data_3IPY # _model_server_result.job_id Y-8hf9Blv5a1Jp2h6GM3KQ _model_server_result.datetime_utc '2024-12-18 01:42:50' _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 3ipy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":266}' # _entry.id 3IPY # _exptl.entry_id 3IPY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 407.532 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-(1-benzothiophen-2-yl)-6-[4-(2-oxo-2-pyrrolidin-1-ylethyl)piperazin-1-yl]pyrimidine _entity.pdbx_number_of_molecules 4 _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 3IPY _cell.length_a 74.556 _cell.length_b 74.428 _cell.length_c 239.097 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IPY _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 21 21' # 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 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,F,G,H,J 1 1 A,C,D,E,I 2 1 A,B,C,D,E,F,G,H,I,J 3 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 ? 3 D N N ? 3 E N N ? 3 G N N ? 3 H N N # _chem_comp.formula 'C22 H25 N5 O S' _chem_comp.formula_weight 407.532 _chem_comp.id B87 _chem_comp.mon_nstd_flag . _chem_comp.name 4-(1-benzothiophen-2-yl)-6-[4-(2-oxo-2-pyrrolidin-1-ylethyl)piperazin-1-yl]pyrimidine _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 C1 C2 B87 sing 70 n n C1 C5 B87 sing 71 n n C2 N3 B87 sing 72 n n N3 C4 B87 sing 73 n n N3 C6 B87 sing 74 n n C4 C5 B87 sing 75 n n C6 O7 B87 doub 76 n n C6 C8 B87 sing 77 n n C8 N9 B87 sing 78 n n N9 C10 B87 sing 79 n n N9 C14 B87 sing 80 n n C10 C11 B87 sing 81 n n C11 N12 B87 sing 82 n n N12 C13 B87 sing 83 n n N12 C15 B87 sing 84 n n C13 C14 B87 sing 85 n n C15 C16 B87 doub 86 n y C15 N20 B87 sing 87 n y C16 C17 B87 sing 88 n y C17 N18 B87 doub 89 n y C17 C21 B87 sing 90 n y N18 C19 B87 sing 91 n y C19 N20 B87 doub 92 n y C21 S22 B87 sing 93 n y C21 C25 B87 doub 94 n y S22 C23 B87 sing 95 n y C23 C24 B87 doub 96 n y C23 C26 B87 sing 97 n y C24 C25 B87 sing 98 n y C24 C29 B87 sing 99 n y C26 C27 B87 doub 100 n y C27 C28 B87 sing 101 n y C28 C29 B87 doub 102 n y C1 H1 B87 sing 103 n n C1 H1A B87 sing 104 n n C2 H2 B87 sing 105 n n C2 H2A B87 sing 106 n n C4 H4 B87 sing 107 n n C4 H4A B87 sing 108 n n C5 H5 B87 sing 109 n n C5 H5A B87 sing 110 n n C8 H8 B87 sing 111 n n C8 H8A B87 sing 112 n n C10 H10 B87 sing 113 n n C10 H10A B87 sing 114 n n C11 H11 B87 sing 115 n n C11 H11A B87 sing 116 n n C13 H13 B87 sing 117 n n C13 H13A B87 sing 118 n n C14 H14 B87 sing 119 n n C14 H14A B87 sing 120 n n C16 H16 B87 sing 121 n n C19 H19 B87 sing 122 n n C25 H25 B87 sing 123 n n C26 H26 B87 sing 124 n n C27 H27 B87 sing 125 n n C28 H28 B87 sing 126 n n C29 H29 B87 sing 127 n n # _atom_sites.entry_id 3IPY _atom_sites.fract_transf_matrix[1][1] 0.013413 _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] 0.013436 _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] 0.004182 _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 MLT A 1 261 261 MLT MLT . D 3 B87 A 1 263 263 B87 B87 . E 3 B87 A 1 264 264 B87 B87 . F 2 MLT B 1 262 262 MLT MLT . G 3 B87 B 1 265 265 B87 B87 . H 3 B87 B 1 266 266 B87 B87 . I 4 HOH A 1 267 267 HOH HOH . I 4 HOH A 2 268 268 HOH HOH . I 4 HOH A 3 269 269 HOH HOH . I 4 HOH A 4 270 270 HOH HOH . I 4 HOH A 5 271 271 HOH HOH . I 4 HOH A 6 272 272 HOH HOH . I 4 HOH A 7 273 273 HOH HOH . I 4 HOH A 8 274 274 HOH HOH . I 4 HOH A 9 276 276 HOH HOH . I 4 HOH A 10 277 277 HOH HOH . I 4 HOH A 11 278 278 HOH HOH . I 4 HOH A 12 279 279 HOH HOH . I 4 HOH A 13 280 280 HOH HOH . I 4 HOH A 14 281 281 HOH HOH . I 4 HOH A 15 284 284 HOH HOH . I 4 HOH A 16 285 285 HOH HOH . I 4 HOH A 17 286 286 HOH HOH . I 4 HOH A 18 287 287 HOH HOH . I 4 HOH A 19 288 288 HOH HOH . I 4 HOH A 20 289 289 HOH HOH . I 4 HOH A 21 290 290 HOH HOH . I 4 HOH A 22 291 291 HOH HOH . I 4 HOH A 23 292 292 HOH HOH . I 4 HOH A 24 293 293 HOH HOH . I 4 HOH A 25 294 294 HOH HOH . I 4 HOH A 26 327 327 HOH HOH . I 4 HOH A 27 328 328 HOH HOH . I 4 HOH A 28 329 329 HOH HOH . I 4 HOH A 29 333 333 HOH HOH . I 4 HOH A 30 335 335 HOH HOH . I 4 HOH A 31 336 336 HOH HOH . I 4 HOH A 32 337 337 HOH HOH . I 4 HOH A 33 338 338 HOH HOH . I 4 HOH A 34 346 346 HOH HOH . I 4 HOH A 35 347 347 HOH HOH . I 4 HOH A 36 348 348 HOH HOH . I 4 HOH A 37 349 349 HOH HOH . I 4 HOH A 38 350 350 HOH HOH . I 4 HOH A 39 351 351 HOH HOH . I 4 HOH A 40 352 352 HOH HOH . I 4 HOH A 41 353 353 HOH HOH . I 4 HOH A 42 354 354 HOH HOH . I 4 HOH A 43 355 355 HOH HOH . I 4 HOH A 44 356 356 HOH HOH . I 4 HOH A 45 357 357 HOH HOH . I 4 HOH A 46 358 358 HOH HOH . I 4 HOH A 47 359 359 HOH HOH . I 4 HOH A 48 360 360 HOH HOH . I 4 HOH A 49 361 361 HOH HOH . I 4 HOH A 50 362 362 HOH HOH . I 4 HOH A 51 363 363 HOH HOH . I 4 HOH A 52 364 364 HOH HOH . I 4 HOH A 53 377 377 HOH HOH . J 4 HOH B 1 275 275 HOH HOH . J 4 HOH B 2 282 282 HOH HOH . J 4 HOH B 3 283 283 HOH HOH . J 4 HOH B 4 295 295 HOH HOH . J 4 HOH B 5 296 296 HOH HOH . J 4 HOH B 6 297 297 HOH HOH . J 4 HOH B 7 298 298 HOH HOH . J 4 HOH B 8 299 299 HOH HOH . J 4 HOH B 9 300 300 HOH HOH . J 4 HOH B 10 301 301 HOH HOH . J 4 HOH B 11 302 302 HOH HOH . J 4 HOH B 12 303 303 HOH HOH . J 4 HOH B 13 304 304 HOH HOH . J 4 HOH B 14 305 305 HOH HOH . J 4 HOH B 15 306 306 HOH HOH . J 4 HOH B 16 307 307 HOH HOH . J 4 HOH B 17 308 308 HOH HOH . J 4 HOH B 18 309 309 HOH HOH . J 4 HOH B 19 310 310 HOH HOH . J 4 HOH B 20 311 311 HOH HOH . J 4 HOH B 21 312 312 HOH HOH . J 4 HOH B 22 313 313 HOH HOH . J 4 HOH B 23 314 314 HOH HOH . J 4 HOH B 24 315 315 HOH HOH . J 4 HOH B 25 316 316 HOH HOH . J 4 HOH B 26 317 317 HOH HOH . J 4 HOH B 27 318 318 HOH HOH . J 4 HOH B 28 319 319 HOH HOH . J 4 HOH B 29 320 320 HOH HOH . J 4 HOH B 30 321 321 HOH HOH . J 4 HOH B 31 322 322 HOH HOH . J 4 HOH B 32 323 323 HOH HOH . J 4 HOH B 33 324 324 HOH HOH . J 4 HOH B 34 325 325 HOH HOH . J 4 HOH B 35 326 326 HOH HOH . J 4 HOH B 36 330 330 HOH HOH . J 4 HOH B 37 331 331 HOH HOH . J 4 HOH B 38 332 332 HOH HOH . J 4 HOH B 39 334 334 HOH HOH . J 4 HOH B 40 339 339 HOH HOH . J 4 HOH B 41 340 340 HOH HOH . J 4 HOH B 42 341 341 HOH HOH . J 4 HOH B 43 342 342 HOH HOH . J 4 HOH B 44 343 343 HOH HOH . J 4 HOH B 45 344 344 HOH HOH . J 4 HOH B 46 365 365 HOH HOH . J 4 HOH B 47 366 366 HOH HOH . J 4 HOH B 48 367 367 HOH HOH . J 4 HOH B 49 368 368 HOH HOH . J 4 HOH B 50 369 369 HOH HOH . J 4 HOH B 51 370 370 HOH HOH . J 4 HOH B 52 371 371 HOH HOH . J 4 HOH B 53 372 372 HOH HOH . J 4 HOH B 54 373 373 HOH HOH . J 4 HOH B 55 374 374 HOH HOH . J 4 HOH B 56 375 375 HOH HOH . J 4 HOH B 57 376 376 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 C1 B87 . . . H 3 33.169 7.891 44.199 1 53.35 ? C1 B87 266 B 1 HETATM 2 C C2 B87 . . . H 3 32.444 8.784 43.161 1 53.77 ? C2 B87 266 B 1 HETATM 3 N N3 B87 . . . H 3 31.134 9.008 43.786 1 53.4 ? N3 B87 266 B 1 HETATM 4 C C4 B87 . . . H 3 31.213 9.041 45.252 1 53.94 ? C4 B87 266 B 1 HETATM 5 C C5 B87 . . . H 3 32.342 7.995 45.541 1 53.63 ? C5 B87 266 B 1 HETATM 6 C C6 B87 . . . H 3 29.98 9.151 43.091 1 51 ? C6 B87 266 B 1 HETATM 7 O O7 B87 . . . H 3 29.241 10.129 43.145 1 49.99 ? O7 B87 266 B 1 HETATM 8 C C8 B87 . . . H 3 29.573 8.011 42.185 1 47.7 ? C8 B87 266 B 1 HETATM 9 N N9 B87 . . . H 3 29.659 6.739 42.891 1 44.02 ? N9 B87 266 B 1 HETATM 10 C C10 B87 . . . H 3 28.79 6.536 44.066 1 42.02 ? C10 B87 266 B 1 HETATM 11 C C11 B87 . . . H 3 29.459 5.577 45.042 1 39.42 ? C11 B87 266 B 1 HETATM 12 N N12 B87 . . . H 3 29.858 4.487 44.169 1 36.7 ? N12 B87 266 B 1 HETATM 13 C C13 B87 . . . H 3 31.02 4.714 43.335 1 39.1 ? C13 B87 266 B 1 HETATM 14 C C14 B87 . . . H 3 30.579 5.752 42.311 1 41.57 ? C14 B87 266 B 1 HETATM 15 C C15 B87 . . . H 3 29.129 3.285 44.105 1 36.12 ? C15 B87 266 B 1 HETATM 16 C C16 B87 . . . H 3 29.536 2.26 43.253 1 35.33 ? C16 B87 266 B 1 HETATM 17 C C17 B87 . . . H 3 28.791 1.088 43.216 1 33.3 ? C17 B87 266 B 1 HETATM 18 N N18 B87 . . . H 3 27.69 0.977 44.001 1 34.41 ? N18 B87 266 B 1 HETATM 19 C C19 B87 . . . H 3 27.306 1.965 44.823 1 33.02 ? C19 B87 266 B 1 HETATM 20 N N20 B87 . . . H 3 28.013 3.103 44.869 1 35.25 ? N20 B87 266 B 1 HETATM 21 C C21 B87 . . . H 3 29.182 -0.03 42.313 1 33.71 ? C21 B87 266 B 1 HETATM 22 S S22 B87 . . . H 3 28.017 -1.328 42.308 1 34.44 ? S22 B87 266 B 1 HETATM 23 C C23 B87 . . . H 3 28.854 -2.268 41.212 1 32.69 ? C23 B87 266 B 1 HETATM 24 C C24 B87 . . . H 3 30.091 -1.57 40.817 1 32.84 ? C24 B87 266 B 1 HETATM 25 C C25 B87 . . . H 3 30.279 -0.277 41.459 1 32.68 ? C25 B87 266 B 1 HETATM 26 C C26 B87 . . . H 3 28.486 -3.504 40.705 1 33 ? C26 B87 266 B 1 HETATM 27 C C27 B87 . . . H 3 29.348 -4.114 39.791 1 33 ? C27 B87 266 B 1 HETATM 28 C C28 B87 . . . H 3 30.526 -3.482 39.403 1 33.04 ? C28 B87 266 B 1 HETATM 29 C C29 B87 . . . H 3 30.908 -2.222 39.897 1 32.99 ? C29 B87 266 B 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 29 #