data_3QF9 # _model_server_result.job_id FJyCeLGSi-g6A4X1pmYM0w _model_server_result.datetime_utc '2024-12-23 08:04:25' _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 3qf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":313}' # _entry.id 3QF9 # _exptl.entry_id 3QF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 634.668 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-{5-[(Z)-(2,4-dioxo-1,3-thiazolidin-5-ylidene)methyl]furan-2-yl}-N-{3-[(4-ethylpiperazin-1-yl)methyl]-5-(trifluoromethyl)phenyl}naphthalene-1-carboxamide _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 120 _cell.entry_id 3QF9 _cell.length_a 97.843 _cell.length_b 97.843 _cell.length_c 80.428 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 55 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 54 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id NA _struct_conn.ptnr2_label_comp_id NA _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id NA _struct_conn.ptnr2_auth_seq_id 314 _struct_conn.ptnr2_symmetry 1_555 _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 2.839 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C33 H29 F3 N4 O4 S' _chem_comp.formula_weight 634.668 _chem_comp.id NM8 _chem_comp.mon_nstd_flag . _chem_comp.name 6-{5-[(Z)-(2,4-dioxo-1,3-thiazolidin-5-ylidene)methyl]furan-2-yl}-N-{3-[(4-ethylpiperazin-1-yl)methyl]-5-(trifluoromethyl)phenyl}naphthalene-1-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (Z)-6-(5-((2,4-dioxothiazolidin-5-ylidene)methyl)furan-2-yl)-N-(3-((4-ethylpiperazin-1-yl)methyl)-5-(trifluoromethyl)phenyl)-1-naphthamide # 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 CAA CAF NM8 sing 237 n y CAA HAA NM8 sing 238 n n CAB CAA NM8 doub 239 n y CAB CAC NM8 sing 240 n y CAC CAD NM8 doub 241 n y CAD CAE NM8 sing 242 n y CAD HAD NM8 sing 243 n n CAE CAG NM8 sing 244 n y CAF CAE NM8 doub 245 n y CAF HAF NM8 sing 246 n n CAG OAK NM8 sing 247 n y CAG CAH NM8 doub 248 n y CAH CAI NM8 sing 249 n y CAH HAH NM8 sing 250 n n CAI HAI NM8 sing 251 n n CAJ CAI NM8 doub 252 n y CAJ CAL NM8 sing 253 n n OAK CAJ NM8 sing 254 n y CAL HAL NM8 sing 255 n n CAM CAL NM8 doub 256 z n CAM CAN NM8 sing 257 n n CAN OAR NM8 doub 258 n n NAO CAN NM8 sing 259 n n NAO HNAO NM8 sing 260 n n CAP NAO NM8 sing 261 n n SAQ CAM NM8 sing 262 n n SAQ CAP NM8 sing 263 n n OAS CAP NM8 doub 264 n n CAT CAB NM8 sing 265 n y CAU CAT NM8 doub 266 n y CAU CAV NM8 sing 267 n y CAU HAU NM8 sing 268 n n CAV CAW NM8 doub 269 n y CAV HAV NM8 sing 270 n n CAW CAC NM8 sing 271 n y CAW HAW NM8 sing 272 n n CAX CAT NM8 sing 273 n n CAX OAY NM8 doub 274 n n NAZ CAX NM8 sing 275 n n NAZ HNAZ NM8 sing 276 n n C20 C21 NM8 sing 277 n y C21 C22 NM8 doub 278 n y C22 C23 NM8 sing 279 n y C23 C24 NM8 doub 280 n y C24 C25 NM8 sing 281 n y C20 C25 NM8 doub 282 n y NAZ C21 NM8 sing 283 n n C23 C26 NM8 sing 284 n n C26 F1 NM8 sing 285 n n C26 F2 NM8 sing 286 n n C26 F3 NM8 sing 287 n n C25 C27 NM8 sing 288 n n C27 N3 NM8 sing 289 n n N3 C28 NM8 sing 290 n n N3 C29 NM8 sing 291 n n C29 C30 NM8 sing 292 n n C30 N4 NM8 sing 293 n n N4 C31 NM8 sing 294 n n C31 C28 NM8 sing 295 n n N4 C32 NM8 sing 296 n n C32 C33 NM8 sing 297 n n C20 H12 NM8 sing 298 n n C22 H13 NM8 sing 299 n n C24 H14 NM8 sing 300 n n C27 H15 NM8 sing 301 n n C27 H16 NM8 sing 302 n n C28 H17 NM8 sing 303 n n C28 H18 NM8 sing 304 n n C29 H19 NM8 sing 305 n n C29 H20 NM8 sing 306 n n C30 H21 NM8 sing 307 n n C30 H22 NM8 sing 308 n n C31 H23 NM8 sing 309 n n C31 H24 NM8 sing 310 n n C32 H25 NM8 sing 311 n n C32 H26 NM8 sing 312 n n C33 H27 NM8 sing 313 n n C33 H28 NM8 sing 314 n n C33 H29 NM8 sing 315 n n # _atom_sites.entry_id 3QF9 _atom_sites.fract_transf_matrix[1][1] 0.01022 _atom_sites.fract_transf_matrix[1][2] 0.005901 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011802 _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] 0.012433 _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 3 NM8 A 1 313 1 NM8 NM8 . D 4 NA A 1 314 1 NA NA . E 5 CL A 1 315 1 CL CL . F 6 HOH A 1 316 1 HOH HOH . F 6 HOH A 2 317 2 HOH HOH . F 6 HOH A 3 318 3 HOH HOH . F 6 HOH A 4 319 4 HOH HOH . F 6 HOH A 5 320 5 HOH HOH . F 6 HOH A 6 321 6 HOH HOH . F 6 HOH A 7 322 7 HOH HOH . F 6 HOH A 8 323 8 HOH HOH . F 6 HOH A 9 324 9 HOH HOH . F 6 HOH A 10 325 10 HOH HOH . F 6 HOH A 11 326 11 HOH HOH . F 6 HOH A 12 327 12 HOH HOH . F 6 HOH A 13 328 13 HOH HOH . F 6 HOH A 14 329 14 HOH HOH . F 6 HOH A 15 330 15 HOH HOH . F 6 HOH A 16 331 16 HOH HOH . F 6 HOH A 17 332 17 HOH HOH . F 6 HOH A 18 333 18 HOH HOH . F 6 HOH A 19 334 19 HOH HOH . F 6 HOH A 20 335 20 HOH HOH . F 6 HOH A 21 336 21 HOH HOH . F 6 HOH A 22 337 22 HOH HOH . F 6 HOH A 23 338 23 HOH HOH . F 6 HOH A 24 339 24 HOH HOH . F 6 HOH A 25 340 25 HOH HOH . F 6 HOH A 26 341 27 HOH HOH . F 6 HOH A 27 342 28 HOH HOH . F 6 HOH A 28 343 29 HOH HOH . F 6 HOH A 29 344 30 HOH HOH . F 6 HOH A 30 345 31 HOH HOH . F 6 HOH A 31 346 32 HOH HOH . F 6 HOH A 32 347 33 HOH HOH . F 6 HOH A 33 348 34 HOH HOH . F 6 HOH A 34 349 35 HOH HOH . F 6 HOH A 35 350 36 HOH HOH . F 6 HOH A 36 351 37 HOH HOH . F 6 HOH A 37 352 38 HOH HOH . F 6 HOH A 38 353 39 HOH HOH . F 6 HOH A 39 354 40 HOH HOH . F 6 HOH A 40 355 41 HOH HOH . F 6 HOH A 41 356 43 HOH HOH . F 6 HOH A 42 357 44 HOH HOH . F 6 HOH A 43 358 45 HOH HOH . F 6 HOH A 44 359 46 HOH HOH . F 6 HOH A 45 360 47 HOH HOH . F 6 HOH A 46 361 48 HOH HOH . F 6 HOH A 47 362 49 HOH HOH . F 6 HOH A 48 363 50 HOH HOH . F 6 HOH A 49 364 51 HOH HOH . F 6 HOH A 50 365 52 HOH HOH . F 6 HOH A 51 366 53 HOH HOH . F 6 HOH A 52 367 54 HOH HOH . F 6 HOH A 53 368 55 HOH HOH . F 6 HOH A 54 369 56 HOH HOH . F 6 HOH A 55 370 58 HOH HOH . F 6 HOH A 56 371 59 HOH HOH . F 6 HOH A 57 372 61 HOH HOH . F 6 HOH A 58 373 62 HOH HOH . F 6 HOH A 59 374 63 HOH HOH . F 6 HOH A 60 375 64 HOH HOH . F 6 HOH A 61 376 65 HOH HOH . F 6 HOH A 62 377 66 HOH HOH . F 6 HOH A 63 378 67 HOH HOH . F 6 HOH A 64 379 68 HOH HOH . F 6 HOH A 65 380 69 HOH HOH . F 6 HOH A 66 381 70 HOH HOH . F 6 HOH A 67 382 71 HOH HOH . F 6 HOH A 68 383 72 HOH HOH . F 6 HOH A 69 384 73 HOH HOH . F 6 HOH A 70 385 74 HOH HOH . F 6 HOH A 71 386 75 HOH HOH . F 6 HOH A 72 387 76 HOH HOH . F 6 HOH A 73 388 77 HOH HOH . F 6 HOH A 74 389 78 HOH HOH . F 6 HOH A 75 390 79 HOH HOH . F 6 HOH A 76 391 80 HOH HOH . F 6 HOH A 77 392 81 HOH HOH . F 6 HOH A 78 393 82 HOH HOH . F 6 HOH A 79 394 83 HOH HOH . F 6 HOH A 80 395 84 HOH HOH . F 6 HOH A 81 396 85 HOH HOH . F 6 HOH A 82 397 86 HOH HOH . F 6 HOH A 83 398 87 HOH HOH . F 6 HOH A 84 399 88 HOH HOH . F 6 HOH A 85 400 89 HOH HOH . F 6 HOH A 86 401 90 HOH HOH . F 6 HOH A 87 402 91 HOH HOH . F 6 HOH A 88 403 92 HOH HOH . F 6 HOH A 89 404 93 HOH HOH . F 6 HOH A 90 405 94 HOH HOH . F 6 HOH A 91 406 95 HOH HOH . F 6 HOH A 92 407 96 HOH HOH . F 6 HOH A 93 408 97 HOH HOH . F 6 HOH A 94 409 98 HOH HOH . F 6 HOH A 95 410 99 HOH HOH . F 6 HOH A 96 411 100 HOH HOH . F 6 HOH A 97 412 101 HOH HOH . F 6 HOH A 98 413 102 HOH HOH . F 6 HOH A 99 414 103 HOH HOH . F 6 HOH A 100 415 104 HOH HOH . F 6 HOH A 101 416 105 HOH HOH . F 6 HOH A 102 417 106 HOH HOH . F 6 HOH A 103 418 107 HOH HOH . F 6 HOH A 104 419 108 HOH HOH . F 6 HOH A 105 420 109 HOH HOH . F 6 HOH A 106 421 110 HOH HOH . F 6 HOH A 107 422 111 HOH HOH . F 6 HOH A 108 423 112 HOH HOH . F 6 HOH A 109 424 113 HOH HOH . F 6 HOH A 110 425 114 HOH HOH . F 6 HOH A 111 426 115 HOH HOH . F 6 HOH A 112 427 116 HOH HOH . F 6 HOH A 113 428 117 HOH HOH . F 6 HOH A 114 429 118 HOH HOH . F 6 HOH A 115 430 119 HOH HOH . F 6 HOH A 116 431 120 HOH HOH . F 6 HOH A 117 432 121 HOH HOH . F 6 HOH A 118 433 122 HOH HOH . F 6 HOH A 119 434 123 HOH HOH . F 6 HOH A 120 435 124 HOH HOH . F 6 HOH A 121 436 125 HOH HOH . F 6 HOH A 122 437 126 HOH HOH . F 6 HOH A 123 438 127 HOH HOH . F 6 HOH A 124 439 128 HOH HOH . F 6 HOH A 125 440 129 HOH HOH . F 6 HOH A 126 441 130 HOH HOH . F 6 HOH A 127 442 131 HOH HOH . G 6 HOH B 1 26 26 HOH HOH . G 6 HOH B 2 42 42 HOH HOH . G 6 HOH B 3 57 57 HOH HOH . G 6 HOH B 4 60 60 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 CAA NM8 . . . C 3 -22.209 39.991 -1.958 1 37.61 ? CAA NM8 313 A 1 HETATM 2 C CAB NM8 . . . C 3 -21.587 39.395 -3.073 1 52.08 ? CAB NM8 313 A 1 HETATM 3 C CAC NM8 . . . C 3 -20.582 38.414 -2.811 1 53.67 ? CAC NM8 313 A 1 HETATM 4 C CAD NM8 . . . C 3 -20.224 38.045 -1.488 1 39.57 ? CAD NM8 313 A 1 HETATM 5 C CAE NM8 . . . C 3 -20.885 38.624 -0.398 1 26.3 ? CAE NM8 313 A 1 HETATM 6 C CAF NM8 . . . C 3 -21.835 39.637 -0.64 1 38.81 ? CAF NM8 313 A 1 HETATM 7 C CAG NM8 . . . C 3 -20.508 38.371 0.917 1 30.62 ? CAG NM8 313 A 1 HETATM 8 C CAH NM8 . . . C 3 -20.871 39.072 2.015 1 27.02 ? CAH NM8 313 A 1 HETATM 9 C CAI NM8 . . . C 3 -20.203 38.609 3.061 1 23.91 ? CAI NM8 313 A 1 HETATM 10 C CAJ NM8 . . . C 3 -19.404 37.644 2.58 1 30.09 ? CAJ NM8 313 A 1 HETATM 11 O OAK NM8 . . . C 3 -19.537 37.467 1.244 1 29.05 ? OAK NM8 313 A 1 HETATM 12 C CAL NM8 . . . C 3 -18.514 36.936 3.351 1 31.64 ? CAL NM8 313 A 1 HETATM 13 C CAM NM8 . . . C 3 -17.809 35.913 2.787 1 22.44 ? CAM NM8 313 A 1 HETATM 14 C CAN NM8 . . . C 3 -16.741 35.265 3.434 1 26.9 ? CAN NM8 313 A 1 HETATM 15 N NAO NM8 . . . C 3 -16.214 34.269 2.697 1 29.37 ? NAO NM8 313 A 1 HETATM 16 C CAP NM8 . . . C 3 -16.815 34.138 1.502 1 25.17 ? CAP NM8 313 A 1 HETATM 17 S SAQ NM8 . . . C 3 -18.061 35.289 1.193 1 33.6 ? SAQ NM8 313 A 1 HETATM 18 O OAR NM8 . . . C 3 -16.336 35.562 4.569 1 27.98 ? OAR NM8 313 A 1 HETATM 19 O OAS NM8 . . . C 3 -16.479 33.321 0.671 1 33.85 ? OAS NM8 313 A 1 HETATM 20 C CAT NM8 . . . C 3 -21.924 39.748 -4.424 1 47.96 ? CAT NM8 313 A 1 HETATM 21 C CAU NM8 . . . C 3 -21.251 39.086 -5.467 1 54.71 ? CAU NM8 313 A 1 HETATM 22 C CAV NM8 . . . C 3 -20.269 38.119 -5.21 1 67.57 ? CAV NM8 313 A 1 HETATM 23 C CAW NM8 . . . C 3 -19.936 37.781 -3.885 1 60.32 ? CAW NM8 313 A 1 HETATM 24 C CAX NM8 . . . C 3 -22.988 40.837 -4.831 1 63.76 ? CAX NM8 313 A 1 HETATM 25 O OAY NM8 . . . C 3 -23.981 41.092 -4.127 1 50.34 ? OAY NM8 313 A 1 HETATM 26 N NAZ NM8 . . . C 3 -22.676 41.567 -5.946 1 51.15 ? NAZ NM8 313 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 26 #