data_8YX3
#
_model_server_result.job_id            JwsImO0mpIGF7t-6ceylKA 
_model_server_result.datetime_utc      '2024-12-16 04:30:08' 
_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          8yx3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":500}' 
#
_entry.id    8YX3 
#
_exptl.entry_id    8YX3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              453.618 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ~{N}-[1-(1,2-dihydroacenaphthylen-5-yl)cyclopropyl]-5-[(3~{S})-4-ethyl-3-methyl-piperazin-1-yl]-2-methyl-benzamide 
_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            8YX3 
_cell.length_a            60.31 
_cell.length_b            95.44 
_cell.length_c            145.77 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YX3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E 1 1 
B,D,F 2 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 D N N 
#
_chem_comp.formula           'C30 H35 N3 O' 
_chem_comp.formula_weight    453.618 
_chem_comp.id                A1LZ7 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ~{N}-[1-(1,2-dihydroacenaphthylen-5-yl)cyclopropyl]-5-[(3~{S})-4-ethyl-3-methyl-piperazin-1-yl]-2-methyl-benzamide 
_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
C30 C29 A1LZ7 sing 1 n n 
C30 C26 A1LZ7 sing 2 n n 
C29 C28 A1LZ7 sing 3 n n 
C26 C25 A1LZ7 doub 4 n y 
C26 C27 A1LZ7 sing 5 n y 
C28 C31 A1LZ7 sing 6 n y 
C28 C27 A1LZ7 doub 7 n y 
C25 C24 A1LZ7 sing 8 n y 
C31 C32 A1LZ7 doub 9 n y 
C27 C34 A1LZ7 sing 10 n y 
C24 C23 A1LZ7 doub 11 n y 
C34 C23 A1LZ7 sing 12 n y 
C34 C33 A1LZ7 doub 13 n y 
C32 C33 A1LZ7 sing 14 n y 
C23 C20 A1LZ7 sing 15 n n 
C22 C20 A1LZ7 sing 16 n n 
C22 C21 A1LZ7 sing 17 n n 
C20 C21 A1LZ7 sing 18 n n 
C20 N19 A1LZ7 sing 19 n n 
N19 C02 A1LZ7 sing 20 n n 
O01 C02 A1LZ7 doub 21 n n 
C02 C03 A1LZ7 sing 22 n n 
C03 C18 A1LZ7 doub 23 n y 
C03 C04 A1LZ7 sing 24 n y 
C18 C08 A1LZ7 sing 25 n y 
C05 C04 A1LZ7 sing 26 n n 
C04 C06 A1LZ7 doub 27 n y 
C17 C16 A1LZ7 sing 28 n n 
C17 N09 A1LZ7 sing 29 n n 
C16 N13 A1LZ7 sing 30 n n 
C08 N09 A1LZ7 sing 31 n n 
C08 C07 A1LZ7 doub 32 n y 
N09 C10 A1LZ7 sing 33 n n 
C06 C07 A1LZ7 sing 34 n y 
N13 C14 A1LZ7 sing 35 n n 
N13 C11 A1LZ7 sing 36 n n 
C14 C15 A1LZ7 sing 37 n n 
C10 C11 A1LZ7 sing 38 n n 
C11 C12 A1LZ7 sing 39 n n 
C32 H1 A1LZ7 sing 40 n n 
C33 H2 A1LZ7 sing 41 n n 
C12 H3 A1LZ7 sing 42 n n 
C12 H4 A1LZ7 sing 43 n n 
C12 H5 A1LZ7 sing 44 n n 
C16 H6 A1LZ7 sing 45 n n 
C16 H7 A1LZ7 sing 46 n n 
C17 H8 A1LZ7 sing 47 n n 
C17 H9 A1LZ7 sing 48 n n 
C05 H10 A1LZ7 sing 49 n n 
C05 H11 A1LZ7 sing 50 n n 
C05 H12 A1LZ7 sing 51 n n 
C06 H13 A1LZ7 sing 52 n n 
C07 H14 A1LZ7 sing 53 n n 
C10 H15 A1LZ7 sing 54 n n 
C10 H16 A1LZ7 sing 55 n n 
C11 H17 A1LZ7 sing 56 n n 
C14 H18 A1LZ7 sing 57 n n 
C14 H19 A1LZ7 sing 58 n n 
C15 H20 A1LZ7 sing 59 n n 
C15 H21 A1LZ7 sing 60 n n 
C15 H22 A1LZ7 sing 61 n n 
C18 H23 A1LZ7 sing 62 n n 
C21 H24 A1LZ7 sing 63 n n 
C21 H25 A1LZ7 sing 64 n n 
C22 H26 A1LZ7 sing 65 n n 
C22 H27 A1LZ7 sing 66 n n 
C24 H28 A1LZ7 sing 67 n n 
C25 H29 A1LZ7 sing 68 n n 
C29 H30 A1LZ7 sing 69 n n 
C30 H31 A1LZ7 sing 70 n n 
C31 H32 A1LZ7 sing 71 n n 
N19 H34 A1LZ7 sing 72 n n 
C29 H35 A1LZ7 sing 73 n n 
C30 H36 A1LZ7 sing 74 n n 
#
_atom_sites.entry_id                     8YX3 
_atom_sites.fract_transf_matrix[1][1]    0.016581 
_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]    0.010478 
_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]    0.00686 
_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 A1LZ7 A 1 500 500 A1LZ7 335 . 
D 2 A1LZ7 B 1 500 500 A1LZ7 335 . 
E 3 HOH A 1 601 23 HOH HOH . 
E 3 HOH A 2 602 54 HOH HOH . 
E 3 HOH A 3 603 53 HOH HOH . 
E 3 HOH A 4 604 31 HOH HOH . 
E 3 HOH A 5 605 17 HOH HOH . 
E 3 HOH A 6 606 14 HOH HOH . 
E 3 HOH A 7 607 51 HOH HOH . 
E 3 HOH A 8 608 18 HOH HOH . 
E 3 HOH A 9 609 39 HOH HOH . 
E 3 HOH A 10 610 11 HOH HOH . 
E 3 HOH A 11 611 42 HOH HOH . 
E 3 HOH A 12 612 13 HOH HOH . 
E 3 HOH A 13 613 40 HOH HOH . 
E 3 HOH A 14 614 2 HOH HOH . 
E 3 HOH A 15 615 21 HOH HOH . 
E 3 HOH A 16 616 48 HOH HOH . 
E 3 HOH A 17 617 3 HOH HOH . 
E 3 HOH A 18 618 44 HOH HOH . 
E 3 HOH A 19 619 61 HOH HOH . 
E 3 HOH A 20 620 58 HOH HOH . 
E 3 HOH A 21 621 46 HOH HOH . 
E 3 HOH A 22 622 43 HOH HOH . 
E 3 HOH A 23 623 57 HOH HOH . 
E 3 HOH A 24 624 15 HOH HOH . 
E 3 HOH A 25 625 33 HOH HOH . 
E 3 HOH A 26 626 20 HOH HOH . 
E 3 HOH A 27 627 16 HOH HOH . 
E 3 HOH A 28 628 28 HOH HOH . 
E 3 HOH A 29 629 41 HOH HOH . 
E 3 HOH A 30 630 22 HOH HOH . 
E 3 HOH A 31 631 52 HOH HOH . 
E 3 HOH A 32 632 19 HOH HOH . 
F 3 HOH B 1 601 10 HOH HOH . 
F 3 HOH B 2 602 47 HOH HOH . 
F 3 HOH B 3 603 5 HOH HOH . 
F 3 HOH B 4 604 29 HOH HOH . 
F 3 HOH B 5 605 26 HOH HOH . 
F 3 HOH B 6 606 4 HOH HOH . 
F 3 HOH B 7 607 1 HOH HOH . 
F 3 HOH B 8 608 30 HOH HOH . 
F 3 HOH B 9 609 37 HOH HOH . 
F 3 HOH B 10 610 6 HOH HOH . 
F 3 HOH B 11 611 24 HOH HOH . 
F 3 HOH B 12 612 45 HOH HOH . 
F 3 HOH B 13 613 25 HOH HOH . 
F 3 HOH B 14 614 59 HOH HOH . 
F 3 HOH B 15 615 27 HOH HOH . 
F 3 HOH B 16 616 49 HOH HOH . 
F 3 HOH B 17 617 9 HOH HOH . 
F 3 HOH B 18 618 36 HOH HOH . 
F 3 HOH B 19 619 56 HOH HOH . 
F 3 HOH B 20 620 12 HOH HOH . 
F 3 HOH B 21 621 50 HOH HOH . 
F 3 HOH B 22 622 32 HOH HOH . 
F 3 HOH B 23 623 35 HOH HOH . 
F 3 HOH B 24 624 34 HOH HOH . 
F 3 HOH B 25 625 60 HOH HOH . 
F 3 HOH B 26 626 7 HOH HOH . 
F 3 HOH B 27 627 62 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 C32 A1LZ7 . . . D 2 -9.542 6.898 -24.265 1 44.05 ? C32 A1LZ7 500 B 1 
HETATM 2 C C33 A1LZ7 . . . D 2 -10.506 7.115 -25.264 1 26.82 ? C33 A1LZ7 500 B 1 
HETATM 3 C C12 A1LZ7 . . . D 2 -11.43 13.015 -31.542 1 49.97 ? C12 A1LZ7 500 B 1 
HETATM 4 C C16 A1LZ7 . . . D 2 -10.41 12.522 -34.524 1 36.69 ? C16 A1LZ7 500 B 1 
HETATM 5 C C17 A1LZ7 . . . D 2 -9.946 11.091 -34.22 1 35.25 ? C17 A1LZ7 500 B 1 
HETATM 6 C C02 A1LZ7 . . . D 2 -10.896 7.228 -29.255 1 36.03 ? C02 A1LZ7 500 B 1 
HETATM 7 C C03 A1LZ7 . . . D 2 -10.599 7.532 -30.671 1 28.42 ? C03 A1LZ7 500 B 1 
HETATM 8 C C04 A1LZ7 . . . D 2 -10.488 6.52 -31.644 1 31.83 ? C04 A1LZ7 500 B 1 
HETATM 9 C C05 A1LZ7 . . . D 2 -10.628 5.072 -31.271 1 30 ? C05 A1LZ7 500 B 1 
HETATM 10 C C06 A1LZ7 . . . D 2 -10.206 6.873 -32.963 1 28.76 ? C06 A1LZ7 500 B 1 
HETATM 11 C C07 A1LZ7 . . . D 2 -10.098 8.211 -33.361 1 29.99 ? C07 A1LZ7 500 B 1 
HETATM 12 C C08 A1LZ7 . . . D 2 -10.207 9.257 -32.44 1 34.96 ? C08 A1LZ7 500 B 1 
HETATM 13 C C10 A1LZ7 . . . D 2 -9.515 11.596 -31.92 1 32.98 ? C10 A1LZ7 500 B 1 
HETATM 14 C C11 A1LZ7 . . . D 2 -10.064 12.976 -32.076 1 31.18 ? C11 A1LZ7 500 B 1 
HETATM 15 C C14 A1LZ7 . . . D 2 -10.7 14.802 -33.674 1 43.27 ? C14 A1LZ7 500 B 1 
HETATM 16 C C15 A1LZ7 . . . D 2 -11.038 15.002 -35.136 1 42.18 ? C15 A1LZ7 500 B 1 
HETATM 17 C C18 A1LZ7 . . . D 2 -10.473 8.853 -31.099 1 24.78 ? C18 A1LZ7 500 B 1 
HETATM 18 C C20 A1LZ7 . . . D 2 -12.547 7.609 -27.352 1 41.51 ? C20 A1LZ7 500 B 1 
HETATM 19 C C21 A1LZ7 . . . D 2 -13.08 6.183 -27.024 1 33.05 ? C21 A1LZ7 500 B 1 
HETATM 20 C C22 A1LZ7 . . . D 2 -14.034 7.208 -27.506 1 36.58 ? C22 A1LZ7 500 B 1 
HETATM 21 C C23 A1LZ7 . . . D 2 -12.057 8.648 -26.354 1 41.5 ? C23 A1LZ7 500 B 1 
HETATM 22 C C24 A1LZ7 . . . D 2 -12.519 9.995 -26.342 1 36.36 ? C24 A1LZ7 500 B 1 
HETATM 23 C C25 A1LZ7 . . . D 2 -12.051 11.043 -25.415 1 32.72 ? C25 A1LZ7 500 B 1 
HETATM 24 C C26 A1LZ7 . . . D 2 -11.094 10.744 -24.437 1 39.43 ? C26 A1LZ7 500 B 1 
HETATM 25 C C27 A1LZ7 . . . D 2 -10.623 9.373 -24.471 1 38.91 ? C27 A1LZ7 500 B 1 
HETATM 26 C C28 A1LZ7 . . . D 2 -9.63 9.184 -23.43 1 33.9 ? C28 A1LZ7 500 B 1 
HETATM 27 C C29 A1LZ7 . . . D 2 -9.421 10.436 -22.699 1 25.07 ? C29 A1LZ7 500 B 1 
HETATM 28 C C30 A1LZ7 . . . D 2 -10.387 11.49 -23.326 1 32.9 ? C30 A1LZ7 500 B 1 
HETATM 29 C C31 A1LZ7 . . . D 2 -9.097 7.916 -23.344 1 36.81 ? C31 A1LZ7 500 B 1 
HETATM 30 C C34 A1LZ7 . . . D 2 -11.055 8.417 -25.369 1 35.18 ? C34 A1LZ7 500 B 1 
HETATM 31 N N09 A1LZ7 . . . D 2 -10.143 10.657 -32.783 1 35.1 ? N09 A1LZ7 500 B 1 
HETATM 32 N N13 A1LZ7 . . . D 2 -9.941 13.509 -33.52 1 41.88 ? N13 A1LZ7 500 B 1 
HETATM 33 N N19 A1LZ7 . . . D 2 -12.044 7.735 -28.639 1 41.45 ? N19 A1LZ7 500 B 1 
HETATM 34 O O01 A1LZ7 . . . D 2 -10.123 6.495 -28.578 1 32.12 ? O01 A1LZ7 500 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           355 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           34 
#