data_6T1O # _model_server_result.job_id bGrdtUgQ5YQFdo2ioorJwA _model_server_result.datetime_utc '2024-11-04 23:15:03' _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 6t1o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6T1O # _exptl.entry_id 6T1O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 460.311 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-iodanyl-~{N}-[2-(piperidin-1-ylmethyl)-3~{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 6T1O _cell.length_a 49.027 _cell.length_b 49.027 _cell.length_c 131.431 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6T1O _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 _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 'C20 H21 I N4 O' _chem_comp.formula_weight 460.311 _chem_comp.id M82 _chem_comp.mon_nstd_flag . _chem_comp.name 4-iodanyl-~{N}-[2-(piperidin-1-ylmethyl)-3~{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 I C M82 sing 227 n n C5 C M82 doub 228 n y C5 C4 M82 sing 229 n y C C1 M82 sing 230 n y C4 C3 M82 doub 231 n y C1 C2 M82 doub 232 n y O C6 M82 doub 233 n n C3 C2 M82 sing 234 n y C3 C6 M82 sing 235 n n C6 N M82 sing 236 n n N C7 M82 sing 237 n n C12 C7 M82 doub 238 n y C12 C11 M82 sing 239 n y C7 C8 M82 sing 240 n y N1 C11 M82 sing 241 n y N1 C13 M82 sing 242 n y C11 C10 M82 doub 243 n y C8 C9 M82 doub 244 n y C13 C14 M82 sing 245 n n C13 N2 M82 doub 246 n y C10 C9 M82 sing 247 n y C10 N2 M82 sing 248 n y C14 N3 M82 sing 249 n n C15 N3 M82 sing 250 n n C15 C16 M82 sing 251 n n N3 C19 M82 sing 252 n n C16 C17 M82 sing 253 n n C19 C18 M82 sing 254 n n C17 C18 M82 sing 255 n n N1 H1 M82 sing 256 n n C2 H2 M82 sing 257 n n C4 H4 M82 sing 258 n n C5 H5 M82 sing 259 n n C1 H6 M82 sing 260 n n N H7 M82 sing 261 n n C12 H8 M82 sing 262 n n C9 H10 M82 sing 263 n n C8 H11 M82 sing 264 n n C14 H12 M82 sing 265 n n C14 H13 M82 sing 266 n n C19 H14 M82 sing 267 n n C19 H15 M82 sing 268 n n C18 H16 M82 sing 269 n n C18 H17 M82 sing 270 n n C17 H18 M82 sing 271 n n C17 H19 M82 sing 272 n n C16 H20 M82 sing 273 n n C16 H21 M82 sing 274 n n C15 H22 M82 sing 275 n n C15 H23 M82 sing 276 n n # _atom_sites.entry_id 6T1O _atom_sites.fract_transf_matrix[1][1] 0.020397 _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] 0.020397 _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] 0.007609 _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 M82 A 1 201 1 M82 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 4 EDO EDO . G 3 EDO A 1 206 5 EDO EDO . H 4 HOH A 1 301 86 HOH HOH . H 4 HOH A 2 302 65 HOH HOH . H 4 HOH A 3 303 38 HOH HOH . H 4 HOH A 4 304 50 HOH HOH . H 4 HOH A 5 305 90 HOH HOH . H 4 HOH A 6 306 55 HOH HOH . H 4 HOH A 7 307 58 HOH HOH . H 4 HOH A 8 308 62 HOH HOH . H 4 HOH A 9 309 13 HOH HOH . H 4 HOH A 10 310 74 HOH HOH . H 4 HOH A 11 311 69 HOH HOH . H 4 HOH A 12 312 59 HOH HOH . H 4 HOH A 13 313 42 HOH HOH . H 4 HOH A 14 314 12 HOH HOH . H 4 HOH A 15 315 54 HOH HOH . H 4 HOH A 16 316 53 HOH HOH . H 4 HOH A 17 317 15 HOH HOH . H 4 HOH A 18 318 41 HOH HOH . H 4 HOH A 19 319 87 HOH HOH . H 4 HOH A 20 320 39 HOH HOH . H 4 HOH A 21 321 57 HOH HOH . H 4 HOH A 22 322 80 HOH HOH . H 4 HOH A 23 323 35 HOH HOH . H 4 HOH A 24 324 40 HOH HOH . H 4 HOH A 25 325 28 HOH HOH . H 4 HOH A 26 326 32 HOH HOH . H 4 HOH A 27 327 64 HOH HOH . H 4 HOH A 28 328 23 HOH HOH . H 4 HOH A 29 329 52 HOH HOH . H 4 HOH A 30 330 70 HOH HOH . H 4 HOH A 31 331 81 HOH HOH . H 4 HOH A 32 332 8 HOH HOH . H 4 HOH A 33 333 6 HOH HOH . H 4 HOH A 34 334 37 HOH HOH . H 4 HOH A 35 335 7 HOH HOH . H 4 HOH A 36 336 14 HOH HOH . H 4 HOH A 37 337 21 HOH HOH . H 4 HOH A 38 338 24 HOH HOH . H 4 HOH A 39 339 61 HOH HOH . H 4 HOH A 40 340 73 HOH HOH . H 4 HOH A 41 341 3 HOH HOH . H 4 HOH A 42 342 16 HOH HOH . H 4 HOH A 43 343 36 HOH HOH . H 4 HOH A 44 344 25 HOH HOH . H 4 HOH A 45 345 60 HOH HOH . H 4 HOH A 46 346 51 HOH HOH . H 4 HOH A 47 347 82 HOH HOH . H 4 HOH A 48 348 5 HOH HOH . H 4 HOH A 49 349 27 HOH HOH . H 4 HOH A 50 350 88 HOH HOH . H 4 HOH A 51 351 33 HOH HOH . H 4 HOH A 52 352 4 HOH HOH . H 4 HOH A 53 353 72 HOH HOH . H 4 HOH A 54 354 75 HOH HOH . H 4 HOH A 55 355 10 HOH HOH . H 4 HOH A 56 356 34 HOH HOH . H 4 HOH A 57 357 31 HOH HOH . H 4 HOH A 58 358 18 HOH HOH . H 4 HOH A 59 359 20 HOH HOH . H 4 HOH A 60 360 49 HOH HOH . H 4 HOH A 61 361 22 HOH HOH . H 4 HOH A 62 362 1 HOH HOH . H 4 HOH A 63 363 46 HOH HOH . H 4 HOH A 64 364 30 HOH HOH . H 4 HOH A 65 365 67 HOH HOH . H 4 HOH A 66 366 2 HOH HOH . H 4 HOH A 67 367 63 HOH HOH . H 4 HOH A 68 368 68 HOH HOH . H 4 HOH A 69 369 43 HOH HOH . H 4 HOH A 70 370 89 HOH HOH . H 4 HOH A 71 371 71 HOH HOH . H 4 HOH A 72 372 76 HOH HOH . H 4 HOH A 73 373 17 HOH HOH . H 4 HOH A 74 374 11 HOH HOH . H 4 HOH A 75 375 47 HOH HOH . H 4 HOH A 76 376 85 HOH HOH . H 4 HOH A 77 377 9 HOH HOH . H 4 HOH A 78 378 83 HOH HOH . H 4 HOH A 79 379 44 HOH HOH . H 4 HOH A 80 380 79 HOH HOH . H 4 HOH A 81 381 77 HOH HOH . H 4 HOH A 82 382 45 HOH HOH . H 4 HOH A 83 383 66 HOH HOH . H 4 HOH A 84 384 19 HOH HOH . H 4 HOH A 85 385 29 HOH HOH . H 4 HOH A 86 386 84 HOH HOH . H 4 HOH A 87 387 26 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 M82 . A . B 2 -4.542 14.335 17.105 0.6 41.64 ? N1 M82 201 A 1 HETATM 2 N N1 M82 . B . B 2 -4.484 14.469 17.121 0.4 38.59 ? N1 M82 201 A 1 HETATM 3 C C2 M82 . A . B 2 2.661 15.901 14.352 0.6 44.24 ? C2 M82 201 A 1 HETATM 4 C C2 M82 . B . B 2 2.683 15.889 14.426 0.4 36.23 ? C2 M82 201 A 1 HETATM 5 N N3 M82 . A . B 2 -6.666 12.926 19.324 0.6 49.96 ? N3 M82 201 A 1 HETATM 6 N N3 M82 . B . B 2 -6.662 13.141 19.34 0.4 46.43 ? N3 M82 201 A 1 HETATM 7 C C4 M82 . A . B 2 2.039 14.074 12.927 0.6 41.66 ? C4 M82 201 A 1 HETATM 8 C C4 M82 . B . B 2 1.948 14.178 12.922 0.4 34.81 ? C4 M82 201 A 1 HETATM 9 C C5 M82 . A . B 2 3.291 14.106 12.335 0.6 42.37 ? C5 M82 201 A 1 HETATM 10 C C5 M82 . B . B 2 3.206 14.136 12.349 0.4 34.54 ? C5 M82 201 A 1 HETATM 11 C C6 M82 . A . B 2 0.322 15.002 14.515 0.6 42.61 ? C6 M82 201 A 1 HETATM 12 C C6 M82 . B . B 2 0.303 15.112 14.57 0.4 37.26 ? C6 M82 201 A 1 HETATM 13 O O M82 . A . B 2 -0.664 14.868 13.794 0.6 39.79 ? O M82 201 A 1 HETATM 14 O O M82 . B . B 2 -0.697 14.867 13.898 0.4 36.1 ? O M82 201 A 1 HETATM 15 C C3 M82 . A . B 2 1.702 14.979 13.934 0.6 41.9 ? C3 M82 201 A 1 HETATM 16 C C3 M82 . B . B 2 1.669 15.057 13.964 0.4 35.45 ? C3 M82 201 A 1 HETATM 17 C C1 M82 . A . B 2 3.916 15.933 13.77 0.6 45.81 ? C1 M82 201 A 1 HETATM 18 C C1 M82 . B . B 2 3.945 15.85 13.861 0.4 36.53 ? C1 M82 201 A 1 HETATM 19 C C M82 . A . B 2 4.22 15.044 12.754 0.6 44.57 ? C M82 201 A 1 HETATM 20 C C M82 . B . B 2 4.198 14.974 12.822 0.4 35.48 ? C M82 201 A 1 HETATM 21 I I M82 . A . B 2 6.097 15.147 11.814 0.6 46.85 ? I M82 201 A 1 HETATM 22 N N M82 . A . B 2 0.251 15.238 15.857 0.6 41.7 ? N M82 201 A 1 HETATM 23 N N M82 . B . B 2 0.257 15.467 15.881 0.4 37.23 ? N M82 201 A 1 HETATM 24 C C7 M82 . A . B 2 -0.892 15.193 16.715 0.6 42.09 ? C7 M82 201 A 1 HETATM 25 C C7 M82 . B . B 2 -0.858 15.411 16.762 0.4 37.8 ? C7 M82 201 A 1 HETATM 26 C C12 M82 . A . B 2 -2.167 14.791 16.295 0.6 40.26 ? C12 M82 201 A 1 HETATM 27 C C12 M82 . B . B 2 -2.105 14.934 16.343 0.4 36.5 ? C12 M82 201 A 1 HETATM 28 C C11 M82 . A . B 2 -3.203 14.733 17.234 0.6 42.08 ? C11 M82 201 A 1 HETATM 29 C C11 M82 . B . B 2 -3.149 14.87 17.269 0.4 38.2 ? C11 M82 201 A 1 HETATM 30 C C13 M82 . A . B 2 -5.061 14.482 18.313 0.6 46.64 ? C13 M82 201 A 1 HETATM 31 C C13 M82 . B . B 2 -5.029 14.648 18.312 0.4 42.03 ? C13 M82 201 A 1 HETATM 32 N N2 M82 . A . B 2 -4.166 14.941 19.219 0.6 43.21 ? N2 M82 201 A 1 HETATM 33 N N2 M82 . B . B 2 -4.152 15.125 19.226 0.4 39.08 ? N2 M82 201 A 1 HETATM 34 C C10 M82 . A . B 2 -2.959 15.102 18.554 0.6 44.25 ? C10 M82 201 A 1 HETATM 35 C C10 M82 . B . B 2 -2.934 15.278 18.581 0.4 39.46 ? C10 M82 201 A 1 HETATM 36 C C9 M82 . A . B 2 -1.71 15.519 18.977 0.6 42.75 ? C9 M82 201 A 1 HETATM 37 C C9 M82 . B . B 2 -1.708 15.754 19.007 0.4 38.43 ? C9 M82 201 A 1 HETATM 38 C C8 M82 . A . B 2 -0.676 15.566 18.052 0.6 44.81 ? C8 M82 201 A 1 HETATM 39 C C8 M82 . B . B 2 -0.67 15.826 18.089 0.4 38.95 ? C8 M82 201 A 1 HETATM 40 C C14 M82 . A . B 2 -6.49 14.223 18.666 0.6 48.23 ? C14 M82 201 A 1 HETATM 41 C C14 M82 . B . B 2 -6.468 14.408 18.638 0.4 43.89 ? C14 M82 201 A 1 HETATM 42 C C19 M82 . A . B 2 -6.309 13.007 20.751 0.6 52.11 ? C19 M82 201 A 1 HETATM 43 C C19 M82 . B . B 2 -6.301 13.27 20.758 0.4 47.54 ? C19 M82 201 A 1 HETATM 44 C C18 M82 . A . B 2 -6.446 11.659 21.448 0.6 55.07 ? C18 M82 201 A 1 HETATM 45 C C18 M82 . B . B 2 -6.439 11.948 21.492 0.4 50.24 ? C18 M82 201 A 1 HETATM 46 C C17 M82 . A . B 2 -7.841 11.101 21.287 0.6 54.34 ? C17 M82 201 A 1 HETATM 47 C C17 M82 . B . B 2 -7.839 11.388 21.353 0.4 49.31 ? C17 M82 201 A 1 HETATM 48 C C16 M82 . A . B 2 -8.256 11.104 19.826 0.6 54.12 ? C16 M82 201 A 1 HETATM 49 C C16 M82 . B . B 2 -8.262 11.356 19.897 0.4 49.36 ? C16 M82 201 A 1 HETATM 50 C C15 M82 . A . B 2 -8.06 12.473 19.208 0.6 51.55 ? C15 M82 201 A 1 HETATM 51 C C15 M82 . B . B 2 -8.059 12.704 19.242 0.4 47.43 ? C15 M82 201 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 51 #