data_8EFL
#
_model_server_result.job_id            TyNx2OqhtsEDj2pI4fcecQ 
_model_server_result.datetime_utc      '2024-11-22 23:01:06' 
_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          8efl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":401}' 
#
_entry.id    8EFL 
#
_exptl.entry_id    8EFL 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              410.725 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5,6-dichloro-1-{1-[(4-chlorophenyl)methyl]piperidin-4-yl}-1,3-dihydro-2H-benzimidazol-2-one 
_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            8EFL 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8EFL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_pdbx_struct_assembly.details               author_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,N,O,P,Q,R,S 
_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    ? 
_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
? 6 H N N 
? 6 N N 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 141 R CYS 142 1_555 A SG CYS 218 R CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf2 E SG CYS 160 E CYS 160 1_555 E SG CYS 230 E CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf3 F SG CYS 141 M CYS 142 1_555 F SG CYS 218 M CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
#
_chem_comp.formula           'C19 H18 Cl3 N3 O' 
_chem_comp.formula_weight    410.725 
_chem_comp.id                WH9 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5,6-dichloro-1-{1-[(4-chlorophenyl)methyl]piperidin-4-yl}-1,3-dihydro-2H-benzimidazol-2-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
N01 C03 WH9 sing 451 n n 
N01 C07 WH9 sing 452 n n 
C01 C03 WH9 doub 453 n y 
C01 C02 WH9 sing 454 n y 
CL3 C02 WH9 sing 455 n n 
C03 C05 WH9 sing 456 n y 
O01 C07 WH9 doub 457 n n 
C07 N02 WH9 sing 458 n n 
C02 C04 WH9 doub 459 n y 
C05 N02 WH9 sing 460 n n 
C05 C06 WH9 doub 461 n y 
N02 C08 WH9 sing 462 n n 
C04 C06 WH9 sing 463 n y 
C04 CL2 WH9 sing 464 n n 
C08 C09 WH9 sing 465 n n 
C08 C10 WH9 sing 466 n n 
C09 C11 WH9 sing 467 n n 
C10 C12 WH9 sing 468 n n 
C11 N03 WH9 sing 469 n n 
C12 N03 WH9 sing 470 n n 
C17 C14 WH9 doub 471 n y 
C17 C19 WH9 sing 472 n y 
N03 C13 WH9 sing 473 n n 
C14 C18 WH9 sing 474 n y 
CL1 C19 WH9 sing 475 n n 
C19 C16 WH9 doub 476 n y 
C18 C13 WH9 sing 477 n n 
C18 C15 WH9 doub 478 n y 
C16 C15 WH9 sing 479 n y 
C01 H1 WH9 sing 480 n n 
C06 H2 WH9 sing 481 n n 
C08 H3 WH9 sing 482 n n 
C09 H4 WH9 sing 483 n n 
C09 H5 WH9 sing 484 n n 
C10 H6 WH9 sing 485 n n 
C10 H7 WH9 sing 486 n n 
C11 H8 WH9 sing 487 n n 
C11 H9 WH9 sing 488 n n 
C12 H10 WH9 sing 489 n n 
C12 H11 WH9 sing 490 n n 
C13 H12 WH9 sing 491 n n 
C13 H13 WH9 sing 492 n n 
C14 H14 WH9 sing 493 n n 
C15 H15 WH9 sing 494 n n 
C16 H16 WH9 sing 495 n n 
C17 H17 WH9 sing 496 n n 
N01 H18 WH9 sing 497 n n 
#
_atom_sites.entry_id                     8EFL 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
H 6 WH9 R 1 401 500 WH9 SR1 . 
I 7 CLR R 1 402 610 CLR CLR . 
J 7 CLR R 1 403 612 CLR CLR . 
K 7 CLR R 1 404 613 CLR CLR . 
L 7 CLR R 1 405 615 CLR CLR . 
M 7 CLR R 1 406 614 CLR CLR . 
N 6 WH9 M 1 401 500 WH9 SR1 . 
O 7 CLR M 1 402 614 CLR CLR . 
P 7 CLR M 1 403 610 CLR CLR . 
Q 7 CLR M 1 404 612 CLR CLR . 
R 7 CLR M 1 405 613 CLR CLR . 
S 7 CLR M 1 406 615 CLR CLR . 
#
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 C01 WH9 . . . H 6 139.158 127.794 127.823 1 35.51 ? C01 WH9 401 R 1 
HETATM 2 C C02 WH9 . . . H 6 139.187 128.248 126.517 1 35.51 ? C02 WH9 401 R 1 
HETATM 3 C C03 WH9 . . . H 6 138.675 126.528 128.088 1 35.51 ? C03 WH9 401 R 1 
HETATM 4 C C04 WH9 . . . H 6 138.732 127.435 125.494 1 35.51 ? C04 WH9 401 R 1 
HETATM 5 C C05 WH9 . . . H 6 138.218 125.705 127.082 1 35.51 ? C05 WH9 401 R 1 
HETATM 6 C C06 WH9 . . . H 6 138.249 126.164 125.767 1 35.51 ? C06 WH9 401 R 1 
HETATM 7 C C07 WH9 . . . H 6 138.019 124.676 128.968 1 35.51 ? C07 WH9 401 R 1 
HETATM 8 C C08 WH9 . . . H 6 137.248 123.343 127.046 1 35.51 ? C08 WH9 401 R 1 
HETATM 9 C C09 WH9 . . . H 6 135.976 123.621 126.223 1 35.51 ? C09 WH9 401 R 1 
HETATM 10 C C10 WH9 . . . H 6 138.281 122.605 126.188 1 35.51 ? C10 WH9 401 R 1 
HETATM 11 C C11 WH9 . . . H 6 135.417 122.31 125.657 1 35.51 ? C11 WH9 401 R 1 
HETATM 12 C C12 WH9 . . . H 6 137.68 121.266 125.739 1 35.51 ? C12 WH9 401 R 1 
HETATM 13 C C13 WH9 . . . H 6 135.851 120.189 124.46 1 35.51 ? C13 WH9 401 R 1 
HETATM 14 C C14 WH9 . . . H 6 134.703 119.046 126.455 1 35.51 ? C14 WH9 401 R 1 
HETATM 15 C C15 WH9 . . . H 6 136.54 117.94 125.376 1 35.51 ? C15 WH9 401 R 1 
HETATM 16 C C16 WH9 . . . H 6 136.416 116.882 126.269 1 35.51 ? C16 WH9 401 R 1 
HETATM 17 C C17 WH9 . . . H 6 134.586 117.99 127.346 1 35.51 ? C17 WH9 401 R 1 
HETATM 18 C C18 WH9 . . . H 6 135.706 119.058 125.475 1 35.51 ? C18 WH9 401 R 1 
HETATM 19 C C19 WH9 . . . H 6 135.441 116.908 127.249 1 35.51 ? C19 WH9 401 R 1 
HETATM 20 N N01 WH9 . . . H 6 138.54 125.866 129.217 1 35.51 ? N01 WH9 401 R 1 
HETATM 21 N N02 WH9 . . . H 6 137.817 124.556 127.661 1 35.51 ? N02 WH9 401 R 1 
HETATM 22 N N03 WH9 . . . H 6 136.433 121.48 124.958 1 35.51 ? N03 WH9 401 R 1 
HETATM 23 O O01 WH9 . . . H 6 137.78 123.854 129.768 1 35.51 ? O01 WH9 401 R 1 
HETATM 24 CL CL1 WH9 . . . H 6 135.285 115.595 128.351 1 35.51 ? CL1 WH9 401 R 1 
HETATM 25 CL CL2 WH9 . . . H 6 138.776 128.015 123.882 1 35.51 ? CL2 WH9 401 R 1 
HETATM 26 CL CL3 WH9 . . . H 6 139.788 129.82 126.161 1 35.51 ? CL3 WH9 401 R 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    28 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           26 
#