data_3INF # _model_server_result.job_id rSmrJ512lUIiXf1vTGypHg _model_server_result.datetime_utc '2025-01-12 01:01:03' _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 3inf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3INF # _exptl.entry_id 3INF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 386.446 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5S)-2-amino-5-(4-methoxy-3-methylphenyl)-3-methyl-5-(3-pyridin-3-ylphenyl)-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 94.69 _cell.angle_gamma 90 _cell.entry_id 3INF _cell.length_a 73.137 _cell.length_b 104.33 _cell.length_c 49.551 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3INF _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 A SG CYS 233 A CYS 279 1_555 A SG CYS 398 A CYS 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 A SG CYS 285 A CYS 331 1_555 A SG CYS 335 A CYS 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C23 H22 N4 O2' _chem_comp.formula_weight 386.446 _chem_comp.id X45 _chem_comp.mon_nstd_flag . _chem_comp.name (5S)-2-amino-5-(4-methoxy-3-methylphenyl)-3-methyl-5-(3-pyridin-3-ylphenyl)-3,5-dihydro-4H-imidazol-4-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 X45 sing 376 n n C1 H1 X45 sing 377 n n C1 H1A X45 sing 378 n n C1 H1B X45 sing 379 n n C11 N1 X45 sing 380 n n N1 C10 X45 sing 381 n n N1 C12 X45 sing 382 n n C8 O1 X45 sing 383 n n C7 O1 X45 sing 384 n n C7 C2 X45 doub 385 n y C3 C2 X45 sing 386 n y N2 C11 X45 doub 387 n n N2 C9 X45 sing 388 n n C10 O2 X45 doub 389 n n C4 C3 X45 doub 390 n y C3 H3 X45 sing 391 n n N3 C11 X45 sing 392 n n N3 HN3 X45 sing 393 n n N3 HN3A X45 sing 394 n n C5 C4 X45 sing 395 n y C9 C4 X45 sing 396 n n N4 C23 X45 doub 397 n y N4 C22 X45 sing 398 n y C5 C6 X45 doub 399 n y C5 H5 X45 sing 400 n n C6 C7 X45 sing 401 n y C6 H6 X45 sing 402 n n C8 H8 X45 sing 403 n n C8 H8A X45 sing 404 n n C8 H8B X45 sing 405 n n C13 C9 X45 sing 406 n n C9 C10 X45 sing 407 n n C12 H12 X45 sing 408 n n C12 H12A X45 sing 409 n n C12 H12B X45 sing 410 n n C18 C13 X45 doub 411 n y C13 C14 X45 sing 412 n y C15 C14 X45 doub 413 n y C14 H14 X45 sing 414 n n C16 C15 X45 sing 415 n y C15 H15 X45 sing 416 n n C17 C16 X45 doub 417 n y C16 H16 X45 sing 418 n n C19 C17 X45 sing 419 n y C17 C18 X45 sing 420 n y C18 H18 X45 sing 421 n n C23 C19 X45 sing 422 n y C19 C20 X45 doub 423 n y C21 C20 X45 sing 424 n y C20 H20 X45 sing 425 n n C22 C21 X45 doub 426 n y C21 H21 X45 sing 427 n n C22 H22 X45 sing 428 n n C23 H23 X45 sing 429 n n # _atom_sites.entry_id 3INF _atom_sites.fract_transf_matrix[1][1] 0.013673 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001122 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009585 _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] 0.020249 _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 X45 A 1 1 1 X45 X45 . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 4 4 HOH HOH . C 3 HOH A 4 5 5 HOH HOH . C 3 HOH A 5 6 6 HOH HOH . C 3 HOH A 6 7 7 HOH HOH . C 3 HOH A 7 8 8 HOH HOH . C 3 HOH A 8 9 9 HOH HOH . C 3 HOH A 9 10 10 HOH HOH . C 3 HOH A 10 11 11 HOH HOH . C 3 HOH A 11 12 12 HOH HOH . C 3 HOH A 12 13 13 HOH HOH . C 3 HOH A 13 14 14 HOH HOH . C 3 HOH A 14 15 15 HOH HOH . C 3 HOH A 15 16 16 HOH HOH . C 3 HOH A 16 17 17 HOH HOH . C 3 HOH A 17 18 18 HOH HOH . C 3 HOH A 18 19 19 HOH HOH . C 3 HOH A 19 20 20 HOH HOH . C 3 HOH A 20 21 21 HOH HOH . C 3 HOH A 21 22 22 HOH HOH . C 3 HOH A 22 23 23 HOH HOH . C 3 HOH A 23 24 24 HOH HOH . C 3 HOH A 24 25 25 HOH HOH . C 3 HOH A 25 26 26 HOH HOH . C 3 HOH A 26 27 27 HOH HOH . C 3 HOH A 27 28 28 HOH HOH . C 3 HOH A 28 29 29 HOH HOH . C 3 HOH A 29 30 30 HOH HOH . C 3 HOH A 30 31 31 HOH HOH . C 3 HOH A 31 32 32 HOH HOH . C 3 HOH A 32 33 33 HOH HOH . C 3 HOH A 33 34 34 HOH HOH . C 3 HOH A 34 35 35 HOH HOH . C 3 HOH A 35 36 36 HOH HOH . C 3 HOH A 36 37 37 HOH HOH . C 3 HOH A 37 38 38 HOH HOH . C 3 HOH A 38 39 39 HOH HOH . C 3 HOH A 39 40 40 HOH HOH . C 3 HOH A 40 41 41 HOH HOH . C 3 HOH A 41 42 42 HOH HOH . C 3 HOH A 42 43 43 HOH HOH . C 3 HOH A 43 44 44 HOH HOH . C 3 HOH A 44 45 45 HOH HOH . C 3 HOH A 45 46 46 HOH HOH . C 3 HOH A 46 462 462 HOH HOH . C 3 HOH A 47 463 463 HOH HOH . C 3 HOH A 48 464 464 HOH HOH . C 3 HOH A 49 465 465 HOH HOH . C 3 HOH A 50 466 466 HOH HOH . C 3 HOH A 51 467 467 HOH HOH . C 3 HOH A 52 468 468 HOH HOH . C 3 HOH A 53 469 469 HOH HOH . C 3 HOH A 54 470 470 HOH HOH . C 3 HOH A 55 471 471 HOH HOH . C 3 HOH A 56 472 472 HOH HOH . C 3 HOH A 57 473 473 HOH HOH . C 3 HOH A 58 474 474 HOH HOH . C 3 HOH A 59 475 475 HOH HOH . C 3 HOH A 60 476 476 HOH HOH . C 3 HOH A 61 477 477 HOH HOH . C 3 HOH A 62 478 478 HOH HOH . C 3 HOH A 63 479 479 HOH HOH . C 3 HOH A 64 480 480 HOH HOH . C 3 HOH A 65 481 481 HOH HOH . C 3 HOH A 66 482 482 HOH HOH . C 3 HOH A 67 483 483 HOH HOH . C 3 HOH A 68 484 484 HOH HOH . C 3 HOH A 69 485 485 HOH HOH . C 3 HOH A 70 486 486 HOH HOH . C 3 HOH A 71 487 487 HOH HOH . C 3 HOH A 72 488 488 HOH HOH . C 3 HOH A 73 489 489 HOH HOH . C 3 HOH A 74 490 490 HOH HOH . C 3 HOH A 75 491 491 HOH HOH . C 3 HOH A 76 492 492 HOH HOH . C 3 HOH A 77 493 493 HOH HOH . C 3 HOH A 78 494 494 HOH HOH . C 3 HOH A 79 495 495 HOH HOH . C 3 HOH A 80 496 496 HOH HOH . C 3 HOH A 81 497 497 HOH HOH . C 3 HOH A 82 498 498 HOH HOH . C 3 HOH A 83 499 499 HOH HOH . C 3 HOH A 84 500 500 HOH HOH . C 3 HOH A 85 501 501 HOH HOH . C 3 HOH A 86 502 502 HOH HOH . C 3 HOH A 87 503 503 HOH HOH . C 3 HOH A 88 504 504 HOH HOH . C 3 HOH A 89 505 505 HOH HOH . C 3 HOH A 90 506 506 HOH HOH . C 3 HOH A 91 507 507 HOH HOH . C 3 HOH A 92 508 508 HOH HOH . C 3 HOH A 93 509 509 HOH HOH . C 3 HOH A 94 510 510 HOH HOH . C 3 HOH A 95 511 511 HOH HOH . C 3 HOH A 96 512 512 HOH HOH . C 3 HOH A 97 513 513 HOH HOH . C 3 HOH A 98 514 514 HOH HOH . C 3 HOH A 99 515 515 HOH HOH . C 3 HOH A 100 516 516 HOH HOH . C 3 HOH A 101 517 517 HOH HOH . C 3 HOH A 102 518 518 HOH HOH . C 3 HOH A 103 519 519 HOH HOH . C 3 HOH A 104 520 520 HOH HOH . C 3 HOH A 105 521 521 HOH HOH . C 3 HOH A 106 522 522 HOH HOH . C 3 HOH A 107 523 523 HOH HOH . C 3 HOH A 108 524 524 HOH HOH . C 3 HOH A 109 525 525 HOH HOH . C 3 HOH A 110 526 526 HOH HOH . C 3 HOH A 111 527 527 HOH HOH . C 3 HOH A 112 528 528 HOH HOH . C 3 HOH A 113 529 529 HOH HOH . C 3 HOH A 114 530 530 HOH HOH . C 3 HOH A 115 531 531 HOH HOH . C 3 HOH A 116 532 532 HOH HOH . C 3 HOH A 117 533 533 HOH HOH . C 3 HOH A 118 534 534 HOH HOH . C 3 HOH A 119 535 535 HOH HOH . C 3 HOH A 120 536 536 HOH HOH . C 3 HOH A 121 537 537 HOH HOH . C 3 HOH A 122 538 538 HOH HOH . C 3 HOH A 123 539 539 HOH HOH . C 3 HOH A 124 540 540 HOH HOH . C 3 HOH A 125 541 541 HOH HOH . C 3 HOH A 126 542 542 HOH HOH . C 3 HOH A 127 543 543 HOH HOH . C 3 HOH A 128 544 544 HOH HOH . C 3 HOH A 129 545 545 HOH HOH . C 3 HOH A 130 546 546 HOH HOH . C 3 HOH A 131 547 547 HOH HOH . C 3 HOH A 132 548 548 HOH HOH . C 3 HOH A 133 549 549 HOH HOH . C 3 HOH A 134 550 550 HOH HOH . C 3 HOH A 135 551 551 HOH HOH . C 3 HOH A 136 552 552 HOH HOH . C 3 HOH A 137 553 553 HOH HOH . C 3 HOH A 138 554 554 HOH HOH . C 3 HOH A 139 555 555 HOH HOH . C 3 HOH A 140 556 556 HOH HOH . C 3 HOH A 141 557 557 HOH HOH . C 3 HOH A 142 558 558 HOH HOH . C 3 HOH A 143 559 559 HOH HOH . C 3 HOH A 144 560 560 HOH HOH . C 3 HOH A 145 561 561 HOH HOH . C 3 HOH A 146 562 562 HOH HOH . C 3 HOH A 147 563 563 HOH HOH . C 3 HOH A 148 564 564 HOH HOH . C 3 HOH A 149 565 565 HOH HOH . C 3 HOH A 150 566 566 HOH HOH . C 3 HOH A 151 567 567 HOH HOH . C 3 HOH A 152 568 568 HOH HOH . C 3 HOH A 153 569 569 HOH HOH . C 3 HOH A 154 570 570 HOH HOH . C 3 HOH A 155 571 571 HOH HOH . C 3 HOH A 156 572 572 HOH HOH . C 3 HOH A 157 573 573 HOH HOH . C 3 HOH A 158 574 574 HOH HOH . C 3 HOH A 159 575 575 HOH HOH . C 3 HOH A 160 576 576 HOH HOH . C 3 HOH A 161 577 577 HOH HOH . C 3 HOH A 162 578 578 HOH HOH . C 3 HOH A 163 579 579 HOH HOH . C 3 HOH A 164 580 580 HOH HOH . C 3 HOH A 165 581 581 HOH HOH . C 3 HOH A 166 582 582 HOH HOH . C 3 HOH A 167 583 583 HOH HOH . C 3 HOH A 168 584 584 HOH HOH . C 3 HOH A 169 585 585 HOH HOH . C 3 HOH A 170 586 586 HOH HOH . C 3 HOH A 171 587 587 HOH HOH . C 3 HOH A 172 588 588 HOH HOH . C 3 HOH A 173 589 589 HOH HOH . C 3 HOH A 174 590 590 HOH HOH . C 3 HOH A 175 591 591 HOH HOH . C 3 HOH A 176 592 592 HOH HOH . C 3 HOH A 177 593 593 HOH HOH . C 3 HOH A 178 594 594 HOH HOH . C 3 HOH A 179 595 595 HOH HOH . C 3 HOH A 180 596 596 HOH HOH . C 3 HOH A 181 597 597 HOH HOH . C 3 HOH A 182 598 598 HOH HOH . C 3 HOH A 183 599 599 HOH HOH . C 3 HOH A 184 600 600 HOH HOH . C 3 HOH A 185 601 601 HOH HOH . C 3 HOH A 186 602 602 HOH HOH . C 3 HOH A 187 603 603 HOH HOH . C 3 HOH A 188 604 604 HOH HOH . C 3 HOH A 189 605 605 HOH HOH . C 3 HOH A 190 606 606 HOH HOH . C 3 HOH A 191 607 607 HOH HOH . C 3 HOH A 192 608 608 HOH HOH . C 3 HOH A 193 609 609 HOH HOH . C 3 HOH A 194 610 610 HOH HOH . C 3 HOH A 195 611 611 HOH HOH . C 3 HOH A 196 612 612 HOH HOH . C 3 HOH A 197 613 613 HOH HOH . C 3 HOH A 198 614 614 HOH HOH . C 3 HOH A 199 615 615 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 X45 . . . B 2 15.934 -11.045 19.37 1 24.77 ? C1 X45 1 A 1 HETATM 2 N N1 X45 . . . B 2 15.427 -5.528 16.652 1 18.37 ? N1 X45 1 A 1 HETATM 3 O O1 X45 . . . B 2 16.636 -12.611 17.177 1 25.26 ? O1 X45 1 A 1 HETATM 4 C C2 X45 . . . B 2 15.703 -10.592 17.953 1 18.78 ? C2 X45 1 A 1 HETATM 5 N N2 X45 . . . B 2 14.812 -6.851 14.957 1 16.7 ? N2 X45 1 A 1 HETATM 6 O O2 X45 . . . B 2 14.349 -6.503 18.443 1 19.11 ? O2 X45 1 A 1 HETATM 7 C C3 X45 . . . B 2 15.116 -9.337 17.726 1 18.4 ? C3 X45 1 A 1 HETATM 8 N N3 X45 . . . B 2 16.328 -5.102 14.483 1 15.37 ? N3 X45 1 A 1 HETATM 9 C C4 X45 . . . B 2 14.877 -8.864 16.428 1 16.49 ? C4 X45 1 A 1 HETATM 10 N N4 X45 . . . B 2 10.082 -3.116 13.612 1 19.38 ? N4 X45 1 A 1 HETATM 11 C C5 X45 . . . B 2 15.243 -9.688 15.355 1 18.19 ? C5 X45 1 A 1 HETATM 12 C C6 X45 . . . B 2 15.829 -10.944 15.565 1 15.99 ? C6 X45 1 A 1 HETATM 13 C C7 X45 . . . B 2 16.063 -11.405 16.862 1 18.11 ? C7 X45 1 A 1 HETATM 14 C C8 X45 . . . B 2 17.389 -13.28 16.17 1 20.49 ? C8 X45 1 A 1 HETATM 15 C C9 X45 . . . B 2 14.241 -7.486 16.188 1 17.97 ? C9 X45 1 A 1 HETATM 16 C C10 X45 . . . B 2 14.67 -6.478 17.267 1 18.26 ? C10 X45 1 A 1 HETATM 17 C C11 X45 . . . B 2 15.538 -5.837 15.33 1 16.97 ? C11 X45 1 A 1 HETATM 18 C C12 X45 . . . B 2 16.012 -4.386 17.349 1 17.24 ? C12 X45 1 A 1 HETATM 19 C C13 X45 . . . B 2 12.705 -7.54 16.111 1 16.94 ? C13 X45 1 A 1 HETATM 20 C C14 X45 . . . B 2 11.917 -8.658 16.435 1 16.88 ? C14 X45 1 A 1 HETATM 21 C C15 X45 . . . B 2 10.518 -8.594 16.328 1 20.26 ? C15 X45 1 A 1 HETATM 22 C C16 X45 . . . B 2 9.875 -7.425 15.91 1 20.84 ? C16 X45 1 A 1 HETATM 23 C C17 X45 . . . B 2 10.64 -6.291 15.581 1 17.49 ? C17 X45 1 A 1 HETATM 24 C C18 X45 . . . B 2 12.04 -6.376 15.694 1 16.97 ? C18 X45 1 A 1 HETATM 25 C C19 X45 . . . B 2 10.05 -5.016 15.14 1 18 ? C19 X45 1 A 1 HETATM 26 C C20 X45 . . . B 2 8.933 -4.453 15.775 1 20.31 ? C20 X45 1 A 1 HETATM 27 C C21 X45 . . . B 2 8.399 -3.24 15.333 1 21.24 ? C21 X45 1 A 1 HETATM 28 C C22 X45 . . . B 2 9.004 -2.612 14.255 1 19.07 ? C22 X45 1 A 1 HETATM 29 C C23 X45 . . . B 2 10.581 -4.295 14.066 1 13.96 ? C23 X45 1 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #