data_8EME
#
_model_server_result.job_id            3yXUYgLN46UgoZ29ThGZ3g 
_model_server_result.datetime_utc      '2024-10-19 16:25:40' 
_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          8eme 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1101}' 
#
_entry.id    8EME 
#
_exptl.entry_id    8EME 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              477.579 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-{7-methyl-1-[(3S)-1-(prop-2-enoyl)azepan-3-yl]-1H-benzimidazol-2-yl}-5-(prop-2-enamido)thiophene-3-carboxamide 
_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          100.8 
_cell.angle_gamma         90 
_cell.entry_id            8EME 
_cell.length_a            34.874 
_cell.length_b            99.992 
_cell.length_c            87.023 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8EME 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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 
_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                             C 
_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
covale ? covale1 A SG CYS 84 B CYS 775 1_555 C C26 ZNL . B ZNL 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.879 ? 
covale ? covale2 A SG CYS 106 B CYS 797 1_555 C C13 ZNL . B ZNL 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? 
#
_chem_comp.formula           'C25 H27 N5 O3 S' 
_chem_comp.formula_weight    477.579 
_chem_comp.id                ZNL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-{7-methyl-1-[(3S)-1-(prop-2-enoyl)azepan-3-yl]-1H-benzimidazol-2-yl}-5-(prop-2-enamido)thiophene-3-carboxamide 
_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
C13 C12 ZNL doub 374 n n 
C12 C11 ZNL sing 375 n n 
C11 O14 ZNL doub 376 n n 
C11 N10 ZNL sing 377 n n 
C09 N10 ZNL sing 378 n n 
C09 C08 ZNL sing 379 n n 
N10 C15 ZNL sing 380 n n 
C08 C07 ZNL sing 381 n n 
C15 C05 ZNL sing 382 n n 
C07 C06 ZNL sing 383 n n 
C05 C06 ZNL sing 384 n n 
C05 N04 ZNL sing 385 n n 
C01 C02 ZNL sing 386 n n 
S21 C20 ZNL sing 387 n y 
S21 C22 ZNL sing 388 n y 
N04 C03 ZNL sing 389 n y 
N04 C16 ZNL sing 390 n y 
C20 C19 ZNL doub 391 n y 
C02 C03 ZNL doub 392 n y 
C02 C34 ZNL sing 393 n y 
C03 C31 ZNL sing 394 n y 
N17 C16 ZNL sing 395 n n 
N17 C18 ZNL sing 396 n n 
C16 N30 ZNL doub 397 n y 
C34 C33 ZNL doub 398 n y 
C19 C18 ZNL sing 399 n n 
C19 C28 ZNL sing 400 n y 
C22 N23 ZNL sing 401 n n 
C22 C28 ZNL doub 402 n y 
C18 O29 ZNL doub 403 n n 
C31 N30 ZNL sing 404 n y 
C31 C32 ZNL doub 405 n y 
N23 C24 ZNL sing 406 n n 
C26 C25 ZNL doub 407 n n 
C33 C32 ZNL sing 408 n y 
C24 C25 ZNL sing 409 n n 
C24 O27 ZNL doub 410 n n 
C12 H1 ZNL sing 411 n n 
C15 H2 ZNL sing 412 n n 
C15 H3 ZNL sing 413 n n 
C13 H4 ZNL sing 414 n n 
C13 H5 ZNL sing 415 n n 
C01 H6 ZNL sing 416 n n 
C01 H7 ZNL sing 417 n n 
C01 H8 ZNL sing 418 n n 
C05 H9 ZNL sing 419 n n 
C06 H10 ZNL sing 420 n n 
C06 H11 ZNL sing 421 n n 
C07 H12 ZNL sing 422 n n 
C07 H13 ZNL sing 423 n n 
C08 H14 ZNL sing 424 n n 
C08 H15 ZNL sing 425 n n 
C09 H16 ZNL sing 426 n n 
C09 H17 ZNL sing 427 n n 
C20 H18 ZNL sing 428 n n 
C25 H19 ZNL sing 429 n n 
C26 H20 ZNL sing 430 n n 
C26 H21 ZNL sing 431 n n 
C28 H22 ZNL sing 432 n n 
C32 H23 ZNL sing 433 n n 
C33 H24 ZNL sing 434 n n 
C34 H25 ZNL sing 435 n n 
N17 H26 ZNL sing 436 n n 
N23 H27 ZNL sing 437 n n 
#
_atom_sites.entry_id                     8EME 
_atom_sites.fract_transf_matrix[1][1]    0.028675 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00547 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010001 
_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]    0.011698 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          C 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           ZNL 
_pdbx_nonpoly_scheme.pdb_strand_id    B 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      1101 
_pdbx_nonpoly_scheme.auth_seq_num     1101 
_pdbx_nonpoly_scheme.pdb_mon_id       ZNL 
_pdbx_nonpoly_scheme.auth_mon_id      56 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 C16 ZNL . . . C 2 -10.468 -24.151 12.652 1 72.39 ? C16 ZNL 1101 B 1 
HETATM 2 C C12 ZNL . . . C 2 -10.654 -23.518 5.679 1 50.35 ? C12 ZNL 1101 B 1 
HETATM 3 C C11 ZNL . . . C 2 -11.342 -23.304 6.975 1 69.18 ? C11 ZNL 1101 B 1 
HETATM 4 C C15 ZNL . . . C 2 -12.202 -24.097 9.145 1 78.32 ? C15 ZNL 1101 B 1 
HETATM 5 C C13 ZNL . . . C 2 -9.408 -23.093 5.455 1 53.38 ? C13 ZNL 1101 B 1 
HETATM 6 C C01 ZNL . . . C 2 -14.266 -22.118 10.581 1 90.81 ? C01 ZNL 1101 B 1 
HETATM 7 C C02 ZNL . . . C 2 -13.47 -21.955 11.819 1 80.33 ? C02 ZNL 1101 B 1 
HETATM 8 C C03 ZNL . . . C 2 -12.304 -22.767 12.202 1 78 ? C03 ZNL 1101 B 1 
HETATM 9 C C05 ZNL . . . C 2 -11.583 -24.739 10.412 1 80.71 ? C05 ZNL 1101 B 1 
HETATM 10 C C06 ZNL . . . C 2 -12.119 -26.156 10.683 1 79.3 ? C06 ZNL 1101 B 1 
HETATM 11 C C07 ZNL . . . C 2 -11.754 -27.109 9.544 1 73.64 ? C07 ZNL 1101 B 1 
HETATM 12 C C08 ZNL . . . C 2 -10.567 -26.624 8.718 1 66.91 ? C08 ZNL 1101 B 1 
HETATM 13 C C09 ZNL . . . C 2 -10.994 -25.727 7.539 1 63.19 ? C09 ZNL 1101 B 1 
HETATM 14 C C18 ZNL . . . C 2 -8.403 -25.678 13.285 1 57.4 ? C18 ZNL 1101 B 1 
HETATM 15 C C19 ZNL . . . C 2 -7.466 -26.85 12.933 1 67.94 ? C19 ZNL 1101 B 1 
HETATM 16 C C20 ZNL . . . C 2 -7.599 -27.591 11.791 1 68.15 ? C20 ZNL 1101 B 1 
HETATM 17 C C22 ZNL . . . C 2 -5.656 -28.493 13.061 1 69.57 ? C22 ZNL 1101 B 1 
HETATM 18 C C24 ZNL . . . C 2 -3.3 -28.837 14.04 1 77.46 ? C24 ZNL 1101 B 1 
HETATM 19 C C25 ZNL . . . C 2 -3.011 -27.378 14.286 1 79.98 ? C25 ZNL 1101 B 1 
HETATM 20 C C26 ZNL . . . C 2 -2.219 -26.635 13.505 1 77.22 ? C26 ZNL 1101 B 1 
HETATM 21 C C28 ZNL . . . C 2 -6.301 -27.407 13.683 1 71.15 ? C28 ZNL 1101 B 1 
HETATM 22 C C31 ZNL . . . C 2 -11.673 -22.449 13.449 1 84 ? C31 ZNL 1101 B 1 
HETATM 23 C C32 ZNL . . . C 2 -12.138 -21.403 14.29 1 91.27 ? C32 ZNL 1101 B 1 
HETATM 24 C C33 ZNL . . . C 2 -13.233 -20.667 13.893 1 96.97 ? C33 ZNL 1101 B 1 
HETATM 25 C C34 ZNL . . . C 2 -13.873 -20.946 12.685 1 84.57 ? C34 ZNL 1101 B 1 
HETATM 26 N N04 ZNL . . . C 2 -11.496 -23.897 11.69 1 79.18 ? N04 ZNL 1101 B 1 
HETATM 27 N N10 ZNL . . . C 2 -11.511 -24.361 7.889 1 71.53 ? N10 ZNL 1101 B 1 
HETATM 28 N N17 ZNL . . . C 2 -9.499 -25.228 12.439 1 58.68 ? N17 ZNL 1101 B 1 
HETATM 29 N N23 ZNL . . . C 2 -4.538 -29.28 13.466 1 73.56 ? N23 ZNL 1101 B 1 
HETATM 30 N N30 ZNL . . . C 2 -10.567 -23.312 13.691 1 81 ? N30 ZNL 1101 B 1 
HETATM 31 O O14 ZNL . . . C 2 -11.772 -22.194 7.266 1 75.4 ? O14 ZNL 1101 B 1 
HETATM 32 O O27 ZNL . . . C 2 -2.436 -29.651 14.342 1 79.75 ? O27 ZNL 1101 B 1 
HETATM 33 O O29 ZNL . . . C 2 -8.234 -25.078 14.329 1 57.75 ? O29 ZNL 1101 B 1 
HETATM 34 S S21 ZNL . . . C 2 -6.473 -28.835 11.588 1 65.69 ? S21 ZNL 1101 B 1 
#
_model_server_stats.io_time_ms              33 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           34 
#