data_6HDM # _model_server_result.job_id Fne6gw_jMdS5Za5QrnoLsA _model_server_result.datetime_utc '2024-11-24 15:27:31' _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 6hdm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 6HDM # _exptl.entry_id 6HDM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 76.094 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,3-PROPANDIOL _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 6HDM _cell.length_a 37.3 _cell.length_b 54.34 _cell.length_c 104.62 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6HDM _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 6 _struct_asym.id F _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 metalc ? metalc1 A OD2 ASP 8 A ASP 8 1_555 B MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc2 A OD1 ASP 8 A ASP 8 1_555 C MG MGF . A MGF 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc3 A O ASP 10 A ASP 10 1_555 B MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc4 A O GLU 124 A GLU 124 1_555 D NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc5 A OD1 ASN 127 A ASN 127 1_555 D NA NA . A NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc6 A OD1 ASP 170 A ASP 170 1_555 B MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc7 B MG MG . A MG 301 1_555 I O HOH . A HOH 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc8 B MG MG . A MG 301 1_555 I O HOH . A HOH 495 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc9 C MG MGF . A MGF 302 1_555 E O1 BG6 . A BG6 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc10 D NA NA . A NA 303 1_555 I O HOH . A HOH 461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc11 D NA NA . A NA 303 1_555 I O HOH . A HOH 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc12 D NA NA . A NA 303 1_555 I O HOH . A HOH 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc13 D NA NA . A NA 303 1_555 I O HOH . A HOH 576 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? # _chem_comp.formula 'C3 H8 O2' _chem_comp.formula_weight 76.094 _chem_comp.id PDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,3-PROPANDIOL _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 O1 PDO sing 265 n n C1 C2 PDO sing 266 n n C1 H11 PDO sing 267 n n C1 H12 PDO sing 268 n n O1 HO1 PDO sing 269 n n C2 C3 PDO sing 270 n n C2 H21 PDO sing 271 n n C2 H22 PDO sing 272 n n C3 O3 PDO sing 273 n n C3 H31 PDO sing 274 n n C3 H32 PDO sing 275 n n O3 HO3 PDO sing 276 n n # _atom_sites.entry_id 6HDM _atom_sites.fract_transf_matrix[1][1] 0.02681 _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] 0.018403 _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] 0.009558 _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 MG A 1 301 1 MG MG . C 3 MGF A 1 302 1 MGF MGF . D 4 NA A 1 303 1 NA NA . E 5 BG6 A 1 304 1 BG6 BG6 . F 6 PDO A 1 305 1 PDO PDO . G 7 EDO A 1 306 1 EDO EDO . H 7 EDO A 1 307 2 EDO EDO . I 8 HOH A 1 401 176 HOH HOH . I 8 HOH A 2 402 114 HOH HOH . I 8 HOH A 3 403 85 HOH HOH . I 8 HOH A 4 404 166 HOH HOH . I 8 HOH A 5 405 36 HOH HOH . I 8 HOH A 6 406 184 HOH HOH . I 8 HOH A 7 407 132 HOH HOH . I 8 HOH A 8 408 58 HOH HOH . I 8 HOH A 9 409 200 HOH HOH . I 8 HOH A 10 410 18 HOH HOH . I 8 HOH A 11 411 21 HOH HOH . I 8 HOH A 12 412 203 HOH HOH . I 8 HOH A 13 413 136 HOH HOH . I 8 HOH A 14 414 207 HOH HOH . I 8 HOH A 15 415 71 HOH HOH . I 8 HOH A 16 416 143 HOH HOH . I 8 HOH A 17 417 103 HOH HOH . I 8 HOH A 18 418 51 HOH HOH . I 8 HOH A 19 419 43 HOH HOH . I 8 HOH A 20 420 69 HOH HOH . I 8 HOH A 21 421 39 HOH HOH . I 8 HOH A 22 422 65 HOH HOH . I 8 HOH A 23 423 135 HOH HOH . I 8 HOH A 24 424 224 HOH HOH . I 8 HOH A 25 425 153 HOH HOH . I 8 HOH A 26 426 32 HOH HOH . I 8 HOH A 27 427 221 HOH HOH . I 8 HOH A 28 428 19 HOH HOH . I 8 HOH A 29 429 138 HOH HOH . I 8 HOH A 30 430 96 HOH HOH . I 8 HOH A 31 431 54 HOH HOH . I 8 HOH A 32 432 92 HOH HOH . I 8 HOH A 33 433 26 HOH HOH . I 8 HOH A 34 434 148 HOH HOH . I 8 HOH A 35 435 2 HOH HOH . I 8 HOH A 36 436 154 HOH HOH . I 8 HOH A 37 437 75 HOH HOH . I 8 HOH A 38 438 38 HOH HOH . I 8 HOH A 39 439 204 HOH HOH . I 8 HOH A 40 440 164 HOH HOH . I 8 HOH A 41 441 4 HOH HOH . I 8 HOH A 42 442 216 HOH HOH . I 8 HOH A 43 443 120 HOH HOH . I 8 HOH A 44 444 217 HOH HOH . I 8 HOH A 45 445 45 HOH HOH . I 8 HOH A 46 446 7 HOH HOH . I 8 HOH A 47 447 64 HOH HOH . I 8 HOH A 48 448 16 HOH HOH . I 8 HOH A 49 449 33 HOH HOH . I 8 HOH A 50 450 186 HOH HOH . I 8 HOH A 51 451 90 HOH HOH . I 8 HOH A 52 452 24 HOH HOH . I 8 HOH A 53 453 44 HOH HOH . I 8 HOH A 54 454 34 HOH HOH . I 8 HOH A 55 455 27 HOH HOH . I 8 HOH A 56 456 115 HOH HOH . I 8 HOH A 57 457 70 HOH HOH . I 8 HOH A 58 458 20 HOH HOH . I 8 HOH A 59 459 94 HOH HOH . I 8 HOH A 60 460 11 HOH HOH . I 8 HOH A 61 461 72 HOH HOH . I 8 HOH A 62 462 5 HOH HOH . I 8 HOH A 63 463 3 HOH HOH . I 8 HOH A 64 464 80 HOH HOH . I 8 HOH A 65 465 87 HOH HOH . I 8 HOH A 66 466 41 HOH HOH . I 8 HOH A 67 467 78 HOH HOH . I 8 HOH A 68 468 109 HOH HOH . I 8 HOH A 69 469 112 HOH HOH . I 8 HOH A 70 470 101 HOH HOH . I 8 HOH A 71 471 52 HOH HOH . I 8 HOH A 72 472 61 HOH HOH . I 8 HOH A 73 473 29 HOH HOH . I 8 HOH A 74 474 17 HOH HOH . I 8 HOH A 75 475 25 HOH HOH . I 8 HOH A 76 476 83 HOH HOH . I 8 HOH A 77 477 10 HOH HOH . I 8 HOH A 78 478 8 HOH HOH . I 8 HOH A 79 479 197 HOH HOH . I 8 HOH A 80 480 122 HOH HOH . I 8 HOH A 81 481 31 HOH HOH . I 8 HOH A 82 482 15 HOH HOH . I 8 HOH A 83 483 152 HOH HOH . I 8 HOH A 84 484 175 HOH HOH . I 8 HOH A 85 485 129 HOH HOH . I 8 HOH A 86 486 79 HOH HOH . I 8 HOH A 87 487 170 HOH HOH . I 8 HOH A 88 488 60 HOH HOH . I 8 HOH A 89 489 49 HOH HOH . I 8 HOH A 90 490 126 HOH HOH . I 8 HOH A 91 491 104 HOH HOH . I 8 HOH A 92 492 37 HOH HOH . I 8 HOH A 93 493 167 HOH HOH . I 8 HOH A 94 494 47 HOH HOH . I 8 HOH A 95 495 1 HOH HOH . I 8 HOH A 96 496 82 HOH HOH . I 8 HOH A 97 497 66 HOH HOH . I 8 HOH A 98 498 98 HOH HOH . I 8 HOH A 99 499 67 HOH HOH . I 8 HOH A 100 500 125 HOH HOH . I 8 HOH A 101 501 177 HOH HOH . I 8 HOH A 102 502 116 HOH HOH . I 8 HOH A 103 503 14 HOH HOH . I 8 HOH A 104 504 89 HOH HOH . I 8 HOH A 105 505 23 HOH HOH . I 8 HOH A 106 506 163 HOH HOH . I 8 HOH A 107 507 12 HOH HOH . I 8 HOH A 108 508 62 HOH HOH . I 8 HOH A 109 509 178 HOH HOH . I 8 HOH A 110 510 97 HOH HOH . I 8 HOH A 111 511 156 HOH HOH . I 8 HOH A 112 512 9 HOH HOH . I 8 HOH A 113 513 188 HOH HOH . I 8 HOH A 114 514 48 HOH HOH . I 8 HOH A 115 515 201 HOH HOH . I 8 HOH A 116 516 140 HOH HOH . I 8 HOH A 117 517 6 HOH HOH . I 8 HOH A 118 518 76 HOH HOH . I 8 HOH A 119 519 139 HOH HOH . I 8 HOH A 120 520 13 HOH HOH . I 8 HOH A 121 521 168 HOH HOH . I 8 HOH A 122 522 141 HOH HOH . I 8 HOH A 123 523 130 HOH HOH . I 8 HOH A 124 524 172 HOH HOH . I 8 HOH A 125 525 30 HOH HOH . I 8 HOH A 126 526 105 HOH HOH . I 8 HOH A 127 527 42 HOH HOH . I 8 HOH A 128 528 106 HOH HOH . I 8 HOH A 129 529 223 HOH HOH . I 8 HOH A 130 530 95 HOH HOH . I 8 HOH A 131 531 40 HOH HOH . I 8 HOH A 132 532 102 HOH HOH . I 8 HOH A 133 533 219 HOH HOH . I 8 HOH A 134 534 56 HOH HOH . I 8 HOH A 135 535 202 HOH HOH . I 8 HOH A 136 536 193 HOH HOH . I 8 HOH A 137 537 169 HOH HOH . I 8 HOH A 138 538 63 HOH HOH . I 8 HOH A 139 539 185 HOH HOH . I 8 HOH A 140 540 22 HOH HOH . I 8 HOH A 141 541 150 HOH HOH . I 8 HOH A 142 542 171 HOH HOH . I 8 HOH A 143 543 46 HOH HOH . I 8 HOH A 144 544 50 HOH HOH . I 8 HOH A 145 545 173 HOH HOH . I 8 HOH A 146 546 211 HOH HOH . I 8 HOH A 147 547 121 HOH HOH . I 8 HOH A 148 548 174 HOH HOH . I 8 HOH A 149 549 99 HOH HOH . I 8 HOH A 150 550 165 HOH HOH . I 8 HOH A 151 551 88 HOH HOH . I 8 HOH A 152 552 28 HOH HOH . I 8 HOH A 153 553 218 HOH HOH . I 8 HOH A 154 554 86 HOH HOH . I 8 HOH A 155 555 137 HOH HOH . I 8 HOH A 156 556 124 HOH HOH . I 8 HOH A 157 557 155 HOH HOH . I 8 HOH A 158 558 127 HOH HOH . I 8 HOH A 159 559 91 HOH HOH . I 8 HOH A 160 560 198 HOH HOH . I 8 HOH A 161 561 149 HOH HOH . I 8 HOH A 162 562 118 HOH HOH . I 8 HOH A 163 563 181 HOH HOH . I 8 HOH A 164 564 189 HOH HOH . I 8 HOH A 165 565 180 HOH HOH . I 8 HOH A 166 566 113 HOH HOH . I 8 HOH A 167 567 160 HOH HOH . I 8 HOH A 168 568 205 HOH HOH . I 8 HOH A 169 569 182 HOH HOH . I 8 HOH A 170 570 209 HOH HOH . I 8 HOH A 171 571 142 HOH HOH . I 8 HOH A 172 572 187 HOH HOH . I 8 HOH A 173 573 68 HOH HOH . I 8 HOH A 174 574 161 HOH HOH . I 8 HOH A 175 575 107 HOH HOH . I 8 HOH A 176 576 77 HOH HOH . I 8 HOH A 177 577 53 HOH HOH . I 8 HOH A 178 578 192 HOH HOH . I 8 HOH A 179 579 210 HOH HOH . I 8 HOH A 180 580 196 HOH HOH . I 8 HOH A 181 581 195 HOH HOH . I 8 HOH A 182 582 194 HOH HOH . I 8 HOH A 183 583 220 HOH HOH . I 8 HOH A 184 584 35 HOH HOH . I 8 HOH A 185 585 190 HOH HOH . I 8 HOH A 186 586 74 HOH HOH . I 8 HOH A 187 587 133 HOH HOH . I 8 HOH A 188 588 146 HOH HOH . I 8 HOH A 189 589 134 HOH HOH . I 8 HOH A 190 590 59 HOH HOH . I 8 HOH A 191 591 225 HOH HOH . I 8 HOH A 192 592 212 HOH HOH . I 8 HOH A 193 593 179 HOH HOH . I 8 HOH A 194 594 108 HOH HOH . I 8 HOH A 195 595 222 HOH HOH . I 8 HOH A 196 596 157 HOH HOH . I 8 HOH A 197 597 119 HOH HOH . I 8 HOH A 198 598 159 HOH HOH . I 8 HOH A 199 599 84 HOH HOH . I 8 HOH A 200 600 206 HOH HOH . I 8 HOH A 201 601 100 HOH HOH . I 8 HOH A 202 602 144 HOH HOH . I 8 HOH A 203 603 158 HOH HOH . I 8 HOH A 204 604 191 HOH HOH . I 8 HOH A 205 605 151 HOH HOH . I 8 HOH A 206 606 183 HOH HOH . I 8 HOH A 207 607 162 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 PDO . . . F 6 -1.578 0.823 -3.733 1 23.62 ? C1 PDO 305 A 1 HETATM 2 O O1 PDO . . . F 6 -1.56 -0.603 -3.762 1 29.86 ? O1 PDO 305 A 1 HETATM 3 C C2 PDO . . . F 6 -1.791 1.573 -2.402 1 17.63 ? C2 PDO 305 A 1 HETATM 4 C C3 PDO . . . F 6 -2.386 0.854 -1.214 1 22.55 ? C3 PDO 305 A 1 HETATM 5 O O3 PDO . . . F 6 -1.451 0.659 -0.115 1 35.83 ? O3 PDO 305 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 5 #