data_5WBR
#
_model_server_result.job_id            N8ZLMTabTV3RRtimKpnEsg 
_model_server_result.datetime_utc      '2024-12-21 17:11:18' 
_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          5wbr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":301}' 
#
_entry.id    5WBR 
#
_exptl.entry_id    5WBR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              413.437 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            6-[4-(2-hydroxyethyl)piperazin-1-yl]-2-[(3S)-3-(hydroxymethyl)piperidin-1-yl]-4-(trifluoromethyl)pyridine-3-carbonitrile 
_entity.pdbx_number_of_molecules    2 
_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            5WBR 
_cell.length_a            83.19 
_cell.length_b            86.16 
_cell.length_c            137.97 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5WBR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 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,I,J,K,L,M 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 F N N 
#
_chem_comp.formula           'C19 H26 F3 N5 O2' 
_chem_comp.formula_weight    413.437 
_chem_comp.id                A3Y 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              6-[4-(2-hydroxyethyl)piperazin-1-yl]-2-[(3S)-3-(hydroxymethyl)piperidin-1-yl]-4-(trifluoromethyl)pyridine-3-carbonitrile 
_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
C10 C11 A3Y sing 1 n n 
C10 N3 A3Y sing 2 n n 
C11 O1 A3Y sing 3 n n 
C7 N3 A3Y sing 4 n n 
C7 C6 A3Y sing 5 n n 
N3 C8 A3Y sing 6 n n 
C6 N2 A3Y sing 7 n n 
C8 C9 A3Y sing 8 n n 
F1 C19 A3Y sing 9 n n 
F3 C19 A3Y sing 10 n n 
C1 C5 A3Y doub 11 n y 
C1 C2 A3Y sing 12 n y 
N2 C5 A3Y sing 13 n n 
N2 C9 A3Y sing 14 n n 
C19 C2 A3Y sing 15 n n 
C19 F2 A3Y sing 16 n n 
C5 N1 A3Y sing 17 n y 
C2 C3 A3Y doub 18 n y 
N1 C4 A3Y doub 19 n y 
C3 C18 A3Y sing 20 n n 
C3 C4 A3Y sing 21 n y 
C18 N5 A3Y trip 22 n n 
C4 N4 A3Y sing 23 n n 
N4 C16 A3Y sing 24 n n 
N4 C12 A3Y sing 25 n n 
C16 C15 A3Y sing 26 n n 
O2 C17 A3Y sing 27 n n 
C12 C13 A3Y sing 28 n n 
C15 C17 A3Y sing 29 n n 
C15 C14 A3Y sing 30 n n 
C13 C14 A3Y sing 31 n n 
C7 H4 A3Y sing 32 n n 
C7 H5 A3Y sing 33 n n 
C6 H2 A3Y sing 34 n n 
C6 H3 A3Y sing 35 n n 
C9 H8 A3Y sing 36 n n 
C9 H9 A3Y sing 37 n n 
C13 H18 A3Y sing 38 n n 
C13 H17 A3Y sing 39 n n 
C8 H7 A3Y sing 40 n n 
C8 H6 A3Y sing 41 n n 
C16 H23 A3Y sing 42 n n 
C16 H22 A3Y sing 43 n n 
C1 H1 A3Y sing 44 n n 
C10 H10 A3Y sing 45 n n 
C10 H11 A3Y sing 46 n n 
C11 H13 A3Y sing 47 n n 
C11 H12 A3Y sing 48 n n 
O1 H14 A3Y sing 49 n n 
C12 H16 A3Y sing 50 n n 
C12 H15 A3Y sing 51 n n 
C14 H19 A3Y sing 52 n n 
C14 H20 A3Y sing 53 n n 
C15 H21 A3Y sing 54 n n 
C17 H24 A3Y sing 55 n n 
C17 H25 A3Y sing 56 n n 
O2 H26 A3Y sing 57 n n 
#
_atom_sites.entry_id                     5WBR 
_atom_sites.fract_transf_matrix[1][1]    0.012021 
_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]    0.011606 
_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]    0.007248 
_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
C 2 A3Y A 1 301 2 A3Y PFE . 
D 3 SO4 A 1 302 1 SO4 SO4 . 
E 4 CIT A 1 303 1 CIT CIT . 
F 2 A3Y B 1 301 1 A3Y PFE . 
G 3 SO4 B 1 302 2 SO4 SO4 . 
H 3 SO4 B 1 303 3 SO4 SO4 . 
I 3 SO4 B 1 304 4 SO4 SO4 . 
J 3 SO4 B 1 305 5 SO4 SO4 . 
K 5 GOL B 1 306 1 GOL GOL . 
L 6 HOH A 1 401 10 HOH HOH . 
L 6 HOH A 2 402 24 HOH HOH . 
L 6 HOH A 3 403 2 HOH HOH . 
L 6 HOH A 4 404 4 HOH HOH . 
L 6 HOH A 5 405 16 HOH HOH . 
L 6 HOH A 6 406 12 HOH HOH . 
L 6 HOH A 7 407 25 HOH HOH . 
L 6 HOH A 8 408 6 HOH HOH . 
L 6 HOH A 9 409 18 HOH HOH . 
L 6 HOH A 10 410 11 HOH HOH . 
L 6 HOH A 11 411 5 HOH HOH . 
L 6 HOH A 12 412 23 HOH HOH . 
L 6 HOH A 13 413 21 HOH HOH . 
M 6 HOH B 1 401 1 HOH HOH . 
M 6 HOH B 2 402 33 HOH HOH . 
M 6 HOH B 3 403 14 HOH HOH . 
M 6 HOH B 4 404 13 HOH HOH . 
M 6 HOH B 5 405 27 HOH HOH . 
M 6 HOH B 6 406 36 HOH HOH . 
M 6 HOH B 7 407 35 HOH HOH . 
M 6 HOH B 8 408 34 HOH HOH . 
M 6 HOH B 9 409 20 HOH HOH . 
M 6 HOH B 10 410 7 HOH HOH . 
M 6 HOH B 11 411 30 HOH HOH . 
M 6 HOH B 12 412 17 HOH HOH . 
M 6 HOH B 13 413 32 HOH HOH . 
M 6 HOH B 14 414 19 HOH HOH . 
M 6 HOH B 15 415 28 HOH HOH . 
M 6 HOH B 16 416 31 HOH HOH . 
M 6 HOH B 17 417 26 HOH HOH . 
M 6 HOH B 18 418 22 HOH HOH . 
M 6 HOH B 19 419 15 HOH HOH . 
M 6 HOH B 20 420 8 HOH HOH . 
M 6 HOH B 21 421 9 HOH HOH . 
M 6 HOH B 22 422 37 HOH HOH . 
M 6 HOH B 23 423 3 HOH HOH . 
M 6 HOH B 24 424 29 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 N3 A3Y . . . F 2 -24.88 18.318 51.761 1 80.51 ? N3 A3Y 301 B 1 
HETATM 2 C C4 A3Y . . . F 2 -25.61 23.35 55.509 1 68 ? C4 A3Y 301 B 1 
HETATM 3 N N2 A3Y . . . F 2 -25.856 20.628 53.13 1 71.8 ? N2 A3Y 301 B 1 
HETATM 4 C C7 A3Y . . . F 2 -25.864 19.194 51.114 1 77.98 ? C7 A3Y 301 B 1 
HETATM 5 C C6 A3Y . . . F 2 -26.71 19.917 52.15 1 75.87 ? C6 A3Y 301 B 1 
HETATM 6 C C9 A3Y . . . F 2 -24.741 19.83 53.674 1 74.57 ? C9 A3Y 301 B 1 
HETATM 7 C C13 A3Y . . . F 2 -24.888 23.977 59.122 1 65.05 ? C13 A3Y 301 B 1 
HETATM 8 C C8 A3Y . . . F 2 -23.982 19.143 52.576 1 78.4 ? C8 A3Y 301 B 1 
HETATM 9 N N5 A3Y . . . F 2 -26.656 26.685 55.823 1 67.89 ? N5 A3Y 301 B 1 
HETATM 10 C C18 A3Y . . . F 2 -26.618 25.641 55.421 1 67.82 ? C18 A3Y 301 B 1 
HETATM 11 C C16 A3Y . . . F 2 -23.597 22.914 56.745 1 69.31 ? C16 A3Y 301 B 1 
HETATM 12 C C19 A3Y . . . F 2 -28.512 24.831 53.41 1 73.52 ? C19 A3Y 301 B 1 
HETATM 13 C C1 A3Y . . . F 2 -27.102 22.759 53.123 1 67.02 ? C1 A3Y 301 B 1 
HETATM 14 C C2 A3Y . . . F 2 -27.312 23.941 53.813 1 70.73 ? C2 A3Y 301 B 1 
HETATM 15 C C3 A3Y . . . F 2 -26.54 24.306 54.965 1 70.32 ? C3 A3Y 301 B 1 
HETATM 16 N N1 A3Y . . . F 2 -25.448 22.167 54.827 1 67.06 ? N1 A3Y 301 B 1 
HETATM 17 C C5 A3Y . . . F 2 -26.129 21.816 53.643 1 68.08 ? C5 A3Y 301 B 1 
HETATM 18 C C10 A3Y . . . F 2 -24.163 17.496 50.764 1 84.52 ? C10 A3Y 301 B 1 
HETATM 19 C C11 A3Y . . . F 2 -22.663 17.32 50.974 1 88.25 ? C11 A3Y 301 B 1 
HETATM 20 O O1 A3Y . . . F 2 -22.37 16.542 52.152 1 89.26 ? O1 A3Y 301 B 1 
HETATM 21 N N4 A3Y . . . F 2 -24.943 23.485 56.643 1 68.98 ? N4 A3Y 301 B 1 
HETATM 22 C C12 A3Y . . . F 2 -25.253 24.463 57.724 1 67.3 ? C12 A3Y 301 B 1 
HETATM 23 C C14 A3Y . . . F 2 -23.525 23.308 59.126 1 67.99 ? C14 A3Y 301 B 1 
HETATM 24 C C15 A3Y . . . F 2 -23.432 22.202 58.082 1 71.71 ? C15 A3Y 301 B 1 
HETATM 25 C C17 A3Y . . . F 2 -22.084 21.507 58.094 1 74.9 ? C17 A3Y 301 B 1 
HETATM 26 O O2 A3Y . . . F 2 -22.106 20.287 57.359 1 77.47 ? O2 A3Y 301 B 1 
HETATM 27 F F1 A3Y . . . F 2 -29.403 24.181 52.659 1 76.17 ? F1 A3Y 301 B 1 
HETATM 28 F F2 A3Y . . . F 2 -29.307 25.275 54.398 1 72.27 ? F2 A3Y 301 B 1 
HETATM 29 F F3 A3Y . . . F 2 -28.119 25.958 52.779 1 75.28 ? F3 A3Y 301 B 1 
HETATM 30 H H4 A3Y . . . F 2 -26.539 18.585 50.515 1 77.83 ? H4 A3Y 301 B 1 
HETATM 31 H H5 A3Y . . . F 2 -25.439 19.921 50.423 1 77.97 ? H5 A3Y 301 B 1 
HETATM 32 H H2 A3Y . . . F 2 -27.322 19.204 52.701 1 76.12 ? H2 A3Y 301 B 1 
HETATM 33 H H3 A3Y . . . F 2 -27.432 20.538 51.622 1 76.15 ? H3 A3Y 301 B 1 
HETATM 34 H H8 A3Y . . . F 2 -24.024 20.404 54.26 1 74.45 ? H8 A3Y 301 B 1 
HETATM 35 H H9 A3Y . . . F 2 -25.137 19.071 54.346 1 75.04 ? H9 A3Y 301 B 1 
HETATM 36 H H18 A3Y . . . F 2 -25.636 23.278 59.492 1 64.83 ? H18 A3Y 301 B 1 
HETATM 37 H H17 A3Y . . . F 2 -24.9 24.817 59.815 1 63.91 ? H17 A3Y 301 B 1 
HETATM 38 H H7 A3Y . . . F 2 -23.385 19.862 52.018 1 79.15 ? H7 A3Y 301 B 1 
HETATM 39 H H6 A3Y . . . F 2 -23.235 18.549 53.099 1 78.33 ? H6 A3Y 301 B 1 
HETATM 40 H H23 A3Y . . . F 2 -22.857 23.706 56.643 1 69.5 ? H23 A3Y 301 B 1 
HETATM 41 H H22 A3Y . . . F 2 -23.381 22.224 55.931 1 68.37 ? H22 A3Y 301 B 1 
HETATM 42 H H1 A3Y . . . F 2 -27.629 22.557 52.192 1 66.52 ? H1 A3Y 301 B 1 
HETATM 43 H H10 A3Y . . . F 2 -24.612 16.505 50.805 1 84.24 ? H10 A3Y 301 B 1 
HETATM 44 H H11 A3Y . . . F 2 -24.31 17.807 49.73 1 84.69 ? H11 A3Y 301 B 1 
HETATM 45 H H13 A3Y . . . F 2 -22.085 18.24 50.892 1 87.67 ? H13 A3Y 301 B 1 
HETATM 46 H H12 A3Y . . . F 2 -22.269 16.697 50.173 1 89.13 ? H12 A3Y 301 B 1 
HETATM 47 H H14 A3Y . . . F 2 -21.388 16.574 52.296 1 89.26 ? H14 A3Y 301 B 1 
HETATM 48 H H16 A3Y . . . F 2 -26.311 24.718 57.74 1 67.26 ? H16 A3Y 301 B 1 
HETATM 49 H H15 A3Y . . . F 2 -24.745 25.405 57.524 1 67.66 ? H15 A3Y 301 B 1 
HETATM 50 H H19 A3Y . . . F 2 -22.738 24.046 58.978 1 67.77 ? H19 A3Y 301 B 1 
HETATM 51 H H20 A3Y . . . F 2 -23.333 22.909 60.121 1 68.15 ? H20 A3Y 301 B 1 
HETATM 52 H H21 A3Y . . . F 2 -24.22 21.47 58.253 1 72.43 ? H21 A3Y 301 B 1 
HETATM 53 H H24 A3Y . . . F 2 -21.349 22.187 57.668 1 74.98 ? H24 A3Y 301 B 1 
HETATM 54 H H25 A3Y . . . F 2 -21.748 21.314 59.112 1 75.03 ? H25 A3Y 301 B 1 
HETATM 55 H H26 A3Y . . . F 2 -21.65 19.621 57.937 1 77.67 ? H26 A3Y 301 B 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          16 
_model_server_stats.element_count           55 
#