data_2GKL # _model_server_result.job_id 13uOPP38VUe7MYsAsNVCzA _model_server_result.datetime_utc '2024-12-02 14:00:12' _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 2gkl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":5}' # _entry.id 2GKL # _exptl.entry_id 2GKL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 3 _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 2GKL _cell.length_a 42.638 _cell.length_b 101.211 _cell.length_c 117.121 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2GKL _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N 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 C N1 PD2 . A PD2 2 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc2 C O22 PD2 . A PD2 2 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc3 A OD2 ASP 72 A ASP 120 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc4 A SG CYS 166 A CYS 221 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc5 A NE2 HIS 204 A HIS 263 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 2GKL _atom_sites.fract_transf_matrix[1][1] 0.023453 _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] 0.00988 _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] 0.008538 _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 ZN A 1 401 401 ZN ZN . C 3 PD2 A 1 2 2 PD2 PD2 . D 4 GOL A 1 3 3 GOL GOL . E 4 GOL A 1 4 4 GOL GOL . F 4 GOL A 1 5 5 GOL GOL . G 5 HOH A 1 402 8 HOH HOH . G 5 HOH A 2 403 9 HOH HOH . G 5 HOH A 3 404 10 HOH HOH . G 5 HOH A 4 405 11 HOH HOH . G 5 HOH A 5 406 12 HOH HOH . G 5 HOH A 6 407 13 HOH HOH . G 5 HOH A 7 408 14 HOH HOH . G 5 HOH A 8 409 15 HOH HOH . G 5 HOH A 9 410 16 HOH HOH . G 5 HOH A 10 411 17 HOH HOH . G 5 HOH A 11 412 18 HOH HOH . G 5 HOH A 12 413 19 HOH HOH . G 5 HOH A 13 414 20 HOH HOH . G 5 HOH A 14 415 21 HOH HOH . G 5 HOH A 15 416 22 HOH HOH . G 5 HOH A 16 417 23 HOH HOH . G 5 HOH A 17 418 24 HOH HOH . G 5 HOH A 18 419 25 HOH HOH . G 5 HOH A 19 420 26 HOH HOH . G 5 HOH A 20 421 27 HOH HOH . G 5 HOH A 21 422 28 HOH HOH . G 5 HOH A 22 423 29 HOH HOH . G 5 HOH A 23 424 30 HOH HOH . G 5 HOH A 24 425 31 HOH HOH . G 5 HOH A 25 426 32 HOH HOH . G 5 HOH A 26 427 33 HOH HOH . G 5 HOH A 27 428 34 HOH HOH . G 5 HOH A 28 429 35 HOH HOH . G 5 HOH A 29 430 36 HOH HOH . G 5 HOH A 30 431 37 HOH HOH . G 5 HOH A 31 432 38 HOH HOH . G 5 HOH A 32 433 39 HOH HOH . G 5 HOH A 33 434 40 HOH HOH . G 5 HOH A 34 435 41 HOH HOH . G 5 HOH A 35 436 42 HOH HOH . G 5 HOH A 36 437 43 HOH HOH . G 5 HOH A 37 438 44 HOH HOH . G 5 HOH A 38 439 45 HOH HOH . G 5 HOH A 39 440 46 HOH HOH . G 5 HOH A 40 441 47 HOH HOH . G 5 HOH A 41 442 48 HOH HOH . G 5 HOH A 42 443 49 HOH HOH . G 5 HOH A 43 444 50 HOH HOH . G 5 HOH A 44 445 51 HOH HOH . G 5 HOH A 45 446 52 HOH HOH . G 5 HOH A 46 447 53 HOH HOH . G 5 HOH A 47 448 54 HOH HOH . G 5 HOH A 48 449 55 HOH HOH . G 5 HOH A 49 450 56 HOH HOH . G 5 HOH A 50 451 57 HOH HOH . G 5 HOH A 51 452 58 HOH HOH . G 5 HOH A 52 453 59 HOH HOH . G 5 HOH A 53 454 60 HOH HOH . G 5 HOH A 54 455 61 HOH HOH . G 5 HOH A 55 456 62 HOH HOH . G 5 HOH A 56 457 63 HOH HOH . G 5 HOH A 57 458 64 HOH HOH . G 5 HOH A 58 459 65 HOH HOH . G 5 HOH A 59 460 66 HOH HOH . G 5 HOH A 60 461 67 HOH HOH . G 5 HOH A 61 462 68 HOH HOH . G 5 HOH A 62 463 69 HOH HOH . G 5 HOH A 63 464 70 HOH HOH . G 5 HOH A 64 465 71 HOH HOH . G 5 HOH A 65 466 72 HOH HOH . G 5 HOH A 66 467 73 HOH HOH . G 5 HOH A 67 468 74 HOH HOH . G 5 HOH A 68 469 75 HOH HOH . G 5 HOH A 69 470 76 HOH HOH . G 5 HOH A 70 471 77 HOH HOH . G 5 HOH A 71 472 78 HOH HOH . G 5 HOH A 72 473 79 HOH HOH . G 5 HOH A 73 474 80 HOH HOH . G 5 HOH A 74 475 81 HOH HOH . G 5 HOH A 75 476 82 HOH HOH . G 5 HOH A 76 477 83 HOH HOH . G 5 HOH A 77 478 84 HOH HOH . G 5 HOH A 78 479 85 HOH HOH . G 5 HOH A 79 480 86 HOH HOH . G 5 HOH A 80 481 87 HOH HOH . G 5 HOH A 81 482 88 HOH HOH . G 5 HOH A 82 483 89 HOH HOH . G 5 HOH A 83 484 90 HOH HOH . G 5 HOH A 84 485 91 HOH HOH . G 5 HOH A 85 486 92 HOH HOH . G 5 HOH A 86 487 93 HOH HOH . G 5 HOH A 87 488 94 HOH HOH . G 5 HOH A 88 489 95 HOH HOH . G 5 HOH A 89 490 96 HOH HOH . G 5 HOH A 90 491 97 HOH HOH . G 5 HOH A 91 492 98 HOH HOH . G 5 HOH A 92 493 99 HOH HOH . G 5 HOH A 93 494 100 HOH HOH . G 5 HOH A 94 495 101 HOH HOH . G 5 HOH A 95 496 102 HOH HOH . G 5 HOH A 96 497 103 HOH HOH . G 5 HOH A 97 498 104 HOH HOH . G 5 HOH A 98 499 105 HOH HOH . G 5 HOH A 99 500 106 HOH HOH . G 5 HOH A 100 501 107 HOH HOH . G 5 HOH A 101 502 108 HOH HOH . G 5 HOH A 102 503 109 HOH HOH . G 5 HOH A 103 504 110 HOH HOH . G 5 HOH A 104 505 111 HOH HOH . G 5 HOH A 105 506 112 HOH HOH . G 5 HOH A 106 507 113 HOH HOH . G 5 HOH A 107 508 114 HOH HOH . G 5 HOH A 108 509 115 HOH HOH . G 5 HOH A 109 510 116 HOH HOH . G 5 HOH A 110 511 117 HOH HOH . G 5 HOH A 111 512 118 HOH HOH . G 5 HOH A 112 513 119 HOH HOH . G 5 HOH A 113 514 120 HOH HOH . G 5 HOH A 114 515 121 HOH HOH . G 5 HOH A 115 516 122 HOH HOH . G 5 HOH A 116 517 123 HOH HOH . G 5 HOH A 117 518 124 HOH HOH . G 5 HOH A 118 519 125 HOH HOH . G 5 HOH A 119 520 126 HOH HOH . G 5 HOH A 120 521 127 HOH HOH . G 5 HOH A 121 522 128 HOH HOH . G 5 HOH A 122 523 129 HOH HOH . G 5 HOH A 123 524 130 HOH HOH . G 5 HOH A 124 525 131 HOH HOH . G 5 HOH A 125 526 132 HOH HOH . G 5 HOH A 126 527 133 HOH HOH . G 5 HOH A 127 528 134 HOH HOH . G 5 HOH A 128 529 135 HOH HOH . G 5 HOH A 129 530 136 HOH HOH . G 5 HOH A 130 531 137 HOH HOH . G 5 HOH A 131 532 138 HOH HOH . G 5 HOH A 132 533 139 HOH HOH . G 5 HOH A 133 534 140 HOH HOH . G 5 HOH A 134 535 141 HOH HOH . G 5 HOH A 135 536 142 HOH HOH . G 5 HOH A 136 537 143 HOH HOH . G 5 HOH A 137 538 144 HOH HOH . G 5 HOH A 138 539 145 HOH HOH . G 5 HOH A 139 540 146 HOH HOH . G 5 HOH A 140 541 147 HOH HOH . G 5 HOH A 141 542 148 HOH HOH . G 5 HOH A 142 543 149 HOH HOH . G 5 HOH A 143 544 150 HOH HOH . G 5 HOH A 144 545 151 HOH HOH . G 5 HOH A 145 546 152 HOH HOH . G 5 HOH A 146 547 153 HOH HOH . G 5 HOH A 147 548 154 HOH HOH . G 5 HOH A 148 549 155 HOH HOH . G 5 HOH A 149 550 156 HOH HOH . G 5 HOH A 150 551 157 HOH HOH . G 5 HOH A 151 552 158 HOH HOH . G 5 HOH A 152 553 159 HOH HOH . G 5 HOH A 153 554 160 HOH HOH . G 5 HOH A 154 555 161 HOH HOH . G 5 HOH A 155 556 162 HOH HOH . G 5 HOH A 156 557 163 HOH HOH . G 5 HOH A 157 558 164 HOH HOH . G 5 HOH A 158 559 165 HOH HOH . G 5 HOH A 159 560 166 HOH HOH . G 5 HOH A 160 561 167 HOH HOH . G 5 HOH A 161 562 168 HOH HOH . G 5 HOH A 162 563 169 HOH HOH . G 5 HOH A 163 564 170 HOH HOH . G 5 HOH A 164 565 171 HOH HOH . G 5 HOH A 165 566 172 HOH HOH . G 5 HOH A 166 567 173 HOH HOH . G 5 HOH A 167 568 174 HOH HOH . G 5 HOH A 168 569 175 HOH HOH . G 5 HOH A 169 570 176 HOH HOH . G 5 HOH A 170 571 177 HOH HOH . G 5 HOH A 171 572 178 HOH HOH . G 5 HOH A 172 573 179 HOH HOH . G 5 HOH A 173 574 180 HOH HOH . G 5 HOH A 174 575 181 HOH HOH . G 5 HOH A 175 576 182 HOH HOH . G 5 HOH A 176 577 184 HOH HOH . G 5 HOH A 177 578 186 HOH HOH . G 5 HOH A 178 579 187 HOH HOH . G 5 HOH A 179 580 188 HOH HOH . G 5 HOH A 180 581 191 HOH HOH . G 5 HOH A 181 582 192 HOH HOH . G 5 HOH A 182 583 193 HOH HOH . G 5 HOH A 183 584 194 HOH HOH . G 5 HOH A 184 585 195 HOH HOH . G 5 HOH A 185 586 196 HOH HOH . G 5 HOH A 186 587 197 HOH HOH . G 5 HOH A 187 588 198 HOH HOH . G 5 HOH A 188 589 199 HOH HOH . G 5 HOH A 189 590 200 HOH HOH . G 5 HOH A 190 591 201 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 GOL . . . F 4 30.66 32.069 64.651 1 45.28 ? C1 GOL 5 A 1 HETATM 2 O O1 GOL . . . F 4 30.673 31.172 65.722 1 45.82 ? O1 GOL 5 A 1 HETATM 3 C C2 GOL . . . F 4 31.157 31.326 63.445 1 45.8 ? C2 GOL 5 A 1 HETATM 4 O O2 GOL . . . F 4 32.556 31.242 63.567 1 45.89 ? O2 GOL 5 A 1 HETATM 5 C C3 GOL . . . F 4 30.801 32.116 62.199 1 47.7 ? C3 GOL 5 A 1 HETATM 6 O O3 GOL . . . F 4 29.402 32.172 62.009 1 50 ? O3 GOL 5 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #