data_3LHG # _model_server_result.job_id GPH2G1IWmddZ9PowzgH7jw _model_server_result.datetime_utc '2024-11-05 06:44:58' _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 3lhg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3LHG # _exptl.entry_id 3LHG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 378.375 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "(5S)-2-amino-5-(2',5'-difluorobiphenyl-3-yl)-3-methyl-5-pyridin-4-yl-3,5-dihydro-4H-imidazol-4-one" _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 94.89 _cell.angle_gamma 90 _cell.entry_id 3LHG _cell.length_a 72.909 _cell.length_b 104.632 _cell.length_c 50.26 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LHG _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 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 disulf ? disulf1 A SG CYS 171 A CYS 217 1_555 A SG CYS 375 A CYS 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 233 A CYS 279 1_555 A SG CYS 398 A CYS 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 285 A CYS 331 1_555 A SG CYS 335 A CYS 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? # _chem_comp.formula 'C21 H16 F2 N4 O' _chem_comp.formula_weight 378.375 _chem_comp.id Z81 _chem_comp.mon_nstd_flag . _chem_comp.name "(5S)-2-amino-5-(2',5'-difluorobiphenyl-3-yl)-3-methyl-5-pyridin-4-yl-3,5-dihydro-4H-imidazol-4-one" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '4-[3-OXO-3-(5,5,8,8-TETRAMETHYL-5,6,7,8-TETRAHYDRO-NAPHTHALEN-2-YL)-PROPENYL]-BENZOIC ACID' # 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 C2 C1 Z81 doub 376 n y C1 C3 Z81 sing 377 n y C1 H1 Z81 sing 378 n n F1 C16 Z81 sing 379 n n C11 N1 Z81 doub 380 n y N1 C10 Z81 sing 381 n y C18 O1 Z81 doub 382 n n C12 C2 Z81 sing 383 n y C2 H2 Z81 sing 384 n n C17 F2 Z81 sing 385 n n N2 C19 Z81 doub 386 n n N2 C20 Z81 sing 387 n n C14 C3 Z81 doub 388 n y C3 H3 Z81 sing 389 n n C19 N3 Z81 sing 390 n n N3 C21 Z81 sing 391 n n N3 C18 Z81 sing 392 n n C16 C4 Z81 doub 393 n y C4 C5 Z81 sing 394 n y C4 H4 Z81 sing 395 n n N4 C19 Z81 sing 396 n n N4 HN4 Z81 sing 397 n n N4 HN4A Z81 sing 398 n n C5 C17 Z81 doub 399 n y C5 H5 Z81 sing 400 n n C15 C6 Z81 sing 401 n y C6 C10 Z81 doub 402 n y C6 H6 Z81 sing 403 n n C7 C11 Z81 sing 404 n y C7 C15 Z81 doub 405 n y C7 H7 Z81 sing 406 n n C12 C8 Z81 doub 407 n y C8 C14 Z81 sing 408 n y C8 H8 Z81 sing 409 n n C16 C9 Z81 sing 410 n y C9 C13 Z81 doub 411 n y C9 H9 Z81 sing 412 n n C10 H10 Z81 sing 413 n n C11 H11 Z81 sing 414 n n C13 C12 Z81 sing 415 n y C13 C17 Z81 sing 416 n y C14 C20 Z81 sing 417 n n C20 C15 Z81 sing 418 n n C20 C18 Z81 sing 419 n n C21 H21 Z81 sing 420 n n C21 H21A Z81 sing 421 n n C21 H21B Z81 sing 422 n n # _atom_sites.entry_id 3LHG _atom_sites.fract_transf_matrix[1][1] 0.013716 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001173 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009557 _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] 0.019969 _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 Z81 A 1 1 1 Z81 Z81 . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 6 6 HOH HOH . C 3 HOH A 4 7 7 HOH HOH . C 3 HOH A 5 8 8 HOH HOH . C 3 HOH A 6 9 9 HOH HOH . C 3 HOH A 7 10 10 HOH HOH . C 3 HOH A 8 11 11 HOH HOH . C 3 HOH A 9 12 12 HOH HOH . C 3 HOH A 10 13 13 HOH HOH . C 3 HOH A 11 14 14 HOH HOH . C 3 HOH A 12 15 15 HOH HOH . C 3 HOH A 13 16 16 HOH HOH . C 3 HOH A 14 17 17 HOH HOH . C 3 HOH A 15 18 18 HOH HOH . C 3 HOH A 16 20 20 HOH HOH . C 3 HOH A 17 21 21 HOH HOH . C 3 HOH A 18 22 22 HOH HOH . C 3 HOH A 19 23 23 HOH HOH . C 3 HOH A 20 24 24 HOH HOH . C 3 HOH A 21 25 25 HOH HOH . C 3 HOH A 22 26 26 HOH HOH . C 3 HOH A 23 27 27 HOH HOH . C 3 HOH A 24 28 28 HOH HOH . C 3 HOH A 25 29 29 HOH HOH . C 3 HOH A 26 30 30 HOH HOH . C 3 HOH A 27 31 31 HOH HOH . C 3 HOH A 28 32 32 HOH HOH . C 3 HOH A 29 33 33 HOH HOH . C 3 HOH A 30 34 34 HOH HOH . C 3 HOH A 31 35 35 HOH HOH . C 3 HOH A 32 36 36 HOH HOH . C 3 HOH A 33 37 37 HOH HOH . C 3 HOH A 34 38 38 HOH HOH . C 3 HOH A 35 39 39 HOH HOH . C 3 HOH A 36 40 40 HOH HOH . C 3 HOH A 37 41 41 HOH HOH . C 3 HOH A 38 42 42 HOH HOH . C 3 HOH A 39 43 43 HOH HOH . C 3 HOH A 40 44 44 HOH HOH . C 3 HOH A 41 45 45 HOH HOH . C 3 HOH A 42 46 46 HOH HOH . C 3 HOH A 43 462 47 HOH HOH . C 3 HOH A 44 463 48 HOH HOH . C 3 HOH A 45 464 49 HOH HOH . C 3 HOH A 46 465 50 HOH HOH . C 3 HOH A 47 466 52 HOH HOH . C 3 HOH A 48 467 53 HOH HOH . C 3 HOH A 49 468 54 HOH HOH . C 3 HOH A 50 469 55 HOH HOH . C 3 HOH A 51 470 56 HOH HOH . C 3 HOH A 52 471 57 HOH HOH . C 3 HOH A 53 472 58 HOH HOH . C 3 HOH A 54 473 59 HOH HOH . C 3 HOH A 55 474 60 HOH HOH . C 3 HOH A 56 475 62 HOH HOH . C 3 HOH A 57 476 63 HOH HOH . C 3 HOH A 58 477 64 HOH HOH . C 3 HOH A 59 478 65 HOH HOH . C 3 HOH A 60 479 66 HOH HOH . C 3 HOH A 61 480 67 HOH HOH . C 3 HOH A 62 481 68 HOH HOH . C 3 HOH A 63 482 69 HOH HOH . C 3 HOH A 64 483 70 HOH HOH . C 3 HOH A 65 484 73 HOH HOH . C 3 HOH A 66 485 74 HOH HOH . C 3 HOH A 67 486 76 HOH HOH . C 3 HOH A 68 487 77 HOH HOH . C 3 HOH A 69 488 78 HOH HOH . C 3 HOH A 70 489 79 HOH HOH . C 3 HOH A 71 490 80 HOH HOH . C 3 HOH A 72 491 81 HOH HOH . C 3 HOH A 73 492 82 HOH HOH . C 3 HOH A 74 493 83 HOH HOH . C 3 HOH A 75 494 84 HOH HOH . C 3 HOH A 76 495 85 HOH HOH . C 3 HOH A 77 496 86 HOH HOH . C 3 HOH A 78 497 87 HOH HOH . C 3 HOH A 79 498 88 HOH HOH . C 3 HOH A 80 499 89 HOH HOH . C 3 HOH A 81 500 90 HOH HOH . C 3 HOH A 82 501 91 HOH HOH . C 3 HOH A 83 502 92 HOH HOH . C 3 HOH A 84 503 93 HOH HOH . C 3 HOH A 85 504 95 HOH HOH . C 3 HOH A 86 505 96 HOH HOH . C 3 HOH A 87 506 97 HOH HOH . C 3 HOH A 88 507 98 HOH HOH . C 3 HOH A 89 508 99 HOH HOH . C 3 HOH A 90 509 100 HOH HOH . C 3 HOH A 91 510 101 HOH HOH . C 3 HOH A 92 511 102 HOH HOH . C 3 HOH A 93 512 103 HOH HOH . C 3 HOH A 94 513 104 HOH HOH . C 3 HOH A 95 514 105 HOH HOH . C 3 HOH A 96 515 106 HOH HOH . C 3 HOH A 97 516 108 HOH HOH . C 3 HOH A 98 517 109 HOH HOH . C 3 HOH A 99 518 110 HOH HOH . C 3 HOH A 100 519 111 HOH HOH . C 3 HOH A 101 520 112 HOH HOH . C 3 HOH A 102 521 114 HOH HOH . C 3 HOH A 103 522 115 HOH HOH . C 3 HOH A 104 523 116 HOH HOH . C 3 HOH A 105 524 117 HOH HOH . C 3 HOH A 106 525 118 HOH HOH . C 3 HOH A 107 526 119 HOH HOH . C 3 HOH A 108 527 120 HOH HOH . C 3 HOH A 109 528 121 HOH HOH . C 3 HOH A 110 529 122 HOH HOH . C 3 HOH A 111 530 123 HOH HOH . C 3 HOH A 112 531 124 HOH HOH . C 3 HOH A 113 532 125 HOH HOH . C 3 HOH A 114 533 126 HOH HOH . C 3 HOH A 115 534 128 HOH HOH . C 3 HOH A 116 535 129 HOH HOH . C 3 HOH A 117 536 130 HOH HOH . C 3 HOH A 118 537 131 HOH HOH . C 3 HOH A 119 538 132 HOH HOH . C 3 HOH A 120 539 133 HOH HOH . C 3 HOH A 121 540 135 HOH HOH . C 3 HOH A 122 541 136 HOH HOH . C 3 HOH A 123 542 138 HOH HOH . C 3 HOH A 124 543 139 HOH HOH . C 3 HOH A 125 544 140 HOH HOH . C 3 HOH A 126 545 141 HOH HOH . C 3 HOH A 127 546 142 HOH HOH . C 3 HOH A 128 547 143 HOH HOH . C 3 HOH A 129 548 144 HOH HOH . C 3 HOH A 130 549 145 HOH HOH . C 3 HOH A 131 550 146 HOH HOH . C 3 HOH A 132 551 147 HOH HOH . C 3 HOH A 133 552 148 HOH HOH . C 3 HOH A 134 553 149 HOH HOH . C 3 HOH A 135 554 150 HOH HOH . C 3 HOH A 136 555 151 HOH HOH . C 3 HOH A 137 556 155 HOH HOH . C 3 HOH A 138 557 156 HOH HOH . C 3 HOH A 139 558 157 HOH HOH . C 3 HOH A 140 559 158 HOH HOH . C 3 HOH A 141 560 159 HOH HOH . C 3 HOH A 142 561 160 HOH HOH . C 3 HOH A 143 562 161 HOH HOH . C 3 HOH A 144 563 164 HOH HOH . C 3 HOH A 145 564 165 HOH HOH . C 3 HOH A 146 565 166 HOH HOH . C 3 HOH A 147 566 167 HOH HOH . C 3 HOH A 148 567 168 HOH HOH . C 3 HOH A 149 568 169 HOH HOH . C 3 HOH A 150 569 170 HOH HOH . C 3 HOH A 151 570 173 HOH HOH . C 3 HOH A 152 571 175 HOH HOH . C 3 HOH A 153 572 177 HOH HOH . C 3 HOH A 154 573 178 HOH HOH . C 3 HOH A 155 574 179 HOH HOH . C 3 HOH A 156 575 180 HOH HOH . C 3 HOH A 157 576 181 HOH HOH . C 3 HOH A 158 577 182 HOH HOH . C 3 HOH A 159 578 183 HOH HOH . C 3 HOH A 160 579 184 HOH HOH . C 3 HOH A 161 580 185 HOH HOH . C 3 HOH A 162 581 186 HOH HOH . C 3 HOH A 163 582 187 HOH HOH . C 3 HOH A 164 583 188 HOH HOH . C 3 HOH A 165 584 190 HOH HOH . C 3 HOH A 166 585 191 HOH HOH . C 3 HOH A 167 586 192 HOH HOH . C 3 HOH A 168 587 193 HOH HOH . C 3 HOH A 169 588 194 HOH HOH . C 3 HOH A 170 589 195 HOH HOH . C 3 HOH A 171 590 196 HOH HOH . C 3 HOH A 172 591 197 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 Z81 . . . B 2 10.403 -8.553 16.675 1 24.63 ? C1 Z81 1 A 1 HETATM 2 F F1 Z81 . . . B 2 10.388 -2.569 12.855 1 28.41 ? F1 Z81 1 A 1 HETATM 3 N N1 Z81 . . . B 2 15.622 -11.431 17.563 1 20.25 ? N1 Z81 1 A 1 HETATM 4 O O1 Z81 . . . B 2 14.174 -6.322 18.882 1 20.67 ? O1 Z81 1 A 1 HETATM 5 C C2 Z81 . . . B 2 9.794 -7.359 16.263 1 18.63 ? C2 Z81 1 A 1 HETATM 6 F F2 Z81 . . . B 2 8.557 -4.879 17.457 1 32.99 ? F2 Z81 1 A 1 HETATM 7 N N2 Z81 . . . B 2 14.699 -6.924 15.437 1 15.74 ? N2 Z81 1 A 1 HETATM 8 C C3 Z81 . . . B 2 11.795 -8.626 16.811 1 21.55 ? C3 Z81 1 A 1 HETATM 9 N N3 Z81 . . . B 2 15.262 -5.475 17.05 1 20.06 ? N3 Z81 1 A 1 HETATM 10 C C4 Z81 . . . B 2 8.952 -2.513 14.729 1 15.52 ? C4 Z81 1 A 1 HETATM 11 N N4 Z81 . . . B 2 16.169 -5.175 14.882 1 18.93 ? N4 Z81 1 A 1 HETATM 12 C C5 Z81 . . . B 2 8.489 -3.105 15.903 1 22.47 ? C5 Z81 1 A 1 HETATM 13 C C6 Z81 . . . B 2 14.745 -9.298 18.322 1 20.95 ? C6 Z81 1 A 1 HETATM 14 C C7 Z81 . . . B 2 15.014 -9.717 15.969 1 12.96 ? C7 Z81 1 A 1 HETATM 15 C C8 Z81 . . . B 2 11.95 -6.309 16.131 1 16.42 ? C8 Z81 1 A 1 HETATM 16 C C9 Z81 . . . B 2 10.481 -4.374 14.388 1 11.47 ? C9 Z81 1 A 1 HETATM 17 C C10 Z81 . . . B 2 15.243 -10.576 18.545 1 24.95 ? C10 Z81 1 A 1 HETATM 18 C C11 Z81 . . . B 2 15.501 -10.977 16.296 1 20.97 ? C11 Z81 1 A 1 HETATM 19 C C12 Z81 . . . B 2 10.573 -6.231 15.995 1 18.61 ? C12 Z81 1 A 1 HETATM 20 C C13 Z81 . . . B 2 10.012 -4.962 15.566 1 13.29 ? C13 Z81 1 A 1 HETATM 21 C C14 Z81 . . . B 2 12.56 -7.487 16.537 1 21.34 ? C14 Z81 1 A 1 HETATM 22 C C15 Z81 . . . B 2 14.637 -8.871 17.009 1 12.83 ? C15 Z81 1 A 1 HETATM 23 C C16 Z81 . . . B 2 9.944 -3.15 13.974 1 21.99 ? C16 Z81 1 A 1 HETATM 24 C C17 Z81 . . . B 2 9.021 -4.327 16.321 1 23.67 ? C17 Z81 1 A 1 HETATM 25 C C18 Z81 . . . B 2 14.495 -6.388 17.709 1 15.89 ? C18 Z81 1 A 1 HETATM 26 C C19 Z81 . . . B 2 15.388 -5.871 15.756 1 15.08 ? C19 Z81 1 A 1 HETATM 27 C C20 Z81 . . . B 2 14.085 -7.471 16.685 1 18.14 ? C20 Z81 1 A 1 HETATM 28 C C21 Z81 . . . B 2 15.834 -4.294 17.698 1 14.75 ? C21 Z81 1 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 216 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 28 #