data_7DIP # _model_server_result.job_id a3vRus9JvuYFlCaprzVZWg _model_server_result.datetime_utc '2024-10-12 15:23:52' _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 7dip # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 7DIP # _exptl.entry_id 7DIP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 7DIP _cell.length_a 48.06 _cell.length_b 48.06 _cell.length_c 83.226 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DIP _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 29 A CYS 29 1_555 A SG CYS 32 A CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc1 A OE1 GLU 28 A GLU 28 1_555 F MN MN . A MN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? metalc ? metalc2 A OD1 ASN 43 A ASN 43 1_555 G MN MN . A MN 206 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc3 A NE2 HIS 49 A HIS 49 1_555 D MN MN . A MN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc4 A ND1 HIS 49 A HIS 49 1_555 E MN MN . A MN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc5 A OE1 GLU 51 A GLU 51 1_555 D MN MN . A MN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc6 D MN MN . A MN 203 1_555 H O HOH . A HOH 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc7 D MN MN . A MN 203 1_555 H O HOH . A HOH 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc8 D MN MN . A MN 203 1_555 H O HOH . A HOH 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc9 D MN MN . A MN 203 1_555 H O HOH . A HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc10 E MN MN . A MN 204 1_555 H O HOH . A HOH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc11 E MN MN . A MN 204 1_555 H O HOH . A HOH 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc12 E MN MN . A MN 204 1_555 H O HOH . A HOH 408 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.311 ? metalc ? metalc13 E MN MN . A MN 204 1_555 H O HOH . A HOH 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc14 F MN MN . A MN 205 1_555 H O HOH . A HOH 413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc15 F MN MN . A MN 205 1_555 H O HOH . A HOH 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc16 G MN MN . A MN 206 1_555 H O HOH . A HOH 314 4_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? metalc ? metalc17 G MN MN . A MN 206 1_555 H O HOH . A HOH 399 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 MPD sing 237 n n C1 H11 MPD sing 238 n n C1 H12 MPD sing 239 n n C1 H13 MPD sing 240 n n C2 O2 MPD sing 241 n n C2 CM MPD sing 242 n n C2 C3 MPD sing 243 n n O2 HO2 MPD sing 244 n n CM HM1 MPD sing 245 n n CM HM2 MPD sing 246 n n CM HM3 MPD sing 247 n n C3 C4 MPD sing 248 n n C3 H31 MPD sing 249 n n C3 H32 MPD sing 250 n n C4 O4 MPD sing 251 n n C4 C5 MPD sing 252 n n C4 H4 MPD sing 253 n n O4 HO4 MPD sing 254 n n C5 H51 MPD sing 255 n n C5 H52 MPD sing 256 n n C5 H53 MPD sing 257 n n # _atom_sites.entry_id 7DIP _atom_sites.fract_transf_matrix[1][1] 0.020807 _atom_sites.fract_transf_matrix[1][2] 0.012013 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.024026 _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] 0.012015 _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 MPO A 1 201 201 MPO MPO . C 3 MPD A 1 202 202 MPD MPD . D 4 MN A 1 203 301 MN MN . E 4 MN A 1 204 302 MN MN . F 4 MN A 1 205 303 MN MN . G 4 MN A 1 206 304 MN MN . H 5 HOH A 1 301 99 HOH HOH . H 5 HOH A 2 302 152 HOH HOH . H 5 HOH A 3 303 53 HOH HOH . H 5 HOH A 4 304 19 HOH HOH . H 5 HOH A 5 305 137 HOH HOH . H 5 HOH A 6 306 108 HOH HOH . H 5 HOH A 7 307 144 HOH HOH . H 5 HOH A 8 308 135 HOH HOH . H 5 HOH A 9 309 38 HOH HOH . H 5 HOH A 10 310 28 HOH HOH . H 5 HOH A 11 311 32 HOH HOH . H 5 HOH A 12 312 34 HOH HOH . H 5 HOH A 13 313 17 HOH HOH . H 5 HOH A 14 314 63 HOH HOH . H 5 HOH A 15 315 126 HOH HOH . H 5 HOH A 16 316 49 HOH HOH . H 5 HOH A 17 317 96 HOH HOH . H 5 HOH A 18 318 57 HOH HOH . H 5 HOH A 19 319 23 HOH HOH . H 5 HOH A 20 320 33 HOH HOH . H 5 HOH A 21 321 118 HOH HOH . H 5 HOH A 22 322 101 HOH HOH . H 5 HOH A 23 323 9 HOH HOH . H 5 HOH A 24 324 87 HOH HOH . H 5 HOH A 25 325 14 HOH HOH . H 5 HOH A 26 326 89 HOH HOH . H 5 HOH A 27 327 41 HOH HOH . H 5 HOH A 28 328 104 HOH HOH . H 5 HOH A 29 329 5 HOH HOH . H 5 HOH A 30 330 58 HOH HOH . H 5 HOH A 31 331 86 HOH HOH . H 5 HOH A 32 332 39 HOH HOH . H 5 HOH A 33 333 59 HOH HOH . H 5 HOH A 34 334 20 HOH HOH . H 5 HOH A 35 335 4 HOH HOH . H 5 HOH A 36 336 74 HOH HOH . H 5 HOH A 37 337 70 HOH HOH . H 5 HOH A 38 338 51 HOH HOH . H 5 HOH A 39 339 134 HOH HOH . H 5 HOH A 40 340 61 HOH HOH . H 5 HOH A 41 341 124 HOH HOH . H 5 HOH A 42 342 1 HOH HOH . H 5 HOH A 43 343 6 HOH HOH . H 5 HOH A 44 344 76 HOH HOH . H 5 HOH A 45 345 16 HOH HOH . H 5 HOH A 46 346 112 HOH HOH . H 5 HOH A 47 347 36 HOH HOH . H 5 HOH A 48 348 52 HOH HOH . H 5 HOH A 49 349 143 HOH HOH . H 5 HOH A 50 350 92 HOH HOH . H 5 HOH A 51 351 18 HOH HOH . H 5 HOH A 52 352 37 HOH HOH . H 5 HOH A 53 353 8 HOH HOH . H 5 HOH A 54 354 71 HOH HOH . H 5 HOH A 55 355 7 HOH HOH . H 5 HOH A 56 356 46 HOH HOH . H 5 HOH A 57 357 11 HOH HOH . H 5 HOH A 58 358 91 HOH HOH . H 5 HOH A 59 359 117 HOH HOH . H 5 HOH A 60 360 42 HOH HOH . H 5 HOH A 61 361 13 HOH HOH . H 5 HOH A 62 362 50 HOH HOH . H 5 HOH A 63 363 31 HOH HOH . H 5 HOH A 64 364 10 HOH HOH . H 5 HOH A 65 365 132 HOH HOH . H 5 HOH A 66 366 29 HOH HOH . H 5 HOH A 67 367 40 HOH HOH . H 5 HOH A 68 368 136 HOH HOH . H 5 HOH A 69 369 25 HOH HOH . H 5 HOH A 70 370 116 HOH HOH . H 5 HOH A 71 371 125 HOH HOH . H 5 HOH A 72 372 56 HOH HOH . H 5 HOH A 73 373 90 HOH HOH . H 5 HOH A 74 374 66 HOH HOH . H 5 HOH A 75 375 27 HOH HOH . H 5 HOH A 76 376 100 HOH HOH . H 5 HOH A 77 377 115 HOH HOH . H 5 HOH A 78 378 2 HOH HOH . H 5 HOH A 79 379 130 HOH HOH . H 5 HOH A 80 380 105 HOH HOH . H 5 HOH A 81 381 44 HOH HOH . H 5 HOH A 82 382 15 HOH HOH . H 5 HOH A 83 383 45 HOH HOH . H 5 HOH A 84 384 62 HOH HOH . H 5 HOH A 85 385 48 HOH HOH . H 5 HOH A 86 386 47 HOH HOH . H 5 HOH A 87 387 21 HOH HOH . H 5 HOH A 88 388 54 HOH HOH . H 5 HOH A 89 389 26 HOH HOH . H 5 HOH A 90 390 55 HOH HOH . H 5 HOH A 91 391 106 HOH HOH . H 5 HOH A 92 392 12 HOH HOH . H 5 HOH A 93 393 142 HOH HOH . H 5 HOH A 94 394 102 HOH HOH . H 5 HOH A 95 395 103 HOH HOH . H 5 HOH A 96 396 24 HOH HOH . H 5 HOH A 97 397 79 HOH HOH . H 5 HOH A 98 398 111 HOH HOH . H 5 HOH A 99 399 154 HOH HOH . H 5 HOH A 100 400 35 HOH HOH . H 5 HOH A 101 401 81 HOH HOH . H 5 HOH A 102 402 148 HOH HOH . H 5 HOH A 103 403 78 HOH HOH . H 5 HOH A 104 404 98 HOH HOH . H 5 HOH A 105 405 80 HOH HOH . H 5 HOH A 106 406 131 HOH HOH . H 5 HOH A 107 407 139 HOH HOH . H 5 HOH A 108 408 107 HOH HOH . H 5 HOH A 109 409 88 HOH HOH . H 5 HOH A 110 410 3 HOH HOH . H 5 HOH A 111 411 121 HOH HOH . H 5 HOH A 112 412 129 HOH HOH . H 5 HOH A 113 413 83 HOH HOH . H 5 HOH A 114 414 153 HOH HOH . H 5 HOH A 115 415 141 HOH HOH . H 5 HOH A 116 416 72 HOH HOH . H 5 HOH A 117 417 123 HOH HOH . H 5 HOH A 118 418 68 HOH HOH . H 5 HOH A 119 419 146 HOH HOH . H 5 HOH A 120 420 109 HOH HOH . H 5 HOH A 121 421 65 HOH HOH . H 5 HOH A 122 422 84 HOH HOH . H 5 HOH A 123 423 120 HOH HOH . H 5 HOH A 124 424 149 HOH HOH . H 5 HOH A 125 425 155 HOH HOH . H 5 HOH A 126 426 60 HOH HOH . H 5 HOH A 127 427 145 HOH HOH . H 5 HOH A 128 428 30 HOH HOH . H 5 HOH A 129 429 97 HOH HOH . H 5 HOH A 130 430 82 HOH HOH . H 5 HOH A 131 431 69 HOH HOH . H 5 HOH A 132 432 133 HOH HOH . H 5 HOH A 133 433 77 HOH HOH . H 5 HOH A 134 434 95 HOH HOH . H 5 HOH A 135 435 138 HOH HOH . H 5 HOH A 136 436 114 HOH HOH . H 5 HOH A 137 437 127 HOH HOH . H 5 HOH A 138 438 122 HOH HOH . H 5 HOH A 139 439 128 HOH HOH . H 5 HOH A 140 440 150 HOH HOH . H 5 HOH A 141 441 113 HOH HOH . H 5 HOH A 142 442 140 HOH HOH . H 5 HOH A 143 443 85 HOH HOH . H 5 HOH A 144 444 67 HOH HOH . H 5 HOH A 145 445 22 HOH HOH . H 5 HOH A 146 446 43 HOH HOH . H 5 HOH A 147 447 110 HOH HOH . H 5 HOH A 148 448 94 HOH HOH . H 5 HOH A 149 449 64 HOH HOH . H 5 HOH A 150 450 75 HOH HOH . H 5 HOH A 151 451 93 HOH HOH . H 5 HOH A 152 452 151 HOH HOH . H 5 HOH A 153 453 147 HOH HOH . H 5 HOH A 154 454 119 HOH HOH . H 5 HOH A 155 455 73 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 MPD . . . C 3 -26.434 4.386 9.083 1 45.67 ? C1 MPD 202 A 1 HETATM 2 C C2 MPD . . . C 3 -27.018 5.615 9.767 1 46.05 ? C2 MPD 202 A 1 HETATM 3 O O2 MPD . . . C 3 -27.008 6.716 8.83 1 49.21 ? O2 MPD 202 A 1 HETATM 4 C CM MPD . . . C 3 -28.462 5.341 10.163 1 45.98 ? CM MPD 202 A 1 HETATM 5 C C3 MPD . . . C 3 -26.213 5.984 11.011 1 52.2 ? C3 MPD 202 A 1 HETATM 6 C C4 MPD . . . C 3 -24.713 6.12 10.757 1 56.53 ? C4 MPD 202 A 1 HETATM 7 O O4 MPD . . . C 3 -24.287 7.43 11.063 1 54.27 ? O4 MPD 202 A 1 HETATM 8 C C5 MPD . . . C 3 -23.928 5.142 11.626 1 62.32 ? C5 MPD 202 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 8 #