data_5HX8 # _model_server_result.job_id d1DqhASd2BTtPrujkLG0Ew _model_server_result.datetime_utc '2024-12-21 12:39:40' _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 5hx8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1201}' # _entry.id 5HX8 # _exptl.entry_id 5HX8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.392 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-[(4-aminocyclohexyl)amino]-3-(1H-benzimidazol-2-yl)-1H-pyridin-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 93.6 _cell.angle_gamma 90 _cell.entry_id 5HX8 _cell.length_a 42.76 _cell.length_b 172.97 _cell.length_c 44.72 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HX8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 # 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 C GLU 181 A GLU 1033 1_555 A N PTR 182 A PTR 1034 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale2 A C PTR 182 A PTR 1034 1_555 A N PTR 183 A PTR 1035 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale3 A C PTR 183 A PTR 1035 1_555 A N THR 184 A THR 1036 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale4 B C GLU 181 B GLU 1033 1_555 B N PTR 182 B PTR 1034 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale5 B C PTR 182 B PTR 1034 1_555 B N PTR 183 B PTR 1035 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale6 B C PTR 183 B PTR 1035 1_555 B N THR 184 B THR 1036 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? # _chem_comp.formula 'C18 H21 N5 O' _chem_comp.formula_weight 323.392 _chem_comp.id 66P _chem_comp.mon_nstd_flag . _chem_comp.name 4-[(4-aminocyclohexyl)amino]-3-(1H-benzimidazol-2-yl)-1H-pyridin-2-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 4-[(cis-4-aminocyclohexyl)amino]-3-(1H-benzimidazol-2-yl)pyridin-2(1H)-one # 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 C16 C15 66P doub 1 n y C16 C17 66P sing 2 n y C15 C14 66P sing 3 n y C17 C12 66P doub 4 n y C14 C13 66P doub 5 n y C12 C13 66P sing 6 n y C12 N3 66P sing 7 n y C13 N4 66P sing 8 n y N3 C11 66P sing 9 n y N4 C11 66P doub 10 n y C11 C1 66P sing 11 n n O C 66P doub 12 n n C1 C 66P sing 13 n n C1 C2 66P doub 14 n n C N 66P sing 15 n n C10 C9 66P sing 16 n n C10 C5 66P sing 17 n n C9 C8 66P sing 18 n n N1 C2 66P sing 19 n n N1 C5 66P sing 20 n n C2 C3 66P sing 21 n n N C4 66P sing 22 n n C5 C6 66P sing 23 n n C3 C4 66P doub 24 n n C8 N2 66P sing 25 n n C8 C7 66P sing 26 n n C6 C7 66P sing 27 n n C3 H1 66P sing 28 n n C5 H3 66P sing 29 n n C7 H4 66P sing 30 n n C7 H5 66P sing 31 n n C9 H6 66P sing 32 n n C9 H7 66P sing 33 n n C10 H8 66P sing 34 n n C10 H9 66P sing 35 n n C15 H10 66P sing 36 n n N1 H12 66P sing 37 n n C8 H13 66P sing 38 n n N2 H14 66P sing 39 n n N2 H15 66P sing 40 n n C6 H17 66P sing 41 n n C6 H18 66P sing 42 n n C4 H19 66P sing 43 n n C14 H20 66P sing 44 n n C16 H21 66P sing 45 n n C17 H22 66P sing 46 n n N H2 66P sing 47 n n N3 H11 66P sing 48 n n # _atom_sites.entry_id 5HX8 _atom_sites.fract_transf_matrix[1][1] 0.023386 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001471 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005781 _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] 0.022406 _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 66P A 1 1201 1 66P MRK . D 2 66P B 1 1201 1 66P MRK . E 3 HOH A 1 1301 146 HOH HOH . E 3 HOH A 2 1302 48 HOH HOH . E 3 HOH A 3 1303 14 HOH HOH . E 3 HOH A 4 1304 90 HOH HOH . E 3 HOH A 5 1305 102 HOH HOH . E 3 HOH A 6 1306 60 HOH HOH . E 3 HOH A 7 1307 80 HOH HOH . E 3 HOH A 8 1308 145 HOH HOH . E 3 HOH A 9 1309 120 HOH HOH . E 3 HOH A 10 1310 108 HOH HOH . E 3 HOH A 11 1311 3 HOH HOH . E 3 HOH A 12 1312 12 HOH HOH . E 3 HOH A 13 1313 32 HOH HOH . E 3 HOH A 14 1314 125 HOH HOH . E 3 HOH A 15 1315 85 HOH HOH . E 3 HOH A 16 1316 104 HOH HOH . E 3 HOH A 17 1317 109 HOH HOH . E 3 HOH A 18 1318 25 HOH HOH . E 3 HOH A 19 1319 52 HOH HOH . E 3 HOH A 20 1320 41 HOH HOH . E 3 HOH A 21 1321 58 HOH HOH . E 3 HOH A 22 1322 115 HOH HOH . E 3 HOH A 23 1323 35 HOH HOH . E 3 HOH A 24 1324 76 HOH HOH . E 3 HOH A 25 1325 5 HOH HOH . E 3 HOH A 26 1326 141 HOH HOH . E 3 HOH A 27 1327 79 HOH HOH . E 3 HOH A 28 1328 72 HOH HOH . E 3 HOH A 29 1329 99 HOH HOH . E 3 HOH A 30 1330 21 HOH HOH . E 3 HOH A 31 1331 68 HOH HOH . E 3 HOH A 32 1332 117 HOH HOH . E 3 HOH A 33 1333 40 HOH HOH . E 3 HOH A 34 1334 66 HOH HOH . E 3 HOH A 35 1335 17 HOH HOH . E 3 HOH A 36 1336 100 HOH HOH . E 3 HOH A 37 1337 89 HOH HOH . E 3 HOH A 38 1338 27 HOH HOH . E 3 HOH A 39 1339 103 HOH HOH . E 3 HOH A 40 1340 134 HOH HOH . E 3 HOH A 41 1341 137 HOH HOH . E 3 HOH A 42 1342 74 HOH HOH . E 3 HOH A 43 1343 69 HOH HOH . E 3 HOH A 44 1344 53 HOH HOH . E 3 HOH A 45 1345 86 HOH HOH . E 3 HOH A 46 1346 136 HOH HOH . E 3 HOH A 47 1347 54 HOH HOH . E 3 HOH A 48 1348 122 HOH HOH . E 3 HOH A 49 1349 129 HOH HOH . E 3 HOH A 50 1350 116 HOH HOH . E 3 HOH A 51 1351 114 HOH HOH . E 3 HOH A 52 1352 62 HOH HOH . E 3 HOH A 53 1353 93 HOH HOH . E 3 HOH A 54 1354 71 HOH HOH . E 3 HOH A 55 1355 95 HOH HOH . E 3 HOH A 56 1356 144 HOH HOH . E 3 HOH A 57 1357 13 HOH HOH . E 3 HOH A 58 1358 126 HOH HOH . E 3 HOH A 59 1359 26 HOH HOH . E 3 HOH A 60 1360 70 HOH HOH . E 3 HOH A 61 1361 105 HOH HOH . E 3 HOH A 62 1362 94 HOH HOH . E 3 HOH A 63 1363 44 HOH HOH . E 3 HOH A 64 1364 127 HOH HOH . E 3 HOH A 65 1365 112 HOH HOH . E 3 HOH A 66 1366 92 HOH HOH . E 3 HOH A 67 1367 64 HOH HOH . F 3 HOH B 1 1301 142 HOH HOH . F 3 HOH B 2 1302 30 HOH HOH . F 3 HOH B 3 1303 91 HOH HOH . F 3 HOH B 4 1304 124 HOH HOH . F 3 HOH B 5 1305 11 HOH HOH . F 3 HOH B 6 1306 28 HOH HOH . F 3 HOH B 7 1307 78 HOH HOH . F 3 HOH B 8 1308 31 HOH HOH . F 3 HOH B 9 1309 131 HOH HOH . F 3 HOH B 10 1310 9 HOH HOH . F 3 HOH B 11 1311 59 HOH HOH . F 3 HOH B 12 1312 139 HOH HOH . F 3 HOH B 13 1313 96 HOH HOH . F 3 HOH B 14 1314 19 HOH HOH . F 3 HOH B 15 1315 75 HOH HOH . F 3 HOH B 16 1316 2 HOH HOH . F 3 HOH B 17 1317 63 HOH HOH . F 3 HOH B 18 1318 42 HOH HOH . F 3 HOH B 19 1319 56 HOH HOH . F 3 HOH B 20 1320 1 HOH HOH . F 3 HOH B 21 1321 107 HOH HOH . F 3 HOH B 22 1322 43 HOH HOH . F 3 HOH B 23 1323 6 HOH HOH . F 3 HOH B 24 1324 132 HOH HOH . F 3 HOH B 25 1325 39 HOH HOH . F 3 HOH B 26 1326 10 HOH HOH . F 3 HOH B 27 1327 83 HOH HOH . F 3 HOH B 28 1328 113 HOH HOH . F 3 HOH B 29 1329 65 HOH HOH . F 3 HOH B 30 1330 67 HOH HOH . F 3 HOH B 31 1331 23 HOH HOH . F 3 HOH B 32 1332 128 HOH HOH . F 3 HOH B 33 1333 8 HOH HOH . F 3 HOH B 34 1334 4 HOH HOH . F 3 HOH B 35 1335 46 HOH HOH . F 3 HOH B 36 1336 101 HOH HOH . F 3 HOH B 37 1337 7 HOH HOH . F 3 HOH B 38 1338 51 HOH HOH . F 3 HOH B 39 1339 118 HOH HOH . F 3 HOH B 40 1340 15 HOH HOH . F 3 HOH B 41 1341 18 HOH HOH . F 3 HOH B 42 1342 49 HOH HOH . F 3 HOH B 43 1343 119 HOH HOH . F 3 HOH B 44 1344 36 HOH HOH . F 3 HOH B 45 1345 77 HOH HOH . F 3 HOH B 46 1346 47 HOH HOH . F 3 HOH B 47 1347 73 HOH HOH . F 3 HOH B 48 1348 82 HOH HOH . F 3 HOH B 49 1349 138 HOH HOH . F 3 HOH B 50 1350 24 HOH HOH . F 3 HOH B 51 1351 33 HOH HOH . F 3 HOH B 52 1352 38 HOH HOH . F 3 HOH B 53 1353 130 HOH HOH . F 3 HOH B 54 1354 110 HOH HOH . F 3 HOH B 55 1355 61 HOH HOH . F 3 HOH B 56 1356 37 HOH HOH . F 3 HOH B 57 1357 34 HOH HOH . F 3 HOH B 58 1358 22 HOH HOH . F 3 HOH B 59 1359 97 HOH HOH . F 3 HOH B 60 1360 20 HOH HOH . F 3 HOH B 61 1361 106 HOH HOH . F 3 HOH B 62 1362 84 HOH HOH . F 3 HOH B 63 1363 133 HOH HOH . F 3 HOH B 64 1364 50 HOH HOH . F 3 HOH B 65 1365 29 HOH HOH . F 3 HOH B 66 1366 140 HOH HOH . F 3 HOH B 67 1367 121 HOH HOH . F 3 HOH B 68 1368 81 HOH HOH . F 3 HOH B 69 1369 55 HOH HOH . F 3 HOH B 70 1370 147 HOH HOH . F 3 HOH B 71 1371 111 HOH HOH . F 3 HOH B 72 1372 143 HOH HOH . F 3 HOH B 73 1373 98 HOH HOH . F 3 HOH B 74 1374 45 HOH HOH . F 3 HOH B 75 1375 57 HOH HOH . F 3 HOH B 76 1376 16 HOH HOH . F 3 HOH B 77 1377 135 HOH HOH . F 3 HOH B 78 1378 87 HOH HOH . F 3 HOH B 79 1379 88 HOH HOH . F 3 HOH B 80 1380 123 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 C2 66P . . . D 2 15.522 3.381 0.115 1 25.1 ? C2 66P 1201 B 1 HETATM 2 C C3 66P . . . D 2 16.759 3.179 0.781 1 25.45 ? C3 66P 1201 B 1 HETATM 3 N N4 66P . . . D 2 12.898 3.489 -1.381 1 26.41 ? N4 66P 1201 B 1 HETATM 4 C C5 66P . . . D 2 15.412 5.863 0.727 1 25.7 ? C5 66P 1201 B 1 HETATM 5 C C7 66P . . . D 2 13.395 6.019 2.26 1 25.17 ? C7 66P 1201 B 1 HETATM 6 C C9 66P . . . D 2 13.413 7.272 0.038 1 26.33 ? C9 66P 1201 B 1 HETATM 7 C C10 66P . . . D 2 14.943 7.102 -0.018 1 25.06 ? C10 66P 1201 B 1 HETATM 8 C C11 66P . . . D 2 13.501 2.33 -1.169 1 25.85 ? C11 66P 1201 B 1 HETATM 9 C C12 66P . . . D 2 11.722 1.793 -2.36 1 25.69 ? C12 66P 1201 B 1 HETATM 10 C C13 66P . . . D 2 11.768 3.169 -2.141 1 26.22 ? C13 66P 1201 B 1 HETATM 11 C C15 66P . . . D 2 9.746 3.408 -3.415 1 24.96 ? C15 66P 1201 B 1 HETATM 12 O O 66P . . . D 2 14.959 -0.132 -0.778 1 28.44 ? O 66P 1201 B 1 HETATM 13 C C 66P . . . D 2 15.442 0.909 -0.337 1 25.64 ? C 66P 1201 B 1 HETATM 14 C C1 66P . . . D 2 14.838 2.224 -0.446 1 24.98 ? C1 66P 1201 B 1 HETATM 15 N N1 66P . . . D 2 14.953 4.647 0.052 1 25.54 ? N1 66P 1201 B 1 HETATM 16 C C8 66P . . . D 2 12.923 7.267 1.49 1 25.91 ? C8 66P 1201 B 1 HETATM 17 N N2 66P . . . D 2 11.43 7.357 1.516 1 26.72 ? N2 66P 1201 B 1 HETATM 18 C C6 66P . . . D 2 14.92 5.886 2.178 1 24.75 ? C6 66P 1201 B 1 HETATM 19 C C4 66P . . . D 2 17.3 1.946 0.867 1 27.19 ? C4 66P 1201 B 1 HETATM 20 N N 66P . . . D 2 16.676 0.862 0.327 1 28.4 ? N 66P 1201 B 1 HETATM 21 C C14 66P . . . D 2 10.774 3.994 -2.674 1 26.38 ? C14 66P 1201 B 1 HETATM 22 C C16 66P . . . D 2 9.709 2.025 -3.624 1 25.06 ? C16 66P 1201 B 1 HETATM 23 C C17 66P . . . D 2 10.703 1.196 -3.104 1 27.49 ? C17 66P 1201 B 1 HETATM 24 N N3 66P . . . D 2 12.834 1.276 -1.719 1 24.2 ? N3 66P 1201 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #