data_7LCJ # _model_server_result.job_id t9mXbHQc6N-yudWoRqvxJA _model_server_result.datetime_utc '2025-03-12 20:00:04' _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 7lcj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7LCJ # _exptl.entry_id 7LCJ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 555.599 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[(4-{6-[(4-cyano-2-fluorophenyl)methoxy]pyridin-2-yl}piperidin-1-yl)methyl]-1-{[(2S)-oxetan-2-yl]methyl}-1H-benzimidazole-6-carboxylic acid' _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 90 _cell.angle_gamma 90 _cell.entry_id 7LCJ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LCJ _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 ? _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 B _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 disulf ? disulf1 A SG CYS 55 R CYS 46 1_555 A SG CYS 80 R CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf2 A SG CYS 71 R CYS 62 1_555 A SG CYS 113 R CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 94 R CYS 85 1_555 A SG CYS 135 R CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 235 R CYS 226 1_555 A SG CYS 305 R CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? # _chem_comp.formula 'C31 H30 F N5 O4' _chem_comp.formula_weight 555.599 _chem_comp.id UK4 _chem_comp.mon_nstd_flag . _chem_comp.name '2-[(4-{6-[(4-cyano-2-fluorophenyl)methoxy]pyridin-2-yl}piperidin-1-yl)methyl]-1-{[(2S)-oxetan-2-yl]methyl}-1H-benzimidazole-6-carboxylic acid' _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 C17 C18 UK4 doub 358 n y C17 C16 UK4 sing 359 n y C18 C19 UK4 sing 360 n y N15 C16 UK4 sing 361 n y N15 C14 UK4 doub 362 n y C16 C24 UK4 doub 363 n y O21 C20 UK4 doub 364 n n C19 C20 UK4 sing 365 n n C19 C23 UK4 doub 366 n y C20 O22 UK4 sing 367 n n C14 C13 UK4 sing 368 n n C14 N25 UK4 sing 369 n y C24 C23 UK4 sing 370 n y C24 N25 UK4 sing 371 n y C13 N12 UK4 sing 372 n n C11 N12 UK4 sing 373 n n C11 C10 UK4 sing 374 n n N12 C31 UK4 sing 375 n n N25 C26 UK4 sing 376 n n C10 C09 UK4 sing 377 n n C29 O30 UK4 sing 378 n n C29 C28 UK4 sing 379 n n C09 C32 UK4 sing 380 n n C09 C08 UK4 sing 381 n n O30 C27 UK4 sing 382 n n C31 C32 UK4 sing 383 n n C26 C27 UK4 sing 384 n n C28 C27 UK4 sing 385 n n C08 C33 UK4 doub 386 n y C08 N07 UK4 sing 387 n y C33 C34 UK4 sing 388 n y N07 C06 UK4 doub 389 n y C34 C35 UK4 doub 390 n y C06 C35 UK4 sing 391 n y C06 O05 UK4 sing 392 n n F01 C02 UK4 sing 393 n n O05 C04 UK4 sing 394 n n C04 C03 UK4 sing 395 n n C02 C03 UK4 doub 396 n y C02 C41 UK4 sing 397 n y C03 C36 UK4 sing 398 n y C41 C38 UK4 doub 399 n y C36 C37 UK4 doub 400 n y C38 C37 UK4 sing 401 n y C38 C39 UK4 sing 402 n n C39 N40 UK4 trip 403 n n C29 H1 UK4 sing 404 n n C29 H2 UK4 sing 405 n n C28 H3 UK4 sing 406 n n C28 H4 UK4 sing 407 n n C27 H5 UK4 sing 408 n n C26 H6 UK4 sing 409 n n C26 H7 UK4 sing 410 n n C13 H8 UK4 sing 411 n n C13 H9 UK4 sing 412 n n C11 H10 UK4 sing 413 n n C11 H11 UK4 sing 414 n n C10 H12 UK4 sing 415 n n C10 H13 UK4 sing 416 n n C17 H14 UK4 sing 417 n n C18 H15 UK4 sing 418 n n C04 H16 UK4 sing 419 n n C04 H17 UK4 sing 420 n n C09 H18 UK4 sing 421 n n C23 H19 UK4 sing 422 n n C31 H20 UK4 sing 423 n n C31 H21 UK4 sing 424 n n C32 H22 UK4 sing 425 n n C32 H23 UK4 sing 426 n n C33 H24 UK4 sing 427 n n C34 H25 UK4 sing 428 n n C35 H26 UK4 sing 429 n n C36 H27 UK4 sing 430 n n C37 H28 UK4 sing 431 n n C41 H29 UK4 sing 432 n n O22 H31 UK4 sing 433 n n # _atom_sites.entry_id 7LCJ _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 B 2 UK4 R 1 501 501 UK4 PZ5 . C 3 HOH R 1 601 9 HOH HOH . C 3 HOH R 2 602 11 HOH HOH . C 3 HOH R 3 603 15 HOH HOH . C 3 HOH R 4 604 17 HOH HOH . C 3 HOH R 5 605 5 HOH HOH . C 3 HOH R 6 606 4 HOH HOH . C 3 HOH R 7 607 7 HOH HOH . C 3 HOH R 8 608 8 HOH HOH . C 3 HOH R 9 609 1 HOH HOH . C 3 HOH R 10 610 10 HOH HOH . C 3 HOH R 11 611 6 HOH HOH . C 3 HOH R 12 612 3 HOH HOH . C 3 HOH R 13 613 13 HOH HOH . C 3 HOH R 14 614 16 HOH HOH . C 3 HOH R 15 615 14 HOH HOH . C 3 HOH R 16 616 12 HOH HOH . C 3 HOH R 17 617 2 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 C29 UK4 . . . B 2 120.339 155.382 114.005 1 42 ? C29 UK4 501 R 1 HETATM 2 C C28 UK4 . . . B 2 120.985 155.482 115.296 1 42 ? C28 UK4 501 R 1 HETATM 3 C C27 UK4 . . . B 2 121.82 156.509 114.779 1 42 ? C27 UK4 501 R 1 HETATM 4 C C26 UK4 . . . B 2 123.267 156.292 115.026 1 42 ? C26 UK4 501 R 1 HETATM 5 C C20 UK4 . . . B 2 122.789 153.049 119.565 1 42 ? C20 UK4 501 R 1 HETATM 6 C C13 UK4 . . . B 2 124.304 154.898 112.493 1 42 ? C13 UK4 501 R 1 HETATM 7 C C11 UK4 . . . B 2 126.609 155.12 113.299 1 42 ? C11 UK4 501 R 1 HETATM 8 C C10 UK4 . . . B 2 127.963 155.775 113.022 1 42 ? C10 UK4 501 R 1 HETATM 9 C C14 UK4 . . . B 2 124.089 154.267 113.871 1 42 ? C14 UK4 501 R 1 HETATM 10 C C16 UK4 . . . B 2 123.998 152.797 115.445 1 42 ? C16 UK4 501 R 1 HETATM 11 C C17 UK4 . . . B 2 124.044 151.662 116.264 1 42 ? C17 UK4 501 R 1 HETATM 12 C C18 UK4 . . . B 2 123.651 151.746 117.588 1 42 ? C18 UK4 501 R 1 HETATM 13 C C19 UK4 . . . B 2 123.213 152.96 118.101 1 42 ? C19 UK4 501 R 1 HETATM 14 C C02 UK4 . . . B 2 126.264 160.674 109.013 1 42 ? C02 UK4 501 R 1 HETATM 15 C C03 UK4 . . . B 2 127.554 161.063 109.327 1 42 ? C03 UK4 501 R 1 HETATM 16 C C04 UK4 . . . B 2 128.73 160.326 108.673 1 42 ? C04 UK4 501 R 1 HETATM 17 C C06 UK4 . . . B 2 129.793 159.733 110.69 1 42 ? C06 UK4 501 R 1 HETATM 18 C C08 UK4 . . . B 2 128.9 157.972 111.892 1 42 ? C08 UK4 501 R 1 HETATM 19 C C09 UK4 . . . B 2 127.98 156.756 111.89 1 42 ? C09 UK4 501 R 1 HETATM 20 C C23 UK4 . . . B 2 123.168 154.085 117.29 1 42 ? C23 UK4 501 R 1 HETATM 21 C C24 UK4 . . . B 2 123.565 153.999 115.949 1 42 ? C24 UK4 501 R 1 HETATM 22 C C31 UK4 . . . B 2 125.469 156.938 112.171 1 42 ? C31 UK4 501 R 1 HETATM 23 C C32 UK4 . . . B 2 126.767 157.605 111.744 1 42 ? C32 UK4 501 R 1 HETATM 24 C C33 UK4 . . . B 2 129.584 158.344 113.031 1 42 ? C33 UK4 501 R 1 HETATM 25 C C34 UK4 . . . B 2 130.405 159.46 112.972 1 42 ? C34 UK4 501 R 1 HETATM 26 C C35 UK4 . . . B 2 130.516 160.167 111.786 1 42 ? C35 UK4 501 R 1 HETATM 27 C C36 UK4 . . . B 2 127.756 162.108 110.215 1 42 ? C36 UK4 501 R 1 HETATM 28 C C37 UK4 . . . B 2 126.672 162.754 110.787 1 42 ? C37 UK4 501 R 1 HETATM 29 C C38 UK4 . . . B 2 125.386 162.354 110.468 1 42 ? C38 UK4 501 R 1 HETATM 30 C C39 UK4 . . . B 2 124.176 163.05 111.083 1 42 ? C39 UK4 501 R 1 HETATM 31 C C41 UK4 . . . B 2 125.181 161.315 109.583 1 42 ? C41 UK4 501 R 1 HETATM 32 F F01 UK4 . . . B 2 126.057 159.651 108.144 1 42 ? F01 UK4 501 R 1 HETATM 33 N N07 UK4 . . . B 2 129.031 158.667 110.783 1 42 ? N07 UK4 501 R 1 HETATM 34 N N12 UK4 . . . B 2 125.62 155.466 112.254 1 42 ? N12 UK4 501 R 1 HETATM 35 N N15 UK4 . . . B 2 124.309 153.003 114.161 1 42 ? N15 UK4 501 R 1 HETATM 36 N N25 UK4 . . . B 2 123.629 154.886 114.944 1 42 ? N25 UK4 501 R 1 HETATM 37 N N40 UK4 . . . B 2 123.271 163.559 111.533 1 42 ? N40 UK4 501 R 1 HETATM 38 O O05 UK4 . . . B 2 129.877 160.421 109.471 1 42 ? O05 UK4 501 R 1 HETATM 39 O O21 UK4 . . . B 2 122.638 152.001 120.241 1 42 ? O21 UK4 501 R 1 HETATM 40 O O22 UK4 . . . B 2 122.6 154.169 120.098 1 42 ? O22 UK4 501 R 1 HETATM 41 O O30 UK4 . . . B 2 121.387 156.165 113.441 1 42 ? O30 UK4 501 R 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 345 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 41 #