 215 n n 
O7A C6A LMP doub 216 n n 
N3A C5A LMP sing 217 n n 
C5A C6A LMP sing 218 n n 
C6A N7A LMP sing 219 n n 
C8A N7A LMP sing 220 n n 
N7A C9A LMP sing 221 n n 
C1 H1 LMP sing 222 n n 
C2 H2 LMP sing 223 n n 
C9A H3 LMP sing 224 n n 
C9A H4 LMP sing 225 n n 
C9A H5 LMP sing 226 n n 
C8A H6 LMP sing 227 n n 
C8A H7 LMP sing 228 n n 
C8A H8 LMP sing 229 n n 
C5A H9 LMP sing 230 n n 
C2A H10 LMP sing 231 n n 
C2A H11 LMP sing 232 n n 
N3A H12 LMP sing 233 n n 
C4A H14 LMP sing 234 n n 
C4A H15 LMP sing 235 n n 
C1A H16 LMP sing 236 n n 
O32 H17 LMP sing 237 n n 
C11 H18 LMP sing 238 n n 
C11 H19 LMP sing 239 n n 
C11 H20 LMP sing 240 n n 
C5 H21 LMP sing 241 n n 
C6 H22 LMP sing 242 n n 
C61 H23 LMP sing 243 n n 
O62 H24 LMP sing 244 n n 
C62 H25 LMP sing 245 n n 
C62 H26 LMP sing 246 n n 
C62 H27 LMP sing 247 n n 
O72 H28 LMP sing 248 n n 
#
_atom_sites.entry_id                     5N5I 
_atom_sites.fract_transf_matrix[1][1]    0.025679 
_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]    0.014688 
_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]    0.025115 
_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 ZN A 1 301 1 ZN ZN . 
C 2 ZN A 1 302 1 ZN ZN . 
D 2 ZN A 1 303 1 ZN ZN . 
E 3 LMP A 1 304 1 LMP DRG . 
F 4 HOH A 1 401 30 HOH HOH . 
F 4 HOH A 2 402 6 HOH HOH . 
F 4 HOH A 3 403 38 HOH HOH . 
F 4 HOH A 4 404 50 HOH HOH . 
F 4 HOH A 5 405 39 HOH HOH . 
F 4 HOH A 6 406 66 HOH HOH . 
F 4 HOH A 7 407 77 HOH HOH . 
F 4 HOH A 8 408 74 HOH HOH . 
F 4 HOH A 9 409 60 HOH HOH . 
F 4 HOH A 10 410 95 HOH HOH . 
F 4 HOH A 11 411 5 HOH HOH . 
F 4 HOH A 12 412 45 HOH HOH . 
F 4 HOH A 13 413 19 HOH HOH . 
F 4 HOH A 14 414 87 HOH HOH . 
F 4 HOH A 15 415 63 HOH HOH . 
F 4 HOH A 16 416 36 HOH HOH . 
F 4 HOH A 17 417 7 HOH HOH . 
F 4 HOH A 18 418 23 HOH HOH . 
F 4 HOH A 19 419 85 HOH HOH . 
F 4 HOH A 20 420 101 HOH HOH . 
F 4 HOH A 21 421 58 HOH HOH . 
F 4 HOH A 22 422 33 HOH HOH . 
F 4 HOH A 23 423 79 HOH HOH . 
F 4 HOH A 24 424 51 HOH HOH . 
F 4 HOH A 25 425 14 HOH HOH . 
F 4 HOH A 26 426 49 HOH HOH . 
F 4 HOH A 27 427 2 HOH HOH . 
F 4 HOH A 28 428 16 HOH HOH . 
F 4 HOH A 29 429 64 HOH HOH . 
F 4 HOH A 30 430 10 HOH HOH . 
F 4 HOH A 31 431 13 HOH HOH . 
F 4 HOH A 32 432 42 HOH HOH . 
F 4 HOH A 33 433 54 HOH HOH . 
F 4 HOH A 34 434 55 HOH HOH . 
F 4 HOH A 35 435 24 HOH HOH . 
F 4 HOH A 36 436 31 HOH HOH . 
F 4 HOH A 37 437 92 HOH HOH . 
F 4 HOH A 38 438 100 HOH HOH . 
F 4 HOH A 39 439 28 HOH HOH . 
F 4 HOH A 40 440 27 HOH HOH . 
F 4 HOH A 41 441 15 HOH HOH . 
F 4 HOH A 42 442 48 HOH HOH . 
F 4 HOH A 43 443 21 HOH HOH . 
F 4 HOH A 44 444 82 HOH HOH . 
F 4 HOH A 45 445 98 HOH HOH . 
F 4 HOH A 46 446 29 HOH HOH . 
F 4 HOH A 47 447 18 HOH HOH . 
F 4 HOH A 48 448 35 HOH HOH . 
F 4 HOH A 49 449 91 HOH HOH . 
F 4 HOH A 50 450 44 HOH HOH . 
F 4 HOH A 51 451 90 HOH HOH . 
F 4 HOH A 52 452 20 HOH HOH . 
F 4 HOH A 53 453 4 HOH HOH . 
F 4 HOH A 54 454 8 HOH HOH . 
F 4 HOH A 55 455 62 HOH HOH . 
F 4 HOH A 56 456 59 HOH HOH . 
F 4 HOH A 57 457 84 HOH HOH . 
F 4 HOH A 58 458 26 HOH HOH . 
F 4 HOH A 59 459 46 HOH HOH . 
F 4 HOH A 60 460 17 HOH HOH . 
F 4 HOH A 61 461 43 HOH HOH . 
F 4 HOH A 62 462 37 HOH HOH . 
F 4 HOH A 63 463 40 HOH HOH . 
F 4 HOH A 64 464 76 HOH HOH . 
F 4 HOH A 65 465 34 HOH HOH . 
F 4 HOH A 66 466 69 HOH HOH . 
F 4 HOH A 67 467 32 HOH HOH . 
F 4 HOH A 68 468 72 HOH HOH . 
F 4 HOH A 69 469 89 HOH HOH . 
F 4 HOH A 70 470 71 HOH HOH . 
F 4 HOH A 71 471 83 HOH HOH . 
F 4 HOH A 72 472 80 HOH HOH . 
F 4 HOH A 73 473 70 HOH HOH . 
F 4 HOH A 74 474 22 HOH HOH . 
F 4 HOH A 75 475 96 HOH HOH . 
F 4 HOH A 76 476 61 HOH HOH . 
F 4 HOH A 77 477 93 HOH HOH . 
F 4 HOH A 78 478 102 HOH HOH . 
F 4 HOH A 79 479 99 HOH HOH . 
F 4 HOH A 80 480 88 HOH HOH . 
F 4 HOH A 81 481 78 HOH HOH . 
F 4 HOH A 82 482 86 HOH HOH . 
F 4 HOH A 83 483 56 HOH HOH . 
F 4 HOH A 84 484 25 HOH HOH . 
F 4 HOH A 85 485 94 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 LMP . . . E 3 19.752 15.839 51.125 1 37.47 ? C1 LMP 304 A 1 
HETATM 2 C C2 LMP . . . E 3 20.363 15.233 49.87 1 41.25 ? C2 LMP 304 A 1 
HETATM 3 C C3 LMP . . . E 3 21.082 14.042 50.432 1 35.38 ? C3 LMP 304 A 1 
HETATM 4 O O7A LMP . . . E 3 16.959 12.893 43.899 1 34.69 ? O7A LMP 304 A 1 
HETATM 5 C C6A LMP . . . E 3 17.144 13.774 44.727 1 49.68 ? C6A LMP 304 A 1 
HETATM 6 N N7A LMP . . . E 3 16.1 14.372 45.328 1 37.26 ? N7A LMP 304 A 1 
HETATM 7 C C9A LMP . . . E 3 14.781 13.753 45.326 1 24.79 ? C9A LMP 304 A 1 
HETATM 8 C C8A LMP . . . E 3 16.108 15.658 46.013 1 36.61 ? C8A LMP 304 A 1 
HETATM 9 C C5A LMP . . . E 3 18.587 14.119 45.043 1 57.3 ? C5A LMP 304 A 1 
HETATM 10 C C2A LMP . . . E 3 19.008 13.518 46.379 1 37.26 ? C2A LMP 304 A 1 
HETATM 11 N N3A LMP . . . E 3 18.976 15.519 45.1 1 50.79 ? N3A LMP 304 A 1 
HETATM 12 C C4A LMP . . . E 3 19.685 15.884 46.311 1 40.04 ? C4A LMP 304 A 1 
HETATM 13 C C1A LMP . . . E 3 19.789 14.593 47.12 1 39.94 ? C1A LMP 304 A 1 
HETATM 14 S S21 LMP . . . E 3 19.085 14.796 48.725 1 44.18 ? S21 LMP 304 A 1 
HETATM 15 C C31 LMP . . . E 3 21.786 13.012 49.685 1 34.79 ? C31 LMP 304 A 1 
HETATM 16 O O31 LMP . . . E 3 22.42 13.34 48.65 1 33.87 ? O31 LMP 304 A 1 
HETATM 17 O O32 LMP . . . E 3 21.73 11.838 50.134 1 22.02 ? O32 LMP 304 A 1 
HETATM 18 N N4 LMP . . . E 3 21.045 13.969 51.685 1 30.14 ? N4 LMP 304 A 1 
HETATM 19 C C11 LMP . . . E 3 19.922 17.355 51.201 1 37.21 ? C11 LMP 304 A 1 
HETATM 20 C C5 LMP . . . E 3 20.302 15.044 52.325 1 37.47 ? C5 LMP 304 A 1 
HETATM 21 C C6 LMP . . . E 3 21.305 15.729 53.264 1 41.79 ? C6 LMP 304 A 1 
HETATM 22 C C61 LMP . . . E 3 21.58 14.74 54.394 1 34.48 ? C61 LMP 304 A 1 
HETATM 23 O O62 LMP . . . E 3 22.964 14.365 54.383 1 25.76 ? O62 LMP 304 A 1 
HETATM 24 C C62 LMP . . . E 3 21.202 15.325 55.747 1 31.26 ? C62 LMP 304 A 1 
HETATM 25 C C7 LMP . . . E 3 22.639 16.137 52.671 1 53 ? C7 LMP 304 A 1 
HETATM 26 O O71 LMP . . . E 3 23.572 16.363 53.474 1 59.07 ? O71 LMP 304 A 1 
HETATM 27 O O72 LMP . . . E 3 22.809 16.26 51.435 1 48.97 ? O72 LMP 304 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           19 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           285 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           27 
#