data_6T1M # _model_server_result.job_id cWpJ0eCIOYZUK0dmmI-yBA _model_server_result.datetime_utc '2024-11-04 23:10:12' _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 6t1m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6T1M # _exptl.entry_id 6T1M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 359.424 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-cyano-~{N}-[2-(piperidin-1-ylmethyl)-1~{H}-benzimidazol-5-yl]benzamide _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 6T1M _cell.length_a 49.069 _cell.length_b 49.069 _cell.length_c 129.992 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6T1M _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H21 N5 O' _chem_comp.formula_weight 359.424 _chem_comp.id M8K _chem_comp.mon_nstd_flag . _chem_comp.name 4-cyano-~{N}-[2-(piperidin-1-ylmethyl)-1~{H}-benzimidazol-5-yl]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 N C M8K trip 227 n n C C1 M8K sing 228 n n C2 C1 M8K doub 229 n y C2 C3 M8K sing 230 n y C1 C6 M8K sing 231 n y C3 C4 M8K doub 232 n y O C7 M8K doub 233 n n C6 C5 M8K doub 234 n y C4 C5 M8K sing 235 n y C4 C7 M8K sing 236 n n C7 N1 M8K sing 237 n n N1 C8 M8K sing 238 n n C13 C8 M8K doub 239 n y C13 C12 M8K sing 240 n y C8 C9 M8K sing 241 n y N2 C12 M8K sing 242 n y N2 C14 M8K doub 243 n y C12 C11 M8K doub 244 n y C9 C10 M8K doub 245 n y C14 C15 M8K sing 246 n n C14 N3 M8K sing 247 n y C11 C10 M8K sing 248 n y C11 N3 M8K sing 249 n y C15 N4 M8K sing 250 n n N4 C16 M8K sing 251 n n N4 C20 M8K sing 252 n n C16 C17 M8K sing 253 n n C17 C18 M8K sing 254 n n C20 C19 M8K sing 255 n n C18 C19 M8K sing 256 n n N1 H1 M8K sing 257 n n C2 H2 M8K sing 258 n n N3 H3 M8K sing 259 n n C5 H5 M8K sing 260 n n C6 H6 M8K sing 261 n n C3 H7 M8K sing 262 n n C13 H8 M8K sing 263 n n C10 H10 M8K sing 264 n n C9 H11 M8K sing 265 n n C15 H12 M8K sing 266 n n C15 H13 M8K sing 267 n n C20 H14 M8K sing 268 n n C20 H15 M8K sing 269 n n C19 H16 M8K sing 270 n n C19 H17 M8K sing 271 n n C18 H18 M8K sing 272 n n C18 H19 M8K sing 273 n n C17 H20 M8K sing 274 n n C17 H21 M8K sing 275 n n C16 H22 M8K sing 276 n n C16 H23 M8K sing 277 n n # _atom_sites.entry_id 6T1M _atom_sites.fract_transf_matrix[1][1] 0.020379 _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] 0.020379 _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] 0.007693 _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 M8K A 1 201 1 M8K YYY . C 3 EDO A 1 202 1 EDO EDO . D 3 EDO A 1 203 2 EDO EDO . E 3 EDO A 1 204 3 EDO EDO . F 3 EDO A 1 205 5 EDO EDO . G 3 EDO A 1 206 6 EDO EDO . H 3 EDO A 1 207 7 EDO EDO . I 3 EDO A 1 208 8 EDO EDO . J 4 HOH A 1 301 22 HOH HOH . J 4 HOH A 2 302 32 HOH HOH . J 4 HOH A 3 303 12 HOH HOH . J 4 HOH A 4 304 11 HOH HOH . J 4 HOH A 5 305 36 HOH HOH . J 4 HOH A 6 306 33 HOH HOH . J 4 HOH A 7 307 27 HOH HOH . J 4 HOH A 8 308 16 HOH HOH . J 4 HOH A 9 309 18 HOH HOH . J 4 HOH A 10 310 48 HOH HOH . J 4 HOH A 11 311 23 HOH HOH . J 4 HOH A 12 312 9 HOH HOH . J 4 HOH A 13 313 46 HOH HOH . J 4 HOH A 14 314 14 HOH HOH . J 4 HOH A 15 315 43 HOH HOH . J 4 HOH A 16 316 28 HOH HOH . J 4 HOH A 17 317 49 HOH HOH . J 4 HOH A 18 318 37 HOH HOH . J 4 HOH A 19 319 25 HOH HOH . J 4 HOH A 20 320 44 HOH HOH . J 4 HOH A 21 321 29 HOH HOH . J 4 HOH A 22 322 17 HOH HOH . J 4 HOH A 23 323 24 HOH HOH . J 4 HOH A 24 324 20 HOH HOH . J 4 HOH A 25 325 19 HOH HOH . J 4 HOH A 26 326 26 HOH HOH . J 4 HOH A 27 327 1 HOH HOH . J 4 HOH A 28 328 2 HOH HOH . J 4 HOH A 29 329 31 HOH HOH . J 4 HOH A 30 330 35 HOH HOH . J 4 HOH A 31 331 7 HOH HOH . J 4 HOH A 32 332 13 HOH HOH . J 4 HOH A 33 333 3 HOH HOH . J 4 HOH A 34 334 8 HOH HOH . J 4 HOH A 35 335 4 HOH HOH . J 4 HOH A 36 336 21 HOH HOH . J 4 HOH A 37 337 45 HOH HOH . J 4 HOH A 38 338 34 HOH HOH . J 4 HOH A 39 339 5 HOH HOH . J 4 HOH A 40 340 10 HOH HOH . J 4 HOH A 41 341 42 HOH HOH . J 4 HOH A 42 342 30 HOH HOH . J 4 HOH A 43 343 47 HOH HOH . J 4 HOH A 44 344 38 HOH HOH . J 4 HOH A 45 345 6 HOH HOH . J 4 HOH A 46 346 41 HOH HOH . J 4 HOH A 47 347 40 HOH HOH . J 4 HOH A 48 348 39 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 N N1 M8K . . . B 2 0.238 15.168 15.959 1 52.16 ? N1 M8K 201 A 1 HETATM 2 C C2 M8K . . . B 2 3.138 14.001 12.332 1 60.81 ? C2 M8K 201 A 1 HETATM 3 N N3 M8K . . . B 2 -4.232 14.858 19.232 1 54.53 ? N3 M8K 201 A 1 HETATM 4 C C4 M8K . . . B 2 1.677 14.871 14.045 1 54.36 ? C4 M8K 201 A 1 HETATM 5 N N4 M8K . . . B 2 -6.693 12.89 19.465 1 62.36 ? N4 M8K 201 A 1 HETATM 6 C C5 M8K . . . B 2 2.739 15.63 14.537 1 59.11 ? C5 M8K 201 A 1 HETATM 7 C C6 M8K . . . B 2 3.985 15.583 13.933 1 59.9 ? C6 M8K 201 A 1 HETATM 8 O O M8K . . . B 2 -0.676 14.965 13.888 1 53.49 ? O M8K 201 A 1 HETATM 9 C C7 M8K . . . B 2 0.304 14.989 14.616 1 50.88 ? C7 M8K 201 A 1 HETATM 10 C C3 M8K . . . B 2 1.898 14.049 12.943 1 57.61 ? C3 M8K 201 A 1 HETATM 11 C C1 M8K . . . B 2 4.193 14.769 12.823 1 61.14 ? C1 M8K 201 A 1 HETATM 12 C C M8K . . . B 2 5.498 14.681 12.223 1 60.93 ? C M8K 201 A 1 HETATM 13 N N M8K . . . B 2 6.548 14.631 11.778 1 60.51 ? N M8K 201 A 1 HETATM 14 C C8 M8K . . . B 2 -0.902 15.086 16.805 1 53.47 ? C8 M8K 201 A 1 HETATM 15 C C13 M8K . . . B 2 -2.174 14.699 16.353 1 52.6 ? C13 M8K 201 A 1 HETATM 16 C C12 M8K . . . B 2 -3.231 14.653 17.267 1 52.59 ? C12 M8K 201 A 1 HETATM 17 N N2 M8K . . . B 2 -4.559 14.232 17.115 1 55.36 ? N2 M8K 201 A 1 HETATM 18 C C14 M8K . . . B 2 -5.102 14.374 18.314 1 59.69 ? C14 M8K 201 A 1 HETATM 19 C C11 M8K . . . B 2 -3.015 15.028 18.589 1 54.67 ? C11 M8K 201 A 1 HETATM 20 C C10 M8K . . . B 2 -1.767 15.422 19.045 1 53.95 ? C10 M8K 201 A 1 HETATM 21 C C9 M8K . . . B 2 -0.708 15.443 18.147 1 53.45 ? C9 M8K 201 A 1 HETATM 22 C C15 M8K . . . B 2 -6.535 14.093 18.642 1 58.5 ? C15 M8K 201 A 1 HETATM 23 C C20 M8K . . . B 2 -6.134 13.103 20.817 1 65.95 ? C20 M8K 201 A 1 HETATM 24 C C19 M8K . . . B 2 -6.737 12.18 21.873 1 65.73 ? C19 M8K 201 A 1 HETATM 25 C C18 M8K . . . B 2 -7.238 10.908 21.264 1 64.37 ? C18 M8K 201 A 1 HETATM 26 C C17 M8K . . . B 2 -8.33 11.19 20.266 1 67.15 ? C17 M8K 201 A 1 HETATM 27 C C16 M8K . . . B 2 -8.119 12.533 19.581 1 66.04 ? C16 M8K 201 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #