data_9HDC
#
_model_server_result.job_id            5R2dPQQovx0D7otQWa8dhw 
_model_server_result.datetime_utc      '2025-01-06 02:15:30' 
_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          9hdc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    9HDC 
#
_exptl.entry_id    9HDC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              319.397 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (3~{S})-3-[(3~{R})-3-phenylpiperidin-1-yl]carbonyl-2,3-dihydroinden-1-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          102.72 
_cell.angle_gamma         90 
_cell.entry_id            9HDC 
_cell.length_a            114.64 
_cell.length_b            53.58 
_cell.length_c            44.83 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9HDC 
_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    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 
_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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 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 
#
_chem_comp.formula           'C21 H21 N O2' 
_chem_comp.formula_weight    319.397 
_chem_comp.id                A1ITW 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (3~{S})-3-[(3~{R})-3-phenylpiperidin-1-yl]carbonyl-2,3-dihydroinden-1-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     (3S)-3-[(3R)-3-phenylpiperidine-1-carbonyl]indan-1-one 
#
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
O1 C7 A1ITW doub 1 n n 
C7 C8 A1ITW sing 2 n n 
C7 C2 A1ITW sing 3 n n 
C8 C9 A1ITW sing 4 n n 
C1 C2 A1ITW doub 5 n y 
C1 C6 A1ITW sing 6 n y 
C2 C3 A1ITW sing 7 n y 
C9 C3 A1ITW sing 8 n n 
C9 C10 A1ITW sing 9 n n 
C6 C5 A1ITW doub 10 n y 
C3 C4 A1ITW doub 11 n y 
O2 C10 A1ITW doub 12 n n 
C10 N1 A1ITW sing 13 n n 
C5 C4 A1ITW sing 14 n y 
N1 C11 A1ITW sing 15 n n 
N1 C15 A1ITW sing 16 n n 
C17 C18 A1ITW doub 17 n y 
C17 C16 A1ITW sing 18 n y 
C12 C11 A1ITW sing 19 n n 
C12 C16 A1ITW sing 20 n n 
C12 C13 A1ITW sing 21 n n 
C18 C19 A1ITW sing 22 n y 
C14 C15 A1ITW sing 23 n n 
C14 C13 A1ITW sing 24 n n 
C16 C21 A1ITW doub 25 n y 
C19 C20 A1ITW doub 26 n y 
C21 C20 A1ITW sing 27 n y 
C4 H2 A1ITW sing 28 n n 
C5 H3 A1ITW sing 29 n n 
C6 H4 A1ITW sing 30 n n 
C8 H5 A1ITW sing 31 n n 
C8 H6 A1ITW sing 32 n n 
C13 H11 A1ITW sing 33 n n 
C13 H12 A1ITW sing 34 n n 
C15 H16 A1ITW sing 35 n n 
C15 H15 A1ITW sing 36 n n 
C17 H17 A1ITW sing 37 n n 
C20 H20 A1ITW sing 38 n n 
C21 H21 A1ITW sing 39 n n 
C1 H1 A1ITW sing 40 n n 
C9 H7 A1ITW sing 41 n n 
C11 H8 A1ITW sing 42 n n 
C11 H9 A1ITW sing 43 n n 
C12 H10 A1ITW sing 44 n n 
C14 H14 A1ITW sing 45 n n 
C14 H13 A1ITW sing 46 n n 
C18 H18 A1ITW sing 47 n n 
C19 H19 A1ITW sing 48 n n 
#
_atom_sites.entry_id                     9HDC 
_atom_sites.fract_transf_matrix[1][1]    0.008723 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001969 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018664 
_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]    0.022868 
_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 DMS A 1 401 401 DMS DMS . 
C 2 DMS A 1 402 402 DMS DMS . 
D 3 A1ITW A 1 403 403 A1ITW LIG . 
E 4 FMT A 1 404 404 FMT FMT . 
F 5 HOH A 1 501 58 HOH HOH . 
F 5 HOH A 2 502 127 HOH HOH . 
F 5 HOH A 3 503 73 HOH HOH . 
F 5 HOH A 4 504 91 HOH HOH . 
F 5 HOH A 5 505 129 HOH HOH . 
F 5 HOH A 6 506 93 HOH HOH . 
F 5 HOH A 7 507 50 HOH HOH . 
F 5 HOH A 8 508 114 HOH HOH . 
F 5 HOH A 9 509 77 HOH HOH . 
F 5 HOH A 10 510 101 HOH HOH . 
F 5 HOH A 11 511 125 HOH HOH . 
F 5 HOH A 12 512 99 HOH HOH . 
F 5 HOH A 13 513 111 HOH HOH . 
F 5 HOH A 14 514 65 HOH HOH . 
F 5 HOH A 15 515 106 HOH HOH . 
F 5 HOH A 16 516 57 HOH HOH . 
F 5 HOH A 17 517 118 HOH HOH . 
F 5 HOH A 18 518 34 HOH HOH . 
F 5 HOH A 19 519 31 HOH HOH . 
F 5 HOH A 20 520 131 HOH HOH . 
F 5 HOH A 21 521 23 HOH HOH . 
F 5 HOH A 22 522 76 HOH HOH . 
F 5 HOH A 23 523 21 HOH HOH . 
F 5 HOH A 24 524 11 HOH HOH . 
F 5 HOH A 25 525 38 HOH HOH . 
F 5 HOH A 26 526 42 HOH HOH . 
F 5 HOH A 27 527 56 HOH HOH . 
F 5 HOH A 28 528 43 HOH HOH . 
F 5 HOH A 29 529 9 HOH HOH . 
F 5 HOH A 30 530 88 HOH HOH . 
F 5 HOH A 31 531 98 HOH HOH . 
F 5 HOH A 32 532 29 HOH HOH . 
F 5 HOH A 33 533 115 HOH HOH . 
F 5 HOH A 34 534 66 HOH HOH . 
F 5 HOH A 35 535 128 HOH HOH . 
F 5 HOH A 36 536 39 HOH HOH . 
F 5 HOH A 37 537 6 HOH HOH . 
F 5 HOH A 38 538 75 HOH HOH . 
F 5 HOH A 39 539 105 HOH HOH . 
F 5 HOH A 40 540 52 HOH HOH . 
F 5 HOH A 41 541 96 HOH HOH . 
F 5 HOH A 42 542 59 HOH HOH . 
F 5 HOH A 43 543 80 HOH HOH . 
F 5 HOH A 44 544 27 HOH HOH . 
F 5 HOH A 45 545 14 HOH HOH . 
F 5 HOH A 46 546 4 HOH HOH . 
F 5 HOH A 47 547 86 HOH HOH . 
F 5 HOH A 48 548 62 HOH HOH . 
F 5 HOH A 49 549 83 HOH HOH . 
F 5 HOH A 50 550 124 HOH HOH . 
F 5 HOH A 51 551 3 HOH HOH . 
F 5 HOH A 52 552 37 HOH HOH . 
F 5 HOH A 53 553 25 HOH HOH . 
F 5 HOH A 54 554 22 HOH HOH . 
F 5 HOH A 55 555 54 HOH HOH . 
F 5 HOH A 56 556 13 HOH HOH . 
F 5 HOH A 57 557 17 HOH HOH . 
F 5 HOH A 58 558 15 HOH HOH . 
F 5 HOH A 59 559 100 HOH HOH . 
F 5 HOH A 60 560 45 HOH HOH . 
F 5 HOH A 61 561 67 HOH HOH . 
F 5 HOH A 62 562 30 HOH HOH . 
F 5 HOH A 63 563 16 HOH HOH . 
F 5 HOH A 64 564 7 HOH HOH . 
F 5 HOH A 65 565 134 HOH HOH . 
F 5 HOH A 66 566 92 HOH HOH . 
F 5 HOH A 67 567 46 HOH HOH . 
F 5 HOH A 68 568 79 HOH HOH . 
F 5 HOH A 69 569 32 HOH HOH . 
F 5 HOH A 70 570 78 HOH HOH . 
F 5 HOH A 71 571 126 HOH HOH . 
F 5 HOH A 72 572 1 HOH HOH . 
F 5 HOH A 73 573 102 HOH HOH . 
F 5 HOH A 74 574 60 HOH HOH . 
F 5 HOH A 75 575 103 HOH HOH . 
F 5 HOH A 76 576 74 HOH HOH . 
F 5 HOH A 77 577 48 HOH HOH . 
F 5 HOH A 78 578 70 HOH HOH . 
F 5 HOH A 79 579 35 HOH HOH . 
F 5 HOH A 80 580 72 HOH HOH . 
F 5 HOH A 81 581 133 HOH HOH . 
F 5 HOH A 82 582 81 HOH HOH . 
F 5 HOH A 83 583 47 HOH HOH . 
F 5 HOH A 84 584 2 HOH HOH . 
F 5 HOH A 85 585 69 HOH HOH . 
F 5 HOH A 86 586 53 HOH HOH . 
F 5 HOH A 87 587 63 HOH HOH . 
F 5 HOH A 88 588 40 HOH HOH . 
F 5 HOH A 89 589 116 HOH HOH . 
F 5 HOH A 90 590 71 HOH HOH . 
F 5 HOH A 91 591 18 HOH HOH . 
F 5 HOH A 92 592 82 HOH HOH . 
F 5 HOH A 93 593 85 HOH HOH . 
F 5 HOH A 94 594 55 HOH HOH . 
F 5 HOH A 95 595 68 HOH HOH . 
F 5 HOH A 96 596 33 HOH HOH . 
F 5 HOH A 97 597 44 HOH HOH . 
F 5 HOH A 98 598 8 HOH HOH . 
F 5 HOH A 99 599 10 HOH HOH . 
F 5 HOH A 100 600 49 HOH HOH . 
F 5 HOH A 101 601 109 HOH HOH . 
F 5 HOH A 102 602 110 HOH HOH . 
F 5 HOH A 103 603 113 HOH HOH . 
F 5 HOH A 104 604 51 HOH HOH . 
F 5 HOH A 105 605 36 HOH HOH . 
F 5 HOH A 106 606 104 HOH HOH . 
F 5 HOH A 107 607 97 HOH HOH . 
F 5 HOH A 108 608 24 HOH HOH . 
F 5 HOH A 109 609 28 HOH HOH . 
F 5 HOH A 110 610 12 HOH HOH . 
F 5 HOH A 111 611 19 HOH HOH . 
F 5 HOH A 112 612 89 HOH HOH . 
F 5 HOH A 113 613 61 HOH HOH . 
F 5 HOH A 114 614 20 HOH HOH . 
F 5 HOH A 115 615 26 HOH HOH . 
F 5 HOH A 116 616 84 HOH HOH . 
F 5 HOH A 117 617 137 HOH HOH . 
F 5 HOH A 118 618 112 HOH HOH . 
F 5 HOH A 119 619 130 HOH HOH . 
F 5 HOH A 120 620 5 HOH HOH . 
F 5 HOH A 121 621 119 HOH HOH . 
F 5 HOH A 122 622 132 HOH HOH . 
F 5 HOH A 123 623 90 HOH HOH . 
F 5 HOH A 124 624 136 HOH HOH . 
F 5 HOH A 125 625 87 HOH HOH . 
F 5 HOH A 126 626 135 HOH HOH . 
F 5 HOH A 127 627 41 HOH HOH . 
F 5 HOH A 128 628 64 HOH HOH . 
F 5 HOH A 129 629 117 HOH HOH . 
F 5 HOH A 130 630 122 HOH HOH . 
F 5 HOH A 131 631 120 HOH HOH . 
F 5 HOH A 132 632 94 HOH HOH . 
F 5 HOH A 133 633 95 HOH HOH . 
F 5 HOH A 134 634 121 HOH HOH . 
F 5 HOH A 135 635 107 HOH HOH . 
F 5 HOH A 136 636 108 HOH HOH . 
F 5 HOH A 137 637 123 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 N N1 A1ITW . . . D 3 7.437 -2.012 22.133 1 35.7 ? N1 A1ITW 403 A 1 
HETATM 2 C C4 A1ITW . . . D 3 5.348 0.886 21.498 1 32.29 ? C4 A1ITW 403 A 1 
HETATM 3 C C5 A1ITW . . . D 3 4.344 1.853 21.436 1 34.38 ? C5 A1ITW 403 A 1 
HETATM 4 C C6 A1ITW . . . D 3 4.021 2.413 20.193 1 32.98 ? C6 A1ITW 403 A 1 
HETATM 5 C C7 A1ITW . . . D 3 6.514 0.501 18.065 1 31.79 ? C7 A1ITW 403 A 1 
HETATM 6 C C8 A1ITW . . . D 3 7.193 -0.724 18.623 1 29.33 ? C8 A1ITW 403 A 1 
HETATM 7 C C10 A1ITW . . . D 3 6.912 -1.809 20.887 1 34.9 ? C10 A1ITW 403 A 1 
HETATM 8 C C13 A1ITW . . . D 3 9.69 -3.237 23.336 1 32.31 ? C13 A1ITW 403 A 1 
HETATM 9 C C15 A1ITW . . . D 3 7.286 -3.247 22.88 1 33.28 ? C15 A1ITW 403 A 1 
HETATM 10 C C17 A1ITW . . . D 3 11.977 -0.768 22.236 1 42.8 ? C17 A1ITW 403 A 1 
HETATM 11 C C20 A1ITW . . . D 3 11.895 0.419 24.74 1 40.05 ? C20 A1ITW 403 A 1 
HETATM 12 C C21 A1ITW . . . D 3 10.895 -0.438 24.358 1 42.28 ? C21 A1ITW 403 A 1 
HETATM 13 C C1 A1ITW . . . D 3 4.688 2.068 19.046 1 31.8 ? C1 A1ITW 403 A 1 
HETATM 14 C C2 A1ITW . . . D 3 5.668 1.06 19.115 1 28.64 ? C2 A1ITW 403 A 1 
HETATM 15 C C3 A1ITW . . . D 3 6.017 0.519 20.345 1 28.13 ? C3 A1ITW 403 A 1 
HETATM 16 C C9 A1ITW . . . D 3 7.143 -0.503 20.141 1 31.06 ? C9 A1ITW 403 A 1 
HETATM 17 O O1 A1ITW . . . D 3 6.651 0.918 16.927 1 30.58 ? O1 A1ITW 403 A 1 
HETATM 18 O O2 A1ITW . . . D 3 6.202 -2.663 20.381 1 34.25 ? O2 A1ITW 403 A 1 
HETATM 19 C C11 A1ITW . . . D 3 8.453 -1.152 22.712 1 34.84 ? C11 A1ITW 403 A 1 
HETATM 20 C C12 A1ITW . . . D 3 9.78 -1.879 22.636 1 36.85 ? C12 A1ITW 403 A 1 
HETATM 21 C C14 A1ITW . . . D 3 8.564 -4.049 22.703 1 35.41 ? C14 A1ITW 403 A 1 
HETATM 22 C C16 A1ITW . . . D 3 10.922 -1.03 23.099 1 39.07 ? C16 A1ITW 403 A 1 
HETATM 23 C C18 A1ITW . . . D 3 13.018 0.035 22.654 1 43.93 ? C18 A1ITW 403 A 1 
HETATM 24 C C19 A1ITW . . . D 3 12.966 0.63 23.896 1 42.01 ? C19 A1ITW 403 A 1 
HETATM 25 H H2 A1ITW . . . D 3 5.586 0.497 22.326 1 31.98 ? H2 A1ITW 403 A 1 
HETATM 26 H H3 A1ITW . . . D 3 3.888 2.124 22.216 1 34.43 ? H3 A1ITW 403 A 1 
HETATM 27 H H4 A1ITW . . . D 3 3.344 3.07 20.15 1 33.65 ? H4 A1ITW 403 A 1 
HETATM 28 H H5 A1ITW . . . D 3 8.11 -0.779 18.301 1 29.79 ? H5 A1ITW 403 A 1 
HETATM 29 H H6 A1ITW . . . D 3 6.712 -1.528 18.358 1 29.93 ? H6 A1ITW 403 A 1 
HETATM 30 H H11 A1ITW . . . D 3 9.512 -3.107 24.295 1 34.53 ? H11 A1ITW 403 A 1 
HETATM 31 H H12 A1ITW . . . D 3 10.544 -3.718 23.241 1 33.8 ? H12 A1ITW 403 A 1 
HETATM 32 H H16 A1ITW . . . D 3 6.517 -3.759 22.545 1 34.3 ? H16 A1ITW 403 A 1 
HETATM 33 H H15 A1ITW . . . D 3 7.142 -3.051 23.833 1 34.94 ? H15 A1ITW 403 A 1 
HETATM 34 H H17 A1ITW . . . D 3 12.004 -1.178 21.384 1 41.25 ? H17 A1ITW 403 A 1 
HETATM 35 H H20 A1ITW . . . D 3 11.888 0.799 25.603 1 41.94 ? H20 A1ITW 403 A 1 
HETATM 36 H H21 A1ITW . . . D 3 10.15 -0.576 24.925 1 41.3 ? H21 A1ITW 403 A 1 
HETATM 37 H H1 A1ITW . . . D 3 4.442 2.439 18.219 1 31.12 ? H1 A1ITW 403 A 1 
HETATM 38 H H7 A1ITW . . . D 3 7.991 -0.106 20.434 1 30.99 ? H7 A1ITW 403 A 1 
HETATM 39 H H8 A1ITW . . . D 3 8.233 -0.967 23.662 1 36.26 ? H8 A1ITW 403 A 1 
HETATM 40 H H9 A1ITW . . . D 3 8.512 -0.301 22.217 1 35.69 ? H9 A1ITW 403 A 1 
HETATM 41 H H10 A1ITW . . . D 3 9.937 -2.065 21.676 1 35.4 ? H10 A1ITW 403 A 1 
HETATM 42 H H14 A1ITW . . . D 3 8.743 -4.193 21.751 1 33.57 ? H14 A1ITW 403 A 1 
HETATM 43 H H13 A1ITW . . . D 3 8.482 -4.918 23.146 1 34.06 ? H13 A1ITW 403 A 1 
HETATM 44 H H18 A1ITW . . . D 3 13.744 0.206 22.075 1 42.89 ? H18 A1ITW 403 A 1 
HETATM 45 H H19 A1ITW . . . D 3 13.676 1.185 24.176 1 42.51 ? H19 A1ITW 403 A 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           292 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           45 
#